sbuild (Debian sbuild) 0.63.1 (31 May 2012) on build07.raspbian.lan ╔══════════════════════════════════════════════════════════════════════════════╗ ║ r-base 2.15.1-4 (armhf) 30 Jul 2012 13:22 ║ ╚══════════════════════════════════════════════════════════════════════════════╝ Package: r-base Version: 2.15.1-4 Source Version: 2.15.1-4 Distribution: wheezy-staging Machine Architecture: armhf Host Architecture: armhf Build Architecture: armhf W: line 7 [testing-armhf-sbuild]: Deprecated key ‘script-config’ used I: This option will be removed in the future; please update your configuration W: line 7 [wheezy-staging-armhf-sbuild]: Deprecated key ‘script-config’ used I: NOTICE: Log filtering will replace 'build/r-base-PCoYmY/r-base-2.15.1' with '«PKGBUILDDIR»' I: NOTICE: Log filtering will replace 'build/r-base-PCoYmY' with '«BUILDDIR»' I: NOTICE: Log filtering will replace 'var/lib/schroot/mount/wheezy-staging-armhf-sbuild-5f964193-af09-4399-860c-f78ecb4b2378' with '«CHROOT»' ┌──────────────────────────────────────────────────────────────────────────────┐ │ Update chroot │ └──────────────────────────────────────────────────────────────────────────────┘ Hit http://archive.raspbian.lan wheezy-staging InRelease Hit http://archive.raspbian.lan wheezy-staging/main Sources Hit http://archive.raspbian.lan wheezy-staging/main armhf Packages Ign http://archive.raspbian.lan wheezy-staging/main Translation-en Reading package lists... ┌──────────────────────────────────────────────────────────────────────────────┐ │ Fetch source files │ └──────────────────────────────────────────────────────────────────────────────┘ Check APT ───────── Checking available source versions... Download source files with APT ────────────────────────────── Reading package lists... Building dependency tree... Reading state information... Need to get 24.7 MB of source archives. Get:1 http://archive.raspbian.lan/raspbian/ wheezy-staging/main r-base 2.15.1-4 (dsc) [2087 B] Get:2 http://archive.raspbian.lan/raspbian/ wheezy-staging/main r-base 2.15.1-4 (tar) [24.6 MB] Get:3 http://archive.raspbian.lan/raspbian/ wheezy-staging/main r-base 2.15.1-4 (diff) [86.7 kB] Fetched 24.7 MB in 7s (3328 kB/s) Download complete and in download only mode Check arch ────────── Merged Build-Depends: build-essential, fakeroot Filtered Build-Depends: build-essential, fakeroot dpkg-deb: building package `sbuild-build-depends-core-dummy' in `/«BUILDDIR»/resolver-bMYU6C/apt_archive/sbuild-build-depends-core-dummy.deb'. OK Reading package lists... ┌──────────────────────────────────────────────────────────────────────────────┐ │ Install core build dependencies (apt-based resolver) │ └──────────────────────────────────────────────────────────────────────────────┘ Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following NEW packages will be installed: sbuild-build-depends-core-dummy debconf: delaying package configuration, since apt-utils is not installed 0 upgraded, 1 newly installed, 0 to remove and 2 not upgraded. Need to get 0 B/704 B of archives. After this operation, 0 B of additional disk space will be used. Selecting previously unselected package sbuild-build-depends-core-dummy. (Reading database ... 10701 files and directories currently installed.) Unpacking sbuild-build-depends-core-dummy (from .../sbuild-build-depends-core-dummy.deb) ... Setting up sbuild-build-depends-core-dummy (0.invalid.0) ... Merged Build-Depends: libc6-dev | libc-dev, gcc (>= 4:4.4.3), g++ (>= 4:4.4.3), make, dpkg-dev (>= 1.13.5), gcc (>= 4:4.1.0), g++ (>= 4:4.1.0), gfortran (>= 4:4.1.0), libblas-dev, liblapack-dev (>= 3.1.1), tcl8.5-dev, tk8.5-dev, bison, groff-base, libncurses5-dev, libreadline-dev, debhelper (>= 7.2.3), texi2html, texinfo (>= 4.1-2), libbz2-dev, liblzma-dev, libpcre3-dev, xdg-utils, zlib1g-dev, libpng-dev, libjpeg-dev, libx11-dev, libxt-dev, x11proto-core-dev, libpango1.0-dev, libcairo2-dev, libtiff4-dev, xvfb, xauth, xfonts-base, texlive-base, texlive-latex-base, texlive-generic-recommended, texlive-fonts-recommended, texlive-fonts-extra, texlive-extra-utils, texlive-latex-recommended, texlive-latex-extra, openjdk-6-jdk, mpack Filtered Build-Depends: libc6-dev, gcc (>= 4:4.4.3), g++ (>= 4:4.4.3), make, dpkg-dev (>= 1.13.5), gcc (>= 4:4.1.0), g++ (>= 4:4.1.0), gfortran (>= 4:4.1.0), libblas-dev, liblapack-dev (>= 3.1.1), tcl8.5-dev, tk8.5-dev, bison, groff-base, libncurses5-dev, libreadline-dev, debhelper (>= 7.2.3), texi2html, texinfo (>= 4.1-2), libbz2-dev, liblzma-dev, libpcre3-dev, xdg-utils, zlib1g-dev, libpng-dev, libjpeg-dev, libx11-dev, libxt-dev, x11proto-core-dev, libpango1.0-dev, libcairo2-dev, libtiff4-dev, xvfb, xauth, xfonts-base, texlive-base, texlive-latex-base, texlive-generic-recommended, texlive-fonts-recommended, texlive-fonts-extra, texlive-extra-utils, texlive-latex-recommended, texlive-latex-extra, openjdk-6-jdk, mpack dpkg-deb: building package `sbuild-build-depends-r-base-dummy' in `/«BUILDDIR»/resolver-yAx0D4/apt_archive/sbuild-build-depends-r-base-dummy.deb'. OK Reading package lists... ┌──────────────────────────────────────────────────────────────────────────────┐ │ Install r-base build dependencies (apt-based resolver) │ └──────────────────────────────────────────────────────────────────────────────┘ Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following extra packages will be installed: bison bsdmainutils ca-certificates ca-certificates-java debhelper ed file fontconfig fontconfig-config fonts-comfortaa fonts-droid fonts-freefont-otf fonts-freefont-ttf fonts-gfs-artemisia fonts-gfs-complutum fonts-gfs-didot fonts-gfs-neohellenic fonts-gfs-olga fonts-gfs-solomos fonts-inconsolata fonts-junicode fonts-linuxlibertine fonts-oflb-asana-math fonts-sil-gentium fonts-sil-gentium-basic fonts-stix gettext gettext-base gfortran gfortran-4.6 gir1.2-freedesktop gir1.2-glib-2.0 gir1.2-pango-1.0 groff-base html2text intltool-debian java-common libasound2 libasprintf0c2 libasyncns0 libatk-wrapper-java libatk-wrapper-java-jni libatk1.0-0 libatk1.0-data libaudit0 libavahi-client3 libavahi-common-data libavahi-common3 libbison-dev libblas-dev libblas3 libbz2-dev libcairo-gobject2 libcairo-script-interpreter2 libcairo2 libcairo2-dev libcap2 libcroco3 libcups2 libdatrie1 libdbus-1-3 libelf1 libexpat1 libexpat1-dev libffi5 libflac8 libfontconfig1 libfontconfig1-dev libfontenc1 libfreetype6 libfreetype6-dev libgcrypt11 libgdk-pixbuf2.0-0 libgdk-pixbuf2.0-common libgettextpo0 libgfortran3 libgif4 libgirepository-1.0-1 libglib2.0-0 libglib2.0-bin libglib2.0-data libglib2.0-dev libgnutls26 libgpg-error0 libgraphite3 libgssapi-krb5-2 libgtk2.0-0 libgtk2.0-common libice-dev libice6 libjasper1 libjbig-dev libjbig0 libjpeg8 libjpeg8-dev libjson0 libk5crypto3 libkeyutils1 libkpathsea6 libkrb5-3 libkrb5support0 liblapack-dev liblapack3 liblcms1 liblzma-dev libmagic1 libncurses5-dev libncursesw5 libnspr4 libnss3 libnss3-1d libogg0 libopenjpeg2 libp11-kit0 libpango1.0-0 libpango1.0-dev libpaper-utils libpaper1 libpcre3 libpcre3-dev libpcrecpp0 libpcsclite1 libpipeline1 libpixman-1-0 libpixman-1-dev libpng12-0 libpng12-dev libpoppler19 libpopt0 libptexenc1 libpthread-stubs0 libpthread-stubs0-dev libpulse0 libreadline-dev libreadline6-dev libsm-dev libsm6 libsndfile1 libsqlite3-0 libssl1.0.0 libtasn1-3 libthai-data libthai0 libtiff4 libtiff4-dev libtiffxx0c2 libtinfo-dev libunistring0 libvorbis0a libvorbisenc2 libwrap0 libx11-6 libx11-data libx11-dev libx11-xcb1 libxau-dev libxau6 libxaw7 libxcb-render0 libxcb-render0-dev libxcb-shm0 libxcb-shm0-dev libxcb1 libxcb1-dev libxcomposite1 libxcursor1 libxdamage1 libxdmcp-dev libxdmcp6 libxext-dev libxext6 libxfixes3 libxfont1 libxft-dev libxft2 libxi6 libxinerama1 libxkbfile1 libxml2 libxmu6 libxmuu1 libxpm4 libxrandr2 libxrender-dev libxrender1 libxss-dev libxss1 libxt-dev libxt6 libxtst6 luatex m4 man-db mime-support mpack openjdk-6-jdk openjdk-6-jre openjdk-6-jre-headless openjdk-6-jre-lib openssl otf-freefont pkg-config po-debconf preview-latex-style python python-minimal python2.7 python2.7-minimal shared-mime-info tcl8.5 tcl8.5-dev tex-common texi2html texinfo texlive-base texlive-binaries texlive-common texlive-doc-base texlive-extra-utils texlive-fonts-extra texlive-fonts-recommended texlive-generic-recommended texlive-latex-base texlive-latex-extra texlive-latex-recommended texlive-pictures tk8.5 tk8.5-dev ttf-dejavu-core ttf-dejavu-extra ttf-freefont ttf-marvosym tzdata-java x11-common x11-xkb-utils x11proto-core-dev x11proto-input-dev x11proto-kb-dev x11proto-render-dev x11proto-scrnsaver-dev x11proto-xext-dev xauth xdg-utils xfonts-base xfonts-encodings xfonts-utils xkb-data xorg-sgml-doctools xserver-common xtrans-dev xvfb zlib1g-dev Suggested packages: bison-doc wamerican wordlist whois vacation dh-make fontforge gettext-doc gfortran-doc gfortran-4.6-doc libgfortran3-dbg groff default-jre equivs libasound2-plugins libcairo2-doc cups-common rng-tools libglib2.0-doc krb5-doc krb5-user librsvg2-common gvfs libice-doc libjasper-runtime liblcms-utils liblzma-doc ncurses-doc ttf-baekmuk ttf-arphic-gbsn00lp ttf-arphic-bsmi00lp ttf-arphic-gkai00mp ttf-arphic-bkai00mp libpango1.0-doc imagemagick pcscd pulseaudio libsm-doc libxcb-doc libxext-doc libxt-doc less www-browser mail-transport-agent inews openjdk-6-demo openjdk-6-source visualvm icedtea-plugin libnss-mdns sun-java6-fonts fonts-ipafont-gothic fonts-ipafont-mincho ttf-wqy-microhei ttf-wqy-zenhei ttf-indic-fonts libmail-box-perl python-doc python-tk python2.7-doc binfmt-support tcl-tclreadline tcl8.5-doc latex2html texinfo-doc-nonfree perl-tk xpdf-reader pdf-viewer ghostscript gv postscript-viewer purifyeps chktex latexmk dvipng xindy dvidvi fragmaster lacheck latexdiff cm-super libfile-which-perl dot2tex tk8.5-doc gvfs-bin xfs xserver Recommended packages: texlive-xetex curl wget lynx-cur autopoint dbus hicolor-icon-theme libgtk2.0-bin krb5-locales libgpm2 poppler-data tcpd libx11-doc xml-core texlive-luatex icedtea-netx icedtea-6-jre-cacao icedtea-6-jre-jamvm libmail-sendmail-perl lmodern ruby wish texlive-fonts-extra-doc texlive-fonts-recommended-doc tex-gyre tipa texlive-latex-base-doc texlive-latex-extra-doc latex-xcolor texlive-latex-recommended-doc latex-beamer prosper texlive-pictures-doc pgf xterm x-terminal-emulator libfile-mimeinfo-perl libnet-dbus-perl libx11-protocol-perl x11-utils x11-xserver-utils The following NEW packages will be installed: bison bsdmainutils ca-certificates ca-certificates-java debhelper ed file fontconfig fontconfig-config fonts-comfortaa fonts-droid fonts-freefont-otf fonts-freefont-ttf fonts-gfs-artemisia fonts-gfs-complutum fonts-gfs-didot fonts-gfs-neohellenic fonts-gfs-olga fonts-gfs-solomos fonts-inconsolata fonts-junicode fonts-linuxlibertine fonts-oflb-asana-math fonts-sil-gentium fonts-sil-gentium-basic fonts-stix gettext gettext-base gfortran gfortran-4.6 gir1.2-freedesktop gir1.2-glib-2.0 gir1.2-pango-1.0 groff-base html2text intltool-debian java-common libasound2 libasprintf0c2 libasyncns0 libatk-wrapper-java libatk-wrapper-java-jni libatk1.0-0 libatk1.0-data libaudit0 libavahi-client3 libavahi-common-data libavahi-common3 libbison-dev libblas-dev libblas3 libbz2-dev libcairo-gobject2 libcairo-script-interpreter2 libcairo2 libcairo2-dev libcap2 libcroco3 libcups2 libdatrie1 libdbus-1-3 libelf1 libexpat1 libexpat1-dev libffi5 libflac8 libfontconfig1 libfontconfig1-dev libfontenc1 libfreetype6 libfreetype6-dev libgcrypt11 libgdk-pixbuf2.0-0 libgdk-pixbuf2.0-common libgettextpo0 libgfortran3 libgif4 libgirepository-1.0-1 libglib2.0-0 libglib2.0-bin libglib2.0-data libglib2.0-dev libgnutls26 libgpg-error0 libgraphite3 libgssapi-krb5-2 libgtk2.0-0 libgtk2.0-common libice-dev libice6 libjasper1 libjbig-dev libjbig0 libjpeg8 libjpeg8-dev libjson0 libk5crypto3 libkeyutils1 libkpathsea6 libkrb5-3 libkrb5support0 liblapack-dev liblapack3 liblcms1 liblzma-dev libmagic1 libncurses5-dev libncursesw5 libnspr4 libnss3 libnss3-1d libogg0 libopenjpeg2 libp11-kit0 libpango1.0-0 libpango1.0-dev libpaper-utils libpaper1 libpcre3 libpcre3-dev libpcrecpp0 libpcsclite1 libpipeline1 libpixman-1-0 libpixman-1-dev libpng12-0 libpng12-dev libpoppler19 libpopt0 libptexenc1 libpthread-stubs0 libpthread-stubs0-dev libpulse0 libreadline-dev libreadline6-dev libsm-dev libsm6 libsndfile1 libsqlite3-0 libssl1.0.0 libtasn1-3 libthai-data libthai0 libtiff4 libtiff4-dev libtiffxx0c2 libtinfo-dev libunistring0 libvorbis0a libvorbisenc2 libwrap0 libx11-6 libx11-data libx11-dev libx11-xcb1 libxau-dev libxau6 libxaw7 libxcb-render0 libxcb-render0-dev libxcb-shm0 libxcb-shm0-dev libxcb1 libxcb1-dev libxcomposite1 libxcursor1 libxdamage1 libxdmcp-dev libxdmcp6 libxext-dev libxext6 libxfixes3 libxfont1 libxft-dev libxft2 libxi6 libxinerama1 libxkbfile1 libxml2 libxmu6 libxmuu1 libxpm4 libxrandr2 libxrender-dev libxrender1 libxss-dev libxss1 libxt-dev libxt6 libxtst6 luatex m4 man-db mime-support mpack openjdk-6-jdk openjdk-6-jre openjdk-6-jre-headless openjdk-6-jre-lib openssl otf-freefont pkg-config po-debconf preview-latex-style python python-minimal python2.7 python2.7-minimal sbuild-build-depends-r-base-dummy shared-mime-info tcl8.5 tcl8.5-dev tex-common texi2html texinfo texlive-base texlive-binaries texlive-common texlive-doc-base texlive-extra-utils texlive-fonts-extra texlive-fonts-recommended texlive-generic-recommended texlive-latex-base texlive-latex-extra texlive-latex-recommended texlive-pictures tk8.5 tk8.5-dev ttf-dejavu-core ttf-dejavu-extra ttf-freefont ttf-marvosym tzdata-java x11-common x11-xkb-utils x11proto-core-dev x11proto-input-dev x11proto-kb-dev x11proto-render-dev x11proto-scrnsaver-dev x11proto-xext-dev xauth xdg-utils xfonts-base xfonts-encodings xfonts-utils xkb-data xorg-sgml-doctools xserver-common xtrans-dev xvfb zlib1g-dev 0 upgraded, 253 newly installed, 0 to remove and 2 not upgraded. Need to get 177 MB/360 MB of archives. After this operation, 1006 MB of additional disk space will be used. Get:1 http://archive.raspbian.lan/raspbian/ wheezy-staging/main fonts-freefont-ttf all 20120503-1 [6024 kB] Get:2 http://archive.raspbian.lan/raspbian/ wheezy-staging/main ttf-freefont all 20120503-1 [118 kB] Get:3 http://archive.raspbian.lan/raspbian/ wheezy-staging/main libtiffxx0c2 armhf 3.9.6-7 [63.5 kB] Get:4 http://archive.raspbian.lan/raspbian/ wheezy-staging/main fonts-comfortaa all 1.5-2 [272 kB] Get:5 http://archive.raspbian.lan/raspbian/ wheezy-staging/main fonts-freefont-otf all 20120503-1 [4428 kB] Get:6 http://archive.raspbian.lan/raspbian/ wheezy-staging/main fonts-gfs-artemisia all 1.1-4 [339 kB] Get:7 http://archive.raspbian.lan/raspbian/ wheezy-staging/main fonts-gfs-complutum all 1.1-5 [47.9 kB] Get:8 http://archive.raspbian.lan/raspbian/ wheezy-staging/main fonts-gfs-didot all 1.1-5 [371 kB] Get:9 http://archive.raspbian.lan/raspbian/ wheezy-staging/main fonts-gfs-neohellenic all 1.1-4 [282 kB] Get:10 http://archive.raspbian.lan/raspbian/ wheezy-staging/main fonts-gfs-olga all 1.1-3 [36.0 kB] Get:11 http://archive.raspbian.lan/raspbian/ wheezy-staging/main fonts-gfs-solomos all 1.1-4 [46.1 kB] Get:12 http://archive.raspbian.lan/raspbian/ wheezy-staging/main fonts-inconsolata all 001.010-4 [65.6 kB] Get:13 http://archive.raspbian.lan/raspbian/ wheezy-staging/main fonts-junicode all 0.7.6-1 [1046 kB] Get:14 http://archive.raspbian.lan/raspbian/ wheezy-staging/main fonts-linuxlibertine all 5.1.3-1 [12.8 MB] Get:15 http://archive.raspbian.lan/raspbian/ wheezy-staging/main fonts-oflb-asana-math all 000.907-4 [297 kB] Get:16 http://archive.raspbian.lan/raspbian/ wheezy-staging/main fonts-sil-gentium all 20081126:1.02-12 [685 kB] Get:17 http://archive.raspbian.lan/raspbian/ wheezy-staging/main fonts-sil-gentium-basic all 1.1-5 [871 kB] Get:18 http://archive.raspbian.lan/raspbian/ wheezy-staging/main gfortran-4.6 armhf 4.6.3-8+rpi1 [4829 kB] Get:19 http://archive.raspbian.lan/raspbian/ wheezy-staging/main gfortran armhf 4:4.6.3-7 [1128 B] Get:20 http://archive.raspbian.lan/raspbian/ wheezy-staging/main liblapack-dev armhf 3.4.1-5 [3856 kB] Get:21 http://archive.raspbian.lan/raspbian/ wheezy-staging/main libtiff4-dev armhf 3.9.6-7 [319 kB] Get:22 http://archive.raspbian.lan/raspbian/ wheezy-staging/main mpack armhf 1.6-8 [38.4 kB] Get:23 http://archive.raspbian.lan/raspbian/ wheezy-staging/main texi2html all 1.82-1 [444 kB] Get:24 http://archive.raspbian.lan/raspbian/ wheezy-staging/main texlive-extra-utils all 2012.20120611-1 [2548 kB] Get:25 http://archive.raspbian.lan/raspbian/ wheezy-staging/main otf-freefont all 20120503-1 [118 kB] Get:26 http://archive.raspbian.lan/raspbian/ wheezy-staging/main ttf-dejavu-extra all 2.33-2 [3499 kB] Get:27 http://archive.raspbian.lan/raspbian/ wheezy-staging/main fonts-stix all 1.1.0-1 [763 kB] Get:28 http://archive.raspbian.lan/raspbian/ wheezy-staging/main texlive-fonts-extra all 2012.20120611-1 [130 MB] Get:29 http://archive.raspbian.lan/raspbian/ wheezy-staging/main texlive-generic-recommended all 2012.20120611-3 [2144 kB] Get:30 http://archive.raspbian.lan/raspbian/ wheezy-staging/main tk8.5-dev armhf 8.5.11-2 [934 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 177 MB in 49s (3599 kB/s) Selecting previously unselected package libncursesw5:armhf. (Reading database ... 10701 files and directories currently installed.) Unpacking libncursesw5:armhf (from .../libncursesw5_5.9-10_armhf.deb) ... Selecting previously unselected package libpcre3:armhf. Unpacking libpcre3:armhf (from .../libpcre3_1%3a8.30-5_armhf.deb) ... Selecting previously unselected package libpipeline1:armhf. Unpacking libpipeline1:armhf (from .../libpipeline1_1.2.1-1_armhf.deb) ... Selecting previously unselected package libpopt0:armhf. Unpacking libpopt0:armhf (from .../libpopt0_1.16-7_armhf.deb) ... Selecting previously unselected package libssl1.0.0:armhf. Unpacking libssl1.0.0:armhf (from .../libssl1.0.0_1.0.1c-3+rpi1_armhf.deb) ... Selecting previously unselected package libasprintf0c2:armhf. Unpacking libasprintf0c2:armhf (from .../libasprintf0c2_0.18.1.1-9_armhf.deb) ... Selecting previously unselected package libgpg-error0:armhf. Unpacking libgpg-error0:armhf (from .../libgpg-error0_1.10-3_armhf.deb) ... Selecting previously unselected package libgcrypt11:armhf. Unpacking libgcrypt11:armhf (from .../libgcrypt11_1.5.0-3_armhf.deb) ... Selecting previously unselected package libp11-kit0:armhf. Unpacking libp11-kit0:armhf (from .../libp11-kit0_0.12-3_armhf.deb) ... Selecting previously unselected package libtasn1-3:armhf. Unpacking libtasn1-3:armhf (from .../libtasn1-3_2.13-2_armhf.deb) ... Selecting previously unselected package libgnutls26:armhf. Unpacking libgnutls26:armhf (from .../libgnutls26_2.12.20-1_armhf.deb) ... Selecting previously unselected package libkeyutils1:armhf. Unpacking libkeyutils1:armhf (from .../libkeyutils1_1.5.5-3_armhf.deb) ... Selecting previously unselected package libkrb5support0:armhf. Unpacking libkrb5support0:armhf (from .../libkrb5support0_1.10.1+dfsg-1_armhf.deb) ... Selecting previously unselected package libk5crypto3:armhf. Unpacking libk5crypto3:armhf (from .../libk5crypto3_1.10.1+dfsg-1_armhf.deb) ... 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Unpacking gir1.2-freedesktop (from .../gir1.2-freedesktop_1.32.1-1_armhf.deb) ... Selecting previously unselected package gir1.2-pango-1.0. Unpacking gir1.2-pango-1.0 (from .../gir1.2-pango-1.0_1.30.0-1_armhf.deb) ... Selecting previously unselected package libaudit0. Unpacking libaudit0 (from .../libaudit0_1%3a1.7.18-1.1_armhf.deb) ... Selecting previously unselected package libblas3. Unpacking libblas3 (from .../libblas3_1.2.20110419-5_armhf.deb) ... Selecting previously unselected package libblas-dev. Unpacking libblas-dev (from .../libblas-dev_1.2.20110419-5_armhf.deb) ... Selecting previously unselected package libbz2-dev:armhf. Unpacking libbz2-dev:armhf (from .../libbz2-dev_1.0.6-3_armhf.deb) ... Selecting previously unselected package libexpat1-dev. Unpacking libexpat1-dev (from .../libexpat1-dev_2.1.0-1_armhf.deb) ... Selecting previously unselected package zlib1g-dev:armhf. Unpacking zlib1g-dev:armhf (from .../zlib1g-dev_1%3a1.2.7.dfsg-13_armhf.deb) ... 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Selecting previously unselected package x11proto-input-dev. Unpacking x11proto-input-dev (from .../x11proto-input-dev_2.2-1_all.deb) ... Selecting previously unselected package x11proto-kb-dev. Unpacking x11proto-kb-dev (from .../x11proto-kb-dev_1.0.6-2_all.deb) ... Selecting previously unselected package xtrans-dev. Unpacking xtrans-dev (from .../xtrans-dev_1.2.7-1_all.deb) ... Selecting previously unselected package libpthread-stubs0:armhf. Unpacking libpthread-stubs0:armhf (from .../libpthread-stubs0_0.3-3_armhf.deb) ... Selecting previously unselected package libpthread-stubs0-dev:armhf. Unpacking libpthread-stubs0-dev:armhf (from .../libpthread-stubs0-dev_0.3-3_armhf.deb) ... Selecting previously unselected package libxcb1-dev:armhf. Unpacking libxcb1-dev:armhf (from .../libxcb1-dev_1.8.1-1_armhf.deb) ... Selecting previously unselected package libx11-dev:armhf. Unpacking libx11-dev:armhf (from .../libx11-dev_2%3a1.5.0-1_armhf.deb) ... Selecting previously unselected package x11proto-render-dev. Unpacking x11proto-render-dev (from .../x11proto-render-dev_2%3a0.11.1-2_all.deb) ... Selecting previously unselected package libxrender-dev:armhf. Unpacking libxrender-dev:armhf (from .../libxrender-dev_1%3a0.9.7-1_armhf.deb) ... Selecting previously unselected package libpng12-dev. Unpacking libpng12-dev (from .../libpng12-dev_1.2.49-1_armhf.deb) ... Selecting previously unselected package libice-dev:armhf. Unpacking libice-dev:armhf (from .../libice-dev_2%3a1.0.8-2_armhf.deb) ... Selecting previously unselected package libsm-dev:armhf. Unpacking libsm-dev:armhf (from .../libsm-dev_2%3a1.2.1-2_armhf.deb) ... Selecting previously unselected package libpixman-1-dev. Unpacking libpixman-1-dev (from .../libpixman-1-dev_0.26.0-3_armhf.deb) ... Selecting previously unselected package libxcb-render0-dev:armhf. Unpacking libxcb-render0-dev:armhf (from .../libxcb-render0-dev_1.8.1-1_armhf.deb) ... Selecting previously unselected package libxcb-shm0-dev:armhf. Unpacking libxcb-shm0-dev:armhf (from .../libxcb-shm0-dev_1.8.1-1_armhf.deb) ... Selecting previously unselected package libelf1. Unpacking libelf1 (from .../libelf1_0.152-1+rpi1_armhf.deb) ... Selecting previously unselected package libglib2.0-data. Unpacking libglib2.0-data (from .../libglib2.0-data_2.32.3-1_all.deb) ... Selecting previously unselected package libglib2.0-bin. Unpacking libglib2.0-bin (from .../libglib2.0-bin_2.32.3-1_armhf.deb) ... Selecting previously unselected package libpcre3-dev. Unpacking libpcre3-dev (from .../libpcre3-dev_1%3a8.30-5_armhf.deb) ... Selecting previously unselected package libglib2.0-dev. Unpacking libglib2.0-dev (from .../libglib2.0-dev_2.32.3-1_armhf.deb) ... Selecting previously unselected package libcairo2-dev. Unpacking libcairo2-dev (from .../libcairo2-dev_1.12.2-2_armhf.deb) ... Selecting previously unselected package libgif4. 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Selecting previously unselected package libxft-dev. Unpacking libxft-dev (from .../libxft-dev_2.3.1-1_armhf.deb) ... Selecting previously unselected package libpango1.0-dev. Unpacking libpango1.0-dev (from .../libpango1.0-dev_1.30.0-1_armhf.deb) ... Selecting previously unselected package libpaper-utils. Unpacking libpaper-utils (from .../libpaper-utils_1.1.24+nmu2_armhf.deb) ... Selecting previously unselected package libptexenc1. Unpacking libptexenc1 (from .../libptexenc1_2012.20120628-1_armhf.deb) ... Selecting previously unselected package libreadline6-dev:armhf. Unpacking libreadline6-dev:armhf (from .../libreadline6-dev_6.2-8_armhf.deb) ... Selecting previously unselected package libreadline-dev:armhf. Unpacking libreadline-dev:armhf (from .../libreadline-dev_6.2-8_armhf.deb) ... Selecting previously unselected package libtiff4-dev. Unpacking libtiff4-dev (from .../libtiff4-dev_3.9.6-7_armhf.deb) ... Selecting previously unselected package x11proto-xext-dev. Unpacking x11proto-xext-dev (from .../x11proto-xext-dev_7.2.1-1_all.deb) ... Selecting previously unselected package libxext-dev:armhf. Unpacking libxext-dev:armhf (from .../libxext-dev_2%3a1.3.1-2_armhf.deb) ... Selecting previously unselected package libxfont1. Unpacking libxfont1 (from .../libxfont1_1%3a1.4.5-2_armhf.deb) ... Selecting previously unselected package x11proto-scrnsaver-dev. Unpacking x11proto-scrnsaver-dev (from .../x11proto-scrnsaver-dev_1.2.2-1_all.deb) ... Selecting previously unselected package libxss-dev:armhf. Unpacking libxss-dev:armhf (from .../libxss-dev_1%3a1.2.2-1_armhf.deb) ... Selecting previously unselected package libxt-dev:armhf. Unpacking libxt-dev:armhf (from .../libxt-dev_1%3a1.1.3-1_armhf.deb) ... Selecting previously unselected package mpack. Unpacking mpack (from .../archives/mpack_1.6-8_armhf.deb) ... Selecting previously unselected package openjdk-6-jre:armhf. 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Selecting previously unselected package texlive-binaries. Unpacking texlive-binaries (from .../texlive-binaries_2012.20120628-1_armhf.deb) ... Selecting previously unselected package xdg-utils. Unpacking xdg-utils (from .../xdg-utils_1.1.0~rc1+git20111210-6_all.deb) ... Selecting previously unselected package texlive-base. Unpacking texlive-base (from .../texlive-base_2012.20120611-3_all.deb) ... Selecting previously unselected package texlive-extra-utils. Unpacking texlive-extra-utils (from .../texlive-extra-utils_2012.20120611-1_all.deb) ... Selecting previously unselected package otf-freefont. Unpacking otf-freefont (from .../otf-freefont_20120503-1_all.deb) ... Selecting previously unselected package ttf-dejavu-extra. Unpacking ttf-dejavu-extra (from .../ttf-dejavu-extra_2.33-2_all.deb) ... Selecting previously unselected package fonts-stix. Unpacking fonts-stix (from .../fonts-stix_1.1.0-1_all.deb) ... Selecting previously unselected package texlive-fonts-extra. Unpacking texlive-fonts-extra (from .../texlive-fonts-extra_2012.20120611-1_all.deb) ... Selecting previously unselected package ttf-marvosym. Unpacking ttf-marvosym (from .../ttf-marvosym_0.1+dfsg-2_all.deb) ... Selecting previously unselected package texlive-fonts-recommended. Unpacking texlive-fonts-recommended (from .../texlive-fonts-recommended_2012.20120611-3_all.deb) ... Selecting previously unselected package texlive-generic-recommended. Unpacking texlive-generic-recommended (from .../texlive-generic-recommended_2012.20120611-3_all.deb) ... Selecting previously unselected package texlive-latex-base. Unpacking texlive-latex-base (from .../texlive-latex-base_2012.20120611-3_all.deb) ... Selecting previously unselected package texlive-latex-recommended. Unpacking texlive-latex-recommended (from .../texlive-latex-recommended_2012.20120611-3_all.deb) ... Selecting previously unselected package texlive-pictures. Unpacking texlive-pictures (from .../texlive-pictures_2012.20120611-3_all.deb) ... Selecting previously unselected package texlive-latex-extra. Unpacking texlive-latex-extra (from .../texlive-latex-extra_2012.20120611-1_all.deb) ... Selecting previously unselected package tk8.5. Unpacking tk8.5 (from .../tk8.5_8.5.11-2_armhf.deb) ... Selecting previously unselected package tk8.5-dev. Unpacking tk8.5-dev (from .../tk8.5-dev_8.5.11-2_armhf.deb) ... Selecting previously unselected package x11-xkb-utils. Unpacking x11-xkb-utils (from .../x11-xkb-utils_7.7~1_armhf.deb) ... Selecting previously unselected package xauth. Unpacking xauth (from .../xauth_1%3a1.0.7-1_armhf.deb) ... Selecting previously unselected package xfonts-encodings. Unpacking xfonts-encodings (from .../xfonts-encodings_1%3a1.0.4-1_all.deb) ... Selecting previously unselected package xfonts-utils. Unpacking xfonts-utils (from .../xfonts-utils_1%3a7.7~1_armhf.deb) ... Selecting previously unselected package xfonts-base. Unpacking xfonts-base (from .../xfonts-base_1%3a1.0.3_all.deb) ... Selecting previously unselected package xkb-data. Unpacking xkb-data (from .../xkb-data_2.5.1-1_all.deb) ... Selecting previously unselected package xserver-common. Unpacking xserver-common (from .../xserver-common_2%3a1.12.1.902-1_all.deb) ... Selecting previously unselected package xvfb. Unpacking xvfb (from .../xvfb_2%3a1.12.1.902-1_armhf.deb) ... Selecting previously unselected package sbuild-build-depends-r-base-dummy. Unpacking sbuild-build-depends-r-base-dummy (from .../sbuild-build-depends-r-base-dummy.deb) ... Setting up libncursesw5:armhf (5.9-10) ... Setting up libpcre3:armhf (1:8.30-5) ... Setting up libpipeline1:armhf (1.2.1-1) ... Setting up libpopt0:armhf (1.16-7) ... Setting up libssl1.0.0:armhf (1.0.1c-3+rpi1) ... Setting up libasprintf0c2:armhf (0.18.1.1-9) ... Setting up libgpg-error0:armhf (1.10-3) ... Setting up libgcrypt11:armhf (1.5.0-3) ... Setting up libp11-kit0:armhf (0.12-3) ... Setting up libtasn1-3:armhf (2.13-2) ... Setting up libgnutls26:armhf (2.12.20-1) ... Setting up libkeyutils1:armhf (1.5.5-3) ... Setting up libkrb5support0:armhf (1.10.1+dfsg-1) ... Setting up libk5crypto3:armhf (1.10.1+dfsg-1) ... Setting up libkrb5-3:armhf (1.10.1+dfsg-1) ... Setting up libgssapi-krb5-2:armhf (1.10.1+dfsg-1) ... Setting up libmagic1:armhf (5.11-2) ... Setting up libsqlite3-0:armhf (3.7.13-1) ... Setting up libwrap0:armhf (7.6.q-23) ... Setting up libxml2:armhf (2.8.0+dfsg1-4) ... Setting up libasound2:armhf (1.0.25-3) ... Setting up libasyncns0:armhf (0.8-4) ... Setting up libffi5:armhf (3.0.10-3+b3) ... Setting up libglib2.0-0:armhf (2.32.3-1) ... No schema files found: doing nothing. Setting up libatk1.0-data (2.4.0-2) ... Setting up libatk1.0-0:armhf (2.4.0-2) ... Setting up libexpat1:armhf (2.1.0-1) ... Setting up libfreetype6:armhf (2.4.9-1) ... Setting up ttf-dejavu-core (2.33-2) ... Setting up fonts-freefont-ttf (20120503-1) ... Setting up ttf-freefont (20120503-1) ... Setting up fontconfig-config (2.9.0-6) ... Setting up libfontconfig1:armhf (2.9.0-6) ... Setting up libpixman-1-0:armhf (0.26.0-3) ... Setting up libpng12-0:armhf (1.2.49-1) ... Setting up libxau6:armhf (1:1.0.7-1) ... Setting up libxdmcp6:armhf (1:1.1.1-1) ... Setting up libxcb1:armhf (1.8.1-1) ... Setting up libx11-data (2:1.5.0-1) ... Setting up libx11-6:armhf (2:1.5.0-1) ... Setting up libxcb-render0:armhf (1.8.1-1) ... Setting up libxcb-shm0:armhf (1.8.1-1) ... Setting up libxrender1:armhf (1:0.9.7-1) ... Setting up libcairo2:armhf (1.12.2-2) ... Setting up libjpeg8:armhf (8d-1) ... Setting up libjasper1:armhf (1.900.1-13) ... Setting up libjbig0:armhf (2.0-2) ... Setting up libtiff4:armhf (3.9.6-7) ... Setting up libgdk-pixbuf2.0-common (2.26.1-1) ... Setting up libgdk-pixbuf2.0-0:armhf (2.26.1-1) ... Setting up libgtk2.0-common (2.24.10-1) ... Setting up libavahi-common-data:armhf (0.6.31-1) ... Setting up libavahi-common3:armhf (0.6.31-1) ... Setting up libdbus-1-3:armhf (1.6.0-1) ... Setting up libavahi-client3:armhf (0.6.31-1) ... Setting up libcups2:armhf (1.5.3-1) ... Setting up libthai-data (0.1.18-1) ... Setting up libdatrie1:armhf (0.2.5-3) ... Setting up libthai0:armhf (0.1.18-1) ... Setting up libxft2:armhf (2.3.1-1) ... Setting up fontconfig (2.9.0-6) ... Cleaning up old fontconfig caches... done. Regenerating fonts cache... done. Setting up libpango1.0-0:armhf (1.30.0-1) ... Setting up libxcomposite1:armhf (1:0.4.3-2) ... Setting up libxfixes3:armhf (1:5.0-4) ... Setting up libxcursor1:armhf (1:1.1.13-1) ... Setting up libxdamage1:armhf (1:1.1.3-2) ... Setting up libxext6:armhf (2:1.3.1-2) ... Setting up libxi6:armhf (2:1.6.1-1) ... Setting up libxinerama1:armhf (2:1.1.2-1) ... Setting up libxrandr2:armhf (2:1.3.2-2) ... Setting up shared-mime-info (1.0-1) ... Setting up libgtk2.0-0:armhf (2.24.10-1) ... Setting up libatk-wrapper-java (0.30.4-2) ... Setting up libatk-wrapper-java-jni:armhf (0.30.4-2) ... Setting up libcairo-gobject2:armhf (1.12.2-2) ... Setting up libcairo-script-interpreter2:armhf (1.12.2-2) ... Setting up libcroco3:armhf (0.6.5-1) ... Setting up libogg0:armhf (1.3.0-4) ... Setting up libflac8:armhf (1.2.1-6) ... Setting up libfontenc1:armhf (1:1.1.1-1) ... Setting up libunistring0:armhf (0.9.3-5) ... Setting up libgettextpo0:armhf (0.18.1.1-9) ... Setting up libgfortran3:armhf (4.7.1-2+rpi1) ... Setting up x11-common (1:7.7+1) ... All runlevel operations denied by policy invoke-rc.d: policy-rc.d denied execution of start. Setting up libice6:armhf (2:1.0.8-2) ... Setting up liblcms1:armhf (1.19.dfsg-1.1) ... Setting up libnspr4:armhf (2:4.9.1-1) ... Setting up libnss3:armhf (2:3.13.5-1) ... Setting up libpaper1:armhf (1.1.24+nmu2) ... Creating config file /etc/papersize with new version Setting up libpcrecpp0:armhf (1:8.30-5) ... Setting up libpcsclite1:armhf (1.8.4-1) ... Setting up libopenjpeg2 (1.3+dfsg-4.1) ... Setting up libpoppler19:armhf (0.18.4-3) ... Setting up libcap2 (1:2.22-1) ... Setting up libjson0:armhf (0.9-1.1) ... Setting up libsm6:armhf (2:1.2.1-2) ... Setting up libvorbis0a:armhf (1.3.2-1.3) ... Setting up libvorbisenc2:armhf (1.3.2-1.3) ... Setting up libsndfile1:armhf (1.0.25-5) ... Setting up libx11-xcb1:armhf (2:1.5.0-1) ... Setting up libxtst6:armhf (2:1.2.1-1) ... Setting up libpulse0:armhf (2.0-3+rpi1) ... Setting up libtiffxx0c2:armhf (3.9.6-7) ... Setting up libxt6:armhf (1:1.1.3-1) ... Setting up libxmu6:armhf (2:1.1.1-1) ... Setting up libxpm4:armhf (1:3.5.10-1) ... Setting up libxaw7:armhf (2:1.0.10-2) ... Setting up libxkbfile1:armhf (1:1.0.8-1) ... Setting up libxmuu1:armhf (2:1.1.1-1) ... Setting up libxss1:armhf (1:1.2.2-1) ... Setting up tex-common (3.13) ... Running mktexlsr. This may take some time... done. texlive-base is not ready, delaying updmap-sys call texlive-base is not ready, skipping fmtutil-sys --all call Setting up libkpathsea6 (2012.20120628-1) ... Setting up luatex (0.70.1.20120524-3) ... texlive-base is not ready, cannot create formats Setting up openssl (1.0.1c-3+rpi1) ... Setting up ca-certificates (20120623) ... Updating certificates in /etc/ssl/certs... 151 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d....done. Setting up libnss3-1d:armhf (2:3.13.5-1) ... Setting up tzdata-java (2012c-1) ... Setting up java-common (0.47) ... Setting up libjbig-dev:armhf (2.0-2) ... Setting up bsdmainutils (9.0.3) ... update-alternatives: using /usr/bin/bsd-write to provide /usr/bin/write (write) in auto mode. update-alternatives: using /usr/bin/bsd-from to provide /usr/bin/from (from) in auto mode. Setting up groff-base (1.21-9) ... Setting up man-db (2.6.2-1) ... Building database of manual pages ... Setting up file (5.11-2) ... Setting up gettext-base (0.18.1.1-9) ... Setting up m4 (1.4.16-3) ... Setting up mime-support (3.52-1) ... update-alternatives: using /usr/bin/see to provide /usr/bin/view (view) in auto mode. Setting up python2.7-minimal (2.7.3~rc2-2.1) ... Setting up python2.7 (2.7.3~rc2-2.1) ... Setting up python-minimal (2.7.3~rc2-1) ... Setting up python (2.7.3~rc2-1) ... Setting up texinfo (4.13a.dfsg.1-10) ... Running mktexlsr. This may take some time. ... done. Setting up libbison-dev:armhf (1:2.5.dfsg-2.1) ... Setting up bison (1:2.5.dfsg-2.1) ... update-alternatives: using /usr/bin/bison.yacc to provide /usr/bin/yacc (yacc) in auto mode. Setting up html2text (1.3.2a-15) ... Setting up gettext (0.18.1.1-9) ... Setting up intltool-debian (0.35.0+20060710.1) ... Setting up po-debconf (1.0.16+nmu2) ... Setting up debhelper (9.20120608) ... Setting up ed (1.6-2) ... Setting up fonts-comfortaa (1.5-2) ... Setting up fonts-droid (20111207+git-1) ... Setting up fonts-freefont-otf (20120503-1) ... Setting up fonts-gfs-artemisia (1.1-4) ... Setting up fonts-gfs-complutum (1.1-5) ... Setting up fonts-gfs-didot (1.1-5) ... Setting up fonts-gfs-neohellenic (1.1-4) ... Setting up fonts-gfs-olga (1.1-3) ... Setting up fonts-gfs-solomos (1.1-4) ... Setting up fonts-inconsolata (001.010-4) ... Setting up fonts-junicode (0.7.6-1) ... Setting up fonts-linuxlibertine (5.1.3-1) ... Setting up fonts-oflb-asana-math (000.907-4) ... Setting up fonts-sil-gentium (20081126:1.02-12) ... Setting up fonts-sil-gentium-basic (1.1-5) ... Setting up gfortran-4.6 (4.6.3-8+rpi1) ... Setting up gfortran (4:4.6.3-7) ... update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f95 (f95) in auto mode. Setting up libgirepository-1.0-1 (1.32.1-1) ... Setting up gir1.2-glib-2.0 (1.32.1-1) ... Setting up gir1.2-freedesktop (1.32.1-1) ... Setting up gir1.2-pango-1.0 (1.30.0-1) ... Setting up libaudit0 (1:1.7.18-1.1) ... Setting up libblas3 (1.2.20110419-5) ... update-alternatives: using /usr/lib/libblas/libblas.so.3 to provide /usr/lib/libblas.so.3 (libblas.so.3) in auto mode. Setting up libblas-dev (1.2.20110419-5) ... update-alternatives: using /usr/lib/libblas/libblas.so to provide /usr/lib/libblas.so (libblas.so) in auto mode. Setting up libbz2-dev:armhf (1.0.6-3) ... Setting up libexpat1-dev (2.1.0-1) ... Setting up zlib1g-dev:armhf (1:1.2.7.dfsg-13) ... Setting up libfreetype6-dev (2.4.9-1) ... Setting up pkg-config (0.26-1) ... Setting up libfontconfig1-dev (2.9.0-6) ... Setting up xorg-sgml-doctools (1:1.10-1) ... Setting up x11proto-core-dev (7.0.23-1) ... Setting up libxau-dev:armhf (1:1.0.7-1) ... Setting up libxdmcp-dev:armhf (1:1.1.1-1) ... Setting up x11proto-input-dev (2.2-1) ... Setting up x11proto-kb-dev (1.0.6-2) ... Setting up xtrans-dev (1.2.7-1) ... Setting up libpthread-stubs0:armhf (0.3-3) ... Setting up libpthread-stubs0-dev:armhf (0.3-3) ... Setting up libxcb1-dev:armhf (1.8.1-1) ... Setting up libx11-dev:armhf (2:1.5.0-1) ... Setting up x11proto-render-dev (2:0.11.1-2) ... Setting up libxrender-dev:armhf (1:0.9.7-1) ... Setting up libpng12-dev (1.2.49-1) ... Setting up libice-dev:armhf (2:1.0.8-2) ... Setting up libsm-dev:armhf (2:1.2.1-2) ... Setting up libpixman-1-dev (0.26.0-3) ... Setting up libxcb-render0-dev:armhf (1.8.1-1) ... Setting up libxcb-shm0-dev:armhf (1.8.1-1) ... Setting up libelf1 (0.152-1+rpi1) ... Setting up libglib2.0-data (2.32.3-1) ... Setting up libglib2.0-bin (2.32.3-1) ... Setting up libpcre3-dev (1:8.30-5) ... Setting up libglib2.0-dev (2.32.3-1) ... Setting up libcairo2-dev (1.12.2-2) ... Setting up libgif4 (4.1.6-9.1) ... Setting up libgraphite3 (1:2.3.1-0.2) ... Setting up libjpeg8-dev:armhf (8d-1) ... Setting up liblapack3 (3.4.1-5) ... update-alternatives: using /usr/lib/lapack/liblapack.so.3 to provide /usr/lib/liblapack.so.3 (liblapack.so.3) in auto mode. Setting up liblapack-dev (3.4.1-5) ... update-alternatives: using /usr/lib/lapack/liblapack.so to provide /usr/lib/liblapack.so (liblapack.so) in auto mode. Setting up liblzma-dev:armhf (5.1.1alpha+20120614-1) ... Setting up libtinfo-dev:armhf (5.9-10) ... Setting up libncurses5-dev (5.9-10) ... Setting up libxft-dev (2.3.1-1) ... Setting up libpango1.0-dev (1.30.0-1) ... Setting up libpaper-utils (1.1.24+nmu2) ... Setting up libptexenc1 (2012.20120628-1) ... Setting up libreadline6-dev:armhf (6.2-8) ... Setting up libreadline-dev:armhf (6.2-8) ... Setting up libtiff4-dev (3.9.6-7) ... Setting up x11proto-xext-dev (7.2.1-1) ... Setting up libxext-dev:armhf (2:1.3.1-2) ... Setting up libxfont1 (1:1.4.5-2) ... Setting up x11proto-scrnsaver-dev (1.2.2-1) ... Setting up libxss-dev:armhf (1:1.2.2-1) ... Setting up libxt-dev:armhf (1:1.1.3-1) ... Setting up mpack (1.6-8) ... Setting up preview-latex-style (11.86-10) ... Setting up tcl8.5 (8.5.11-2) ... update-alternatives: using /usr/bin/tclsh8.5 to provide /usr/bin/tclsh (tclsh) in auto mode. Setting up tcl8.5-dev (8.5.11-2) ... Setting up texi2html (1.82-1) ... Setting up texlive-common (2012.20120611-3) ... Setting up texlive-doc-base (2012.20120611-1) ... Setting up texlive-binaries (2012.20120628-1) ... update-alternatives: using /usr/bin/xdvi-xaw to provide /usr/bin/xdvi.bin (xdvi.bin) in auto mode. update-alternatives: using /usr/bin/bibtex.original to provide /usr/bin/bibtex (bibtex) in auto mode. Building format(s) --refresh. This may take some time... done. Setting up xdg-utils (1.1.0~rc1+git20111210-6) ... Setting up otf-freefont (20120503-1) ... Setting up ttf-dejavu-extra (2.33-2) ... Setting up fonts-stix (1.1.0-1) ... Setting up ttf-marvosym (0.1+dfsg-2) ... Setting up tk8.5 (8.5.11-2) ... update-alternatives: using /usr/bin/wish8.5 to provide /usr/bin/wish (wish) in auto mode. Setting up tk8.5-dev (8.5.11-2) ... Setting up x11-xkb-utils (7.7~1) ... Setting up xauth (1:1.0.7-1) ... Setting up xfonts-encodings (1:1.0.4-1) ... Setting up xfonts-utils (1:7.7~1) ... Setting up xfonts-base (1:1.0.3) ... Setting up xkb-data (2.5.1-1) ... Setting up xserver-common (2:1.12.1.902-1) ... Setting up xvfb (2:1.12.1.902-1) ... Processing triggers for tex-common ... Running mktexlsr. This may take some time... done. Setting up texlive-base (2012.20120611-3) ... /usr/bin/tl-paper: setting paper size for dvips to a4. /usr/bin/tl-paper: setting paper size for dvipdfmx to a4. /usr/bin/tl-paper: setting paper size for xdvi to a4. /usr/bin/tl-paper: setting paper size for pdftex to a4. Running mktexlsr. This may take some time... done. Building format(s) --all. This may take some time... done. Processing triggers for tex-common ... Running updmap-sys. This may take some time... done. Running mktexlsr /var/lib/texmf ... done. Setting up texlive-fonts-recommended (2012.20120611-3) ... Setting up texlive-generic-recommended (2012.20120611-3) ... Setting up texlive-latex-base (2012.20120611-3) ... Running mktexlsr. This may take some time... done. Building format(s) --all --cnffile /etc/texmf/fmt.d/10texlive-latex-base.cnf. This may take some time... done. Setting up texlive-pictures (2012.20120611-3) ... Setting up texlive-extra-utils (2012.20120611-1) ... Setting up texlive-fonts-extra (2012.20120611-1) ... Processing triggers for tex-common ... Running mktexlsr. This may take some time... done. Running updmap-sys. This may take some time... done. Running mktexlsr /var/lib/texmf ... done. Setting up texlive-latex-recommended (2012.20120611-3) ... Processing triggers for tex-common ... Running mktexlsr. This may take some time... done. Setting up texlive-latex-extra (2012.20120611-1) ... Processing triggers for tex-common ... Running mktexlsr. This may take some time... done. Running updmap-sys. This may take some time... done. Running mktexlsr /var/lib/texmf ... done. Setting up openjdk-6-jre-headless:armhf (6b24-1.11.3-2+rpi1) ... update-alternatives: using /usr/lib/jvm/java-6-openjdk-armhf/jre/bin/java to provide /usr/bin/java (java) in auto mode. update-alternatives: using /usr/lib/jvm/java-6-openjdk-armhf/jre/bin/keytool to provide /usr/bin/keytool (keytool) in auto mode. update-alternatives: using /usr/lib/jvm/java-6-openjdk-armhf/jre/bin/pack200 to provide /usr/bin/pack200 (pack200) in auto mode. update-alternatives: using /usr/lib/jvm/java-6-openjdk-armhf/jre/bin/rmid to provide /usr/bin/rmid (rmid) in auto mode. update-alternatives: using /usr/lib/jvm/java-6-openjdk-armhf/jre/bin/rmiregistry to provide /usr/bin/rmiregistry (rmiregistry) in auto mode. update-alternatives: using /usr/lib/jvm/java-6-openjdk-armhf/jre/bin/unpack200 to provide /usr/bin/unpack200 (unpack200) in auto mode. update-alternatives: using /usr/lib/jvm/java-6-openjdk-armhf/jre/bin/orbd to provide /usr/bin/orbd (orbd) in auto mode. update-alternatives: using /usr/lib/jvm/java-6-openjdk-armhf/jre/bin/servertool to provide /usr/bin/servertool (servertool) in auto mode. update-alternatives: using /usr/lib/jvm/java-6-openjdk-armhf/jre/bin/tnameserv to provide /usr/bin/tnameserv (tnameserv) in auto mode. update-alternatives: using /usr/lib/jvm/java-6-openjdk-armhf/jre/lib/jexec to provide /usr/bin/jexec (jexec) in auto mode. Setting up ca-certificates-java (20120608) ... Adding debian:Go_Daddy_Root_Certificate_Authority_-_G2.pem Adding debian:Verisign_Class_1_Public_Primary_Certification_Authority.pem Adding debian:Hongkong_Post_Root_CA_1.pem Adding debian:ACEDICOM_Root.pem Adding debian:RSA_Root_Certificate_1.pem Adding debian:NetLock_Qualified_=Class_QA=_Root.pem Adding debian:Buypass_Class_3_CA_1.pem Adding debian:Equifax_Secure_eBusiness_CA_2.pem Adding debian:Swisscom_Root_CA_1.pem Adding debian:Camerfirma_Chambers_of_Commerce_Root.pem Adding debian:Verisign_Class_3_Public_Primary_Certification_Authority_-_G2.pem Adding debian:Firmaprofesional_Root_CA.pem Adding debian:Chambers_of_Commerce_Root_-_2008.pem Adding debian:Verisign_Class_1_Public_Primary_Certification_Authority_-_G3.pem Adding debian:Staat_der_Nederlanden_Root_CA.pem Adding debian:Taiwan_GRCA.pem Adding debian:GeoTrust_Global_CA.pem Adding debian:AddTrust_Public_Services_Root.pem Adding debian:Verisign_Class_2_Public_Primary_Certification_Authority_-_G3.pem Adding debian:OISTE_WISeKey_Global_Root_GA_CA.pem Adding debian:COMODO_Certification_Authority.pem Adding debian:Verisign_Class_2_Public_Primary_Certification_Authority_-_G2.pem Adding debian:GlobalSign_Root_CA.pem Adding debian:GTE_CyberTrust_Global_Root.pem Adding debian:GeoTrust_Universal_CA.pem Adding debian:AC_Raíz_Certicámara_S.A..pem Adding debian:E-Guven_Kok_Elektronik_Sertifika_Hizmet_Saglayicisi.pem Adding debian:Entrust.net_Premium_2048_Secure_Server_CA.pem Adding debian:AffirmTrust_Commercial.pem Adding debian:Buypass_Class_2_CA_1.pem Adding debian:QuoVadis_Root_CA.pem Adding debian:UTN_USERFirst_Email_Root_CA.pem Adding debian:AddTrust_External_Root.pem Adding debian:NetLock_Arany_=Class_Gold=_Főtanúsítvány.pem Adding debian:America_Online_Root_Certification_Authority_2.pem Adding debian:Equifax_Secure_Global_eBusiness_CA.pem Adding debian:ValiCert_Class_2_VA.pem Adding debian:VeriSign_Class_3_Public_Primary_Certification_Authority_-_G5.pem Adding debian:Autoridad_de_Certificacion_Firmaprofesional_CIF_A62634068.pem Adding debian:Juur-SK.pem Adding debian:NetLock_Business_=Class_B=_Root.pem Adding debian:DST_ACES_CA_X6.pem Adding debian:DigiCert_Assured_ID_Root_CA.pem Adding debian:SecureSign_RootCA11.pem Adding debian:QuoVadis_Root_CA_3.pem Adding debian:AddTrust_Qualified_Certificates_Root.pem Adding debian:Starfield_Services_Root_Certificate_Authority_-_G2.pem Adding debian:GeoTrust_Primary_Certification_Authority_-_G3.pem Adding debian:Certum_Root_CA.pem Adding debian:Network_Solutions_Certificate_Authority.pem Adding debian:thawte_Primary_Root_CA_-_G3.pem Adding debian:GeoTrust_Primary_Certification_Authority_-_G2.pem Adding debian:COMODO_ECC_Certification_Authority.pem Adding debian:Sonera_Class_1_Root_CA.pem Adding debian:Microsec_e-Szigno_Root_CA_2009.pem Adding debian:Security_Communication_EV_RootCA1.pem Adding debian:NetLock_Express_=Class_C=_Root.pem Adding debian:DigiCert_High_Assurance_EV_Root_CA.pem Adding debian:TDC_Internet_Root_CA.pem Adding debian:SwissSign_Silver_CA_-_G2.pem Adding debian:EBG_Elektronik_Sertifika_Hizmet_Sağlayıcısı.pem Adding debian:DST_Root_CA_X3.pem Adding debian:GlobalSign_Root_CA_-_R2.pem Adding debian:VeriSign_Class_3_Public_Primary_Certification_Authority_-_G4.pem Adding debian:Thawte_Premium_Server_CA.pem Adding debian:Comodo_Secure_Services_root.pem Adding debian:ApplicationCA_-_Japanese_Government.pem Adding debian:America_Online_Root_Certification_Authority_1.pem Adding debian:TÜBİTAK_UEKAE_Kök_Sertifika_Hizmet_Sağlayıcısı_-_Sürüm_3.pem Adding debian:Certinomis_-_Autorité_Racine.pem Adding debian:VeriSign_Universal_Root_Certification_Authority.pem Adding debian:Entrust_Root_Certification_Authority.pem Adding debian:cacert.org.pem Adding debian:Equifax_Secure_eBusiness_CA_1.pem Adding debian:spi-cacert-2008.pem Adding debian:ComSign_CA.pem Adding debian:Digital_Signature_Trust_Co._Global_CA_1.pem Adding debian:QuoVadis_Root_CA_2.pem Adding debian:Camerfirma_Global_Chambersign_Root.pem Adding debian:AddTrust_Low-Value_Services_Root.pem Adding debian:Digital_Signature_Trust_Co._Global_CA_3.pem Adding debian:TC_TrustCenter_Class_3_CA_II.pem Adding debian:ComSign_Secured_CA.pem Adding debian:Certum_Trusted_Network_CA.pem Adding debian:NetLock_Notary_=Class_A=_Root.pem Adding debian:GeoTrust_Universal_CA_2.pem Adding debian:Sonera_Class_2_Root_CA.pem Adding debian:Comodo_Trusted_Services_root.pem Adding debian:Wells_Fargo_Root_CA.pem Adding debian:ca.pem Adding debian:XRamp_Global_CA_Root.pem Adding debian:TURKTRUST_Certificate_Services_Provider_Root_1.pem Adding debian:S-TRUST_Authentication_and_Encryption_Root_CA_2005_PN.pem Adding debian:TURKTRUST_Certificate_Services_Provider_Root_2.pem Adding debian:ValiCert_Class_1_VA.pem Adding debian:Verisign_Class_3_Public_Primary_Certification_Authority_-_G3.pem Adding debian:AffirmTrust_Networking.pem Adding debian:TWCA_Root_Certification_Authority.pem Adding debian:thawte_Primary_Root_CA.pem Adding debian:Cybertrust_Global_Root.pem Adding debian:GeoTrust_Global_CA_2.pem Adding debian:Go_Daddy_Class_2_CA.pem Adding debian:Entrust.net_Secure_Server_CA.pem Adding debian:Thawte_Server_CA.pem Adding debian:TC_TrustCenter_Universal_CA_III.pem Adding debian:TC_TrustCenter_Class_2_CA_II.pem Adding debian:UTN_USERFirst_Hardware_Root_CA.pem Adding debian:Certigna.pem Adding debian:Izenpe.com.pem Adding debian:CA_Disig.pem Adding debian:CNNIC_ROOT.pem Adding debian:Equifax_Secure_CA.pem Adding debian:IGC_A.pem Adding debian:Global_Chambersign_Root_-_2008.pem Adding debian:Verisign_Class_4_Public_Primary_Certification_Authority_-_G3.pem Adding debian:spi-ca-2003.pem Adding debian:TC_TrustCenter_Universal_CA_I.pem Adding debian:ePKI_Root_Certification_Authority.pem Adding debian:Verisign_Class_3_Public_Primary_Certification_Authority.pem Adding debian:Visa_eCommerce_Root.pem Adding debian:AffirmTrust_Premium.pem Adding debian:UTN_DATACorp_SGC_Root_CA.pem Adding debian:Comodo_AAA_Services_root.pem Adding debian:Certplus_Class_2_Primary_CA.pem Adding debian:certSIGN_ROOT_CA.pem Adding debian:Security_Communication_Root_CA.pem Adding debian:TDC_OCES_Root_CA.pem Adding debian:Hellenic_Academic_and_Research_Institutions_RootCA_2011.pem Adding debian:Microsec_e-Szigno_Root_CA.pem Adding debian:SwissSign_Platinum_CA_-_G2.pem Adding debian:SwissSign_Gold_CA_-_G2.pem Adding debian:A-Trust-nQual-03.pem Adding debian:StartCom_Certification_Authority.pem Adding debian:WellsSecure_Public_Root_Certificate_Authority.pem Adding debian:Verisign_Class_1_Public_Primary_Certification_Authority_-_G2.pem Adding debian:Starfield_Root_Certificate_Authority_-_G2.pem Adding debian:Staat_der_Nederlanden_Root_CA_-_G2.pem Adding debian:Baltimore_CyberTrust_Root.pem Adding debian:Secure_Global_CA.pem Adding debian:GeoTrust_Primary_Certification_Authority.pem Adding debian:thawte_Primary_Root_CA_-_G2.pem Adding debian:Security_Communication_RootCA2.pem Adding debian:RSA_Security_2048_v3.pem Adding debian:Deutsche_Telekom_Root_CA_2.pem Adding debian:EC-ACC.pem Adding debian:Starfield_Class_2_CA.pem Adding debian:DigiCert_Global_Root_CA.pem Adding debian:AffirmTrust_Premium_ECC.pem Adding debian:Root_CA_Generalitat_Valenciana.pem Adding debian:SecureTrust_CA.pem Adding debian:GlobalSign_Root_CA_-_R3.pem done. Setting up openjdk-6-jre:armhf (6b24-1.11.3-2+rpi1) ... update-alternatives: using /usr/lib/jvm/java-6-openjdk-armhf/jre/bin/policytool to provide /usr/bin/policytool (policytool) in auto mode. Setting up openjdk-6-jdk:armhf (6b24-1.11.3-2+rpi1) ... update-alternatives: using /usr/lib/jvm/java-6-openjdk-armhf/bin/appletviewer to provide /usr/bin/appletviewer (appletviewer) in auto mode. update-alternatives: using /usr/lib/jvm/java-6-openjdk-armhf/bin/extcheck to provide /usr/bin/extcheck (extcheck) in auto mode. update-alternatives: using /usr/lib/jvm/java-6-openjdk-armhf/bin/idlj to provide /usr/bin/idlj (idlj) in auto mode. update-alternatives: using /usr/lib/jvm/java-6-openjdk-armhf/bin/jar to provide /usr/bin/jar (jar) in auto mode. update-alternatives: using /usr/lib/jvm/java-6-openjdk-armhf/bin/jarsigner to provide /usr/bin/jarsigner (jarsigner) in auto mode. update-alternatives: using /usr/lib/jvm/java-6-openjdk-armhf/bin/javac to provide /usr/bin/javac (javac) in auto mode. update-alternatives: using /usr/lib/jvm/java-6-openjdk-armhf/bin/javadoc to provide /usr/bin/javadoc (javadoc) in auto mode. update-alternatives: using /usr/lib/jvm/java-6-openjdk-armhf/bin/javah to provide /usr/bin/javah (javah) in auto mode. update-alternatives: using /usr/lib/jvm/java-6-openjdk-armhf/bin/javap to provide /usr/bin/javap (javap) in auto mode. update-alternatives: using /usr/lib/jvm/java-6-openjdk-armhf/bin/jconsole to provide /usr/bin/jconsole (jconsole) in auto mode. update-alternatives: using /usr/lib/jvm/java-6-openjdk-armhf/bin/jdb to provide /usr/bin/jdb (jdb) in auto mode. update-alternatives: using /usr/lib/jvm/java-6-openjdk-armhf/bin/jhat to provide /usr/bin/jhat (jhat) in auto mode. update-alternatives: using /usr/lib/jvm/java-6-openjdk-armhf/bin/jinfo to provide /usr/bin/jinfo (jinfo) in auto mode. update-alternatives: using /usr/lib/jvm/java-6-openjdk-armhf/bin/jmap to provide /usr/bin/jmap (jmap) in auto mode. update-alternatives: using /usr/lib/jvm/java-6-openjdk-armhf/bin/jps to provide /usr/bin/jps (jps) in auto mode. update-alternatives: using /usr/lib/jvm/java-6-openjdk-armhf/bin/jrunscript to provide /usr/bin/jrunscript (jrunscript) in auto mode. update-alternatives: using /usr/lib/jvm/java-6-openjdk-armhf/bin/jsadebugd to provide /usr/bin/jsadebugd (jsadebugd) in auto mode. update-alternatives: using /usr/lib/jvm/java-6-openjdk-armhf/bin/jstack to provide /usr/bin/jstack (jstack) in auto mode. update-alternatives: using /usr/lib/jvm/java-6-openjdk-armhf/bin/jstat to provide /usr/bin/jstat (jstat) in auto mode. update-alternatives: using /usr/lib/jvm/java-6-openjdk-armhf/bin/jstatd to provide /usr/bin/jstatd (jstatd) in auto mode. update-alternatives: using /usr/lib/jvm/java-6-openjdk-armhf/bin/native2ascii to provide /usr/bin/native2ascii (native2ascii) in auto mode. update-alternatives: using /usr/lib/jvm/java-6-openjdk-armhf/bin/rmic to provide /usr/bin/rmic (rmic) in auto mode. update-alternatives: using /usr/lib/jvm/java-6-openjdk-armhf/bin/schemagen to provide /usr/bin/schemagen (schemagen) in auto mode. update-alternatives: using /usr/lib/jvm/java-6-openjdk-armhf/bin/serialver to provide /usr/bin/serialver (serialver) in auto mode. update-alternatives: using /usr/lib/jvm/java-6-openjdk-armhf/bin/wsgen to provide /usr/bin/wsgen (wsgen) in auto mode. update-alternatives: using /usr/lib/jvm/java-6-openjdk-armhf/bin/wsimport to provide /usr/bin/wsimport (wsimport) in auto mode. update-alternatives: using /usr/lib/jvm/java-6-openjdk-armhf/bin/xjc to provide /usr/bin/xjc (xjc) in auto mode. Setting up sbuild-build-depends-r-base-dummy (0.invalid.0) ... Setting up openjdk-6-jre-lib (6b24-1.11.3-2+rpi1) ... ┌──────────────────────────────────────────────────────────────────────────────┐ │ Build environment │ └──────────────────────────────────────────────────────────────────────────────┘ Kernel: Linux 3.2.0-2-mx5 armhf (armv7l) Toolchain package versions: binutils_2.22-6.1 dpkg-dev_1.16.4.3 g++-4.6_4.6.3-8+rpi1 gcc-4.6_4.6.3-8+rpi1 libc6-dev_2.13-33 libstdc++6_4.7.1-2+rpi1 libstdc++6-4.6-dev_4.6.3-8+rpi1 linux-libc-dev_3.2.21-1+rpi1 Package versions: apt_0.9.3+rpi1 base-files_6.9 base-passwd_3.5.26 bash_4.2-2 binutils_2.22-6.1 bison_1:2.5.dfsg-2.1 bsdmainutils_9.0.3 bsdutils_1:2.20.1-5.1 build-essential_11.5+b1 bzip2_1.0.6-3 ca-certificates_20120623 ca-certificates-java_20120608 coreutils_8.13-3.2 cpp_4:4.6.3-7 cpp-4.6_4.6.3-8+rpi1 dash_0.5.7-3 debconf_1.5.44 debconf-i18n_1.5.44 debfoster_2.7-1.1 debhelper_9.20120608 debianutils_4.3.2 diffutils_1:3.2-6 dpkg_1.16.4.3 dpkg-dev_1.16.4.3 e2fslibs_1.42.4-3 e2fsprogs_1.42.4-3 ed_1.6-2 fakeroot_1.18.4-2 file_5.11-2 findutils_4.4.2-4 fontconfig_2.9.0-6 fontconfig-config_2.9.0-6 fonts-comfortaa_1.5-2 fonts-droid_20111207+git-1 fonts-freefont-otf_20120503-1 fonts-freefont-ttf_20120503-1 fonts-gfs-artemisia_1.1-4 fonts-gfs-complutum_1.1-5 fonts-gfs-didot_1.1-5 fonts-gfs-neohellenic_1.1-4 fonts-gfs-olga_1.1-3 fonts-gfs-solomos_1.1-4 fonts-inconsolata_001.010-4 fonts-junicode_0.7.6-1 fonts-linuxlibertine_5.1.3-1 fonts-oflb-asana-math_000.907-4 fonts-sil-gentium_20081126:1.02-12 fonts-sil-gentium-basic_1.1-5 fonts-stix_1.1.0-1 g++_4:4.6.3-7 g++-4.6_4.6.3-8+rpi1 gcc_4:4.6.3-7 gcc-4.4-base_4.4.7-1.1+rpi1 gcc-4.5-base_4.5.3-12+rpi1 gcc-4.6_4.6.3-8+rpi1 gcc-4.6-base_4.6.3-8+rpi1 gcc-4.7-base_4.7.1-2+rpi1 gettext_0.18.1.1-9 gettext-base_0.18.1.1-9 gfortran_4:4.6.3-7 gfortran-4.6_4.6.3-8+rpi1 gir1.2-freedesktop_1.32.1-1 gir1.2-glib-2.0_1.32.1-1 gir1.2-pango-1.0_1.30.0-1 gnupg_1.4.12-4 gpgv_1.4.12-4 grep_2.12-2 groff-base_1.21-9 gzip_1.5-1.1 hostname_3.11 html2text_1.3.2a-15 initscripts_2.88dsf-22.1 insserv_1.14.0-3 intltool-debian_0.35.0+20060710.1 java-common_0.47 libacl1_2.2.51-8 libapt-pkg4.12_0.9.3+rpi1 libasound2_1.0.25-3 libasprintf0c2_0.18.1.1-9 libasyncns0_0.8-4 libatk-wrapper-java_0.30.4-2 libatk-wrapper-java-jni_0.30.4-2 libatk1.0-0_2.4.0-2 libatk1.0-data_2.4.0-2 libattr1_1:2.4.46-8 libaudit0_1:1.7.18-1.1 libavahi-client3_0.6.31-1 libavahi-common-data_0.6.31-1 libavahi-common3_0.6.31-1 libbison-dev_1:2.5.dfsg-2.1 libblas-dev_1.2.20110419-5 libblas3_1.2.20110419-5 libblkid1_2.20.1-5.1 libbz2-1.0_1.0.6-3 libbz2-dev_1.0.6-3 libc-bin_2.13-33 libc-dev-bin_2.13-33 libc6_2.13-33 libc6-dev_2.13-33 libcairo-gobject2_1.12.2-2 libcairo-script-interpreter2_1.12.2-2 libcairo2_1.12.2-2 libcairo2-dev_1.12.2-2 libcap2_1:2.22-1 libclass-isa-perl_0.36-3 libcomerr2_1.42.4-3 libcroco3_0.6.5-1 libcups2_1.5.3-1 libdatrie1_0.2.5-3 libdb5.1_5.1.29-5 libdbus-1-3_1.6.0-1 libdpkg-perl_1.16.4.3 libelf1_0.152-1+rpi1 libexpat1_2.1.0-1 libexpat1-dev_2.1.0-1 libffi5_3.0.10-3+b3 libflac8_1.2.1-6 libfontconfig1_2.9.0-6 libfontconfig1-dev_2.9.0-6 libfontenc1_1:1.1.1-1 libfreetype6_2.4.9-1 libfreetype6-dev_2.4.9-1 libgc1c2_1:7.1-8 libgcc1_1:4.7.1-2+rpi1 libgcrypt11_1.5.0-3 libgdbm3_1.8.3-11 libgdk-pixbuf2.0-0_2.26.1-1 libgdk-pixbuf2.0-common_2.26.1-1 libgettextpo0_0.18.1.1-9 libgfortran3_4.7.1-2+rpi1 libgif4_4.1.6-9.1 libgirepository-1.0-1_1.32.1-1 libglib2.0-0_2.32.3-1 libglib2.0-bin_2.32.3-1 libglib2.0-data_2.32.3-1 libglib2.0-dev_2.32.3-1 libgmp10_2:5.0.5+dfsg-2 libgnutls26_2.12.20-1 libgomp1_4.7.1-2+rpi1 libgpg-error0_1.10-3 libgraphite3_1:2.3.1-0.2 libgssapi-krb5-2_1.10.1+dfsg-1 libgtk2.0-0_2.24.10-1 libgtk2.0-common_2.24.10-1 libice-dev_2:1.0.8-2 libice6_2:1.0.8-2 libjasper1_1.900.1-13 libjbig-dev_2.0-2 libjbig0_2.0-2 libjpeg8_8d-1 libjpeg8-dev_8d-1 libjson0_0.9-1.1 libk5crypto3_1.10.1+dfsg-1 libkeyutils1_1.5.5-3 libkpathsea6_2012.20120628-1 libkrb5-3_1.10.1+dfsg-1 libkrb5support0_1.10.1+dfsg-1 liblapack-dev_3.4.1-5 liblapack3_3.4.1-5 liblcms1_1.19.dfsg-1.1 liblocale-gettext-perl_1.05-7 liblzma-dev_5.1.1alpha+20120614-1 liblzma5_5.1.1alpha+20120614-1 libmagic1_5.11-2 libmount1_2.20.1-5.1 libmpc2_0.9-4 libmpfr4_3.1.0-5 libncurses5_5.9-10 libncurses5-dev_5.9-10 libncursesw5_5.9-10 libnspr4_2:4.9.1-1 libnss3_2:3.13.5-1 libnss3-1d_2:3.13.5-1 libogg0_1.3.0-4 libopenjpeg2_1.3+dfsg-4.1 libp11-kit0_0.12-3 libpam-modules_1.1.3-7.1 libpam-modules-bin_1.1.3-7.1 libpam-runtime_1.1.3-7.1 libpam0g_1.1.3-7.1 libpango1.0-0_1.30.0-1 libpango1.0-dev_1.30.0-1 libpaper-utils_1.1.24+nmu2 libpaper1_1.1.24+nmu2 libpcre3_1:8.30-5 libpcre3-dev_1:8.30-5 libpcrecpp0_1:8.30-5 libpcsclite1_1.8.4-1 libpipeline1_1.2.1-1 libpixman-1-0_0.26.0-3 libpixman-1-dev_0.26.0-3 libpng12-0_1.2.49-1 libpng12-dev_1.2.49-1 libpoppler19_0.18.4-3 libpopt0_1.16-7 libptexenc1_2012.20120628-1 libpthread-stubs0_0.3-3 libpthread-stubs0-dev_0.3-3 libpulse0_2.0-3+rpi1 libreadline-dev_6.2-8 libreadline6_6.2-8 libreadline6-dev_6.2-8 libselinux1_2.1.9-5 libsemanage-common_2.1.6-6 libsemanage1_2.1.6-6 libsepol1_2.1.4-3 libslang2_2.2.4-15 libsm-dev_2:1.2.1-2 libsm6_2:1.2.1-2 libsndfile1_1.0.25-5 libsqlite3-0_3.7.13-1 libss2_1.42.4-3 libssl1.0.0_1.0.1c-3+rpi1 libstdc++6_4.7.1-2+rpi1 libstdc++6-4.6-dev_4.6.3-8+rpi1 libswitch-perl_2.16-2 libtasn1-3_2.13-2 libtext-charwidth-perl_0.04-7 libtext-iconv-perl_1.7-5 libtext-wrapi18n-perl_0.06-7 libthai-data_0.1.18-1 libthai0_0.1.18-1 libtiff4_3.9.6-7 libtiff4-dev_3.9.6-7 libtiffxx0c2_3.9.6-7 libtimedate-perl_1.2000-1 libtinfo-dev_5.9-10 libtinfo5_5.9-10 libunistring0_0.9.3-5 libusb-0.1-4_2:0.1.12-20 libustr-1.0-1_1.0.4-3 libuuid1_2.20.1-5.1 libvorbis0a_1.3.2-1.3 libvorbisenc2_1.3.2-1.3 libwrap0_7.6.q-23 libx11-6_2:1.5.0-1 libx11-data_2:1.5.0-1 libx11-dev_2:1.5.0-1 libx11-xcb1_2:1.5.0-1 libxau-dev_1:1.0.7-1 libxau6_1:1.0.7-1 libxaw7_2:1.0.10-2 libxcb-render0_1.8.1-1 libxcb-render0-dev_1.8.1-1 libxcb-shm0_1.8.1-1 libxcb-shm0-dev_1.8.1-1 libxcb1_1.8.1-1 libxcb1-dev_1.8.1-1 libxcomposite1_1:0.4.3-2 libxcursor1_1:1.1.13-1 libxdamage1_1:1.1.3-2 libxdmcp-dev_1:1.1.1-1 libxdmcp6_1:1.1.1-1 libxext-dev_2:1.3.1-2 libxext6_2:1.3.1-2 libxfixes3_1:5.0-4 libxfont1_1:1.4.5-2 libxft-dev_2.3.1-1 libxft2_2.3.1-1 libxi6_2:1.6.1-1 libxinerama1_2:1.1.2-1 libxkbfile1_1:1.0.8-1 libxml2_2.8.0+dfsg1-4 libxmu6_2:1.1.1-1 libxmuu1_2:1.1.1-1 libxpm4_1:3.5.10-1 libxrandr2_2:1.3.2-2 libxrender-dev_1:0.9.7-1 libxrender1_1:0.9.7-1 libxss-dev_1:1.2.2-1 libxss1_1:1.2.2-1 libxt-dev_1:1.1.3-1 libxt6_1:1.1.3-1 libxtst6_2:1.2.1-1 linux-libc-dev_3.2.21-1+rpi1 login_1:4.1.5.1-1 lsb-base_4.1+Debian7 luatex_0.70.1.20120524-3 m4_1.4.16-3 make_3.81-8.2 man-db_2.6.2-1 mawk_1.3.3-17 mime-support_3.52-1 mount_2.20.1-5.1 mpack_1.6-8 multiarch-support_2.13-33 ncurses-base_5.9-10 ncurses-bin_5.9-10 openjdk-6-jdk_6b24-1.11.3-2+rpi1 openjdk-6-jre_6b24-1.11.3-2+rpi1 openjdk-6-jre-headless_6b24-1.11.3-2+rpi1 openjdk-6-jre-lib_6b24-1.11.3-2+rpi1 openssl_1.0.1c-3+rpi1 otf-freefont_20120503-1 passwd_1:4.1.5.1-1 patch_2.6.1-3 perl_5.14.2-12+rpi1 perl-base_5.14.2-12+rpi1 perl-modules_5.14.2-12+rpi1 pkg-config_0.26-1 po-debconf_1.0.16+nmu2 preview-latex-style_11.86-10 python_2.7.3~rc2-1 python-minimal_2.7.3~rc2-1 python2.7_2.7.3~rc2-2.1 python2.7-minimal_2.7.3~rc2-2.1 raspbian-archive-keyring_20120528.2 readline-common_6.2-8 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-r-base-dummy_0.invalid.0 sed_4.2.1-10 sensible-utils_0.0.7 shared-mime-info_1.0-1 sysv-rc_2.88dsf-22.1 sysvinit_2.88dsf-22.1 sysvinit-utils_2.88dsf-22.1 tar_1.26-4 tcl8.5_8.5.11-2 tcl8.5-dev_8.5.11-2 tex-common_3.13 texi2html_1.82-1 texinfo_4.13a.dfsg.1-10 texlive-base_2012.20120611-3 texlive-binaries_2012.20120628-1 texlive-common_2012.20120611-3 texlive-doc-base_2012.20120611-1 texlive-extra-utils_2012.20120611-1 texlive-fonts-extra_2012.20120611-1 texlive-fonts-recommended_2012.20120611-3 texlive-generic-recommended_2012.20120611-3 texlive-latex-base_2012.20120611-3 texlive-latex-extra_2012.20120611-1 texlive-latex-recommended_2012.20120611-3 texlive-pictures_2012.20120611-3 tk8.5_8.5.11-2 tk8.5-dev_8.5.11-2 ttf-dejavu-core_2.33-2 ttf-dejavu-extra_2.33-2 ttf-freefont_20120503-1 ttf-marvosym_0.1+dfsg-2 tzdata_2012c-1 tzdata-java_2012c-1 ucf_3.0025+nmu3 util-linux_2.20.1-5.1 x11-common_1:7.7+1 x11-xkb-utils_7.7~1 x11proto-core-dev_7.0.23-1 x11proto-input-dev_2.2-1 x11proto-kb-dev_1.0.6-2 x11proto-render-dev_2:0.11.1-2 x11proto-scrnsaver-dev_1.2.2-1 x11proto-xext-dev_7.2.1-1 xauth_1:1.0.7-1 xdg-utils_1.1.0~rc1+git20111210-6 xfonts-base_1:1.0.3 xfonts-encodings_1:1.0.4-1 xfonts-utils_1:7.7~1 xkb-data_2.5.1-1 xorg-sgml-doctools_1:1.10-1 xserver-common_2:1.12.1.902-1 xtrans-dev_1.2.7-1 xvfb_2:1.12.1.902-1 xz-utils_5.1.1alpha+20120614-1 zlib1g_1:1.2.7.dfsg-13 zlib1g-dev_1:1.2.7.dfsg-13 ┌──────────────────────────────────────────────────────────────────────────────┐ │ Build │ └──────────────────────────────────────────────────────────────────────────────┘ Unpack source ───────────── gpgv: keyblock resource `/sbuild-nonexistent/.gnupg/trustedkeys.gpg': file open error gpgv: Signature made Sun Jul 15 23:05:54 2012 UTC using DSA key ID 91B0D3B7 gpgv: Can't check signature: public key not found dpkg-source: warning: failed to verify signature on ./r-base_2.15.1-4.dsc dpkg-source: info: extracting r-base in r-base-2.15.1 dpkg-source: info: unpacking r-base_2.15.1.orig.tar.gz dpkg-source: info: applying r-base_2.15.1-4.diff.gz dpkg-source: info: upstream files that have been modified: r-base-2.15.1/src/library/tools/R/install.R r-base-2.15.1/src/modules/X11/devX11.c r-base-2.15.1/src/modules/X11/rlogo_icon.h Check disc space ──────────────── Sufficient free space for build User Environment ──────────────── HOME=/sbuild-nonexistent LOGNAME=buildd PATH=/usr/sbin:/usr/bin:/sbin:/bin:/usr/X11R6/bin:/usr/games SCHROOT_ALIAS_NAME=chroot:wheezy-staging-armhf-sbuild SCHROOT_CHROOT_NAME=wheezy-staging-armhf-sbuild SCHROOT_COMMAND=env SCHROOT_GID=108 SCHROOT_GROUP=buildd SCHROOT_SESSION_ID=wheezy-staging-armhf-sbuild-5f964193-af09-4399-860c-f78ecb4b2378 SCHROOT_UID=106 SCHROOT_USER=buildd SHELL=/bin/sh USER=buildd dpkg-buildpackage ───────────────── dpkg-buildpackage: source package r-base dpkg-buildpackage: source version 2.15.1-4 dpkg-source --before-build r-base-2.15.1 dpkg-buildpackage: host architecture armhf fakeroot debian/rules clean *** clean *** dh_testdir dh_testroot rm -f configure-stamp \ build-stamp build-indep-stamp build-arch-stamp \ make-stamp make-arch-stamp make-indep-stamp \ install-indep-stamp install-arch-stamp \ check-stamp [ ! -f Makefile ] || /usr/bin/make distclean rm -f `find . -name "*~"` rm -rf debian/tmp debian/files* core debian/substvars rm -f doc/html/function.html doc/html/packages.html rm -f modules/*.so src/unix/Rscript dh_clean debian/rules build-arch *** configure *** #automake #autoconf dh_testdir R_PAPERSIZE=letter \ R_BROWSER=xdg-open \ PAGER=/usr/bin/pager \ PERL=/usr/bin/perl \ R_UNZIPCMD=/usr/bin/unzip \ R_ZIPCMD=/usr/bin/zip \ R_PRINTCMD=/usr/bin/lpr \ LIBnn=lib \ AWK=/usr/bin/awk \ CC="gcc -std=gnu99" \ CXX=g++ \ F77=gfortran \ FC=gfortran \ CFLAGS="-O3 -pipe -g" \ CXXFLAGS="-O3 -pipe -g" \ FFLAGS="-O3 -pipe -g" \ FCFLAGS="-O3 -pipe -g" \ CPPFLAGS= \ LDFLAGS= \ FLIBS= \ rsharedir=/usr/share/R/share \ rincludedir=/usr/share/R/include \ rdocdir=/usr/share/R/doc \ ./configure --prefix=/usr \ --with-cairo \ --with-jpeglib \ --with-readline \ --with-tcltk \ --with-system-bzlib \ --with-system-pcre \ --with-system-zlib \ --mandir=/usr/share/man \ --infodir=/usr/share/info \ --datadir=/usr/share/R/share \ --includedir=/usr/share/R/include \ --with-blas \ --with-lapack \ --enable-R-profiling \ --enable-R-shlib \ --enable-memory-profiling \ --without-recommended-packages \ --build arm-linux-gnueabihf checking build system type... arm-unknown-linux-gnueabihf checking host system type... arm-unknown-linux-gnueabihf loading site script './config.site' loading build-specific script './config.site' checking for pwd... /bin/pwd checking whether builddir is srcdir... yes checking for working aclocal... missing checking for working autoconf... missing checking for working automake... missing checking for working autoheader... missing checking for gawk... /usr/bin/awk checking whether ln -s works... yes checking for bison... bison -y checking for ar... ar checking for a BSD-compatible install... /usr/bin/install -c checking for sed... /bin/sed checking for which... /usr/bin/which checking for /usr/bin/pager... /usr/bin/pager checking for gtar... no checking for gnutar... no checking for tar... /bin/tar checking for tex... /usr/bin/tex checking for pdftex... /usr/bin/pdftex checking for pdflatex... /usr/bin/pdflatex checking for makeindex... /usr/bin/makeindex checking for makeinfo... /usr/bin/makeinfo checking whether makeinfo version is at least 4.7... yes checking for ginstall-info... no checking for install-info... /usr/sbin/install-info checking for texi2dvi... 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(cached) extern size_t iconv (iconv_t cd, char * *inbuf, size_t *inbytesleft, char * *outbuf, size_t *outbytesleft); checking for NL_LOCALE_NAME macro... yes checking for bison... bison checking version of bison... 2.5, ok checking for long long int... yes checking for long double... yes checking for wchar_t... yes checking for wint_t... yes checking for intmax_t... yes checking whether printf() supports POSIX/XSI format strings... yes checking whether we are using the GNU C Library 2.1 or newer... yes checking for stdint.h... (cached) yes checking for SIZE_MAX... yes checking for stdint.h... (cached) yes checking for CFPreferencesCopyAppValue... no checking for CFLocaleCopyCurrent... no checking for ptrdiff_t... yes checking stddef.h usability... yes checking stddef.h presence... yes checking for stddef.h... yes checking for stdlib.h... (cached) yes checking for string.h... (cached) yes checking for asprintf... yes checking for fwprintf... yes checking for putenv... 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(cached) no checking whether included gettext is requested... no checking for GNU gettext in libc... yes checking whether to use NLS... yes checking where the gettext function comes from... libc Finished configuring src/extra/intl directory using as R_SHELL for scripts ... /bin/bash configure: creating ./config.status config.status: creating Makeconf config.status: creating Makefile config.status: creating doc/Makefile config.status: creating doc/html/Makefile config.status: creating doc/manual/Makefile config.status: creating etc/Makefile config.status: creating etc/Makeconf config.status: creating etc/Renviron config.status: creating etc/ldpaths config.status: creating m4/Makefile config.status: creating po/Makefile.in config.status: creating share/Makefile config.status: creating src/Makefile config.status: creating src/appl/Makefile config.status: creating src/extra/Makefile config.status: creating src/extra/blas/Makefile config.status: creating src/extra/bzip2/Makefile config.status: creating src/extra/intl/Makefile config.status: creating src/extra/pcre/Makefile config.status: creating src/extra/tre/Makefile config.status: creating src/extra/xdr/Makefile config.status: creating src/extra/xz/Makefile config.status: creating src/extra/zlib/Makefile config.status: creating src/include/Makefile config.status: creating src/include/Rmath.h0 config.status: creating src/include/R_ext/Makefile config.status: creating src/library/Recommended/Makefile config.status: creating src/library/Makefile config.status: creating src/library/base/DESCRIPTION config.status: creating src/library/base/Makefile config.status: creating src/library/compiler/DESCRIPTION config.status: creating src/library/compiler/Makefile config.status: creating src/library/datasets/DESCRIPTION config.status: creating src/library/datasets/Makefile config.status: creating src/library/graphics/DESCRIPTION config.status: creating src/library/graphics/Makefile config.status: creating src/library/grDevices/DESCRIPTION config.status: creating src/library/grDevices/Makefile config.status: creating src/library/grDevices/src/Makefile config.status: creating src/library/grDevices/src/cairo/Makefile config.status: creating src/library/grid/DESCRIPTION config.status: creating src/library/grid/Makefile config.status: creating src/library/grid/src/Makefile config.status: creating src/library/methods/DESCRIPTION config.status: creating src/library/methods/Makefile config.status: creating src/library/methods/src/Makefile config.status: creating src/library/parallel/DESCRIPTION config.status: creating src/library/parallel/Makefile config.status: creating src/library/parallel/src/Makefile config.status: creating src/library/profile/Makefile config.status: creating src/library/stats/DESCRIPTION config.status: creating src/library/stats/Makefile config.status: creating src/library/stats/src/Makefile config.status: creating src/library/stats4/DESCRIPTION config.status: creating src/library/stats4/Makefile config.status: creating src/library/splines/DESCRIPTION config.status: creating src/library/splines/Makefile config.status: creating src/library/splines/src/Makefile config.status: creating src/library/tcltk/DESCRIPTION config.status: creating src/library/tcltk/Makefile config.status: creating src/library/tcltk/src/Makefile config.status: creating src/library/tools/DESCRIPTION config.status: creating src/library/tools/Makefile config.status: creating src/library/tools/src/Makefile config.status: creating src/library/utils/DESCRIPTION config.status: creating src/library/utils/Makefile config.status: creating src/main/Makefile config.status: creating src/modules/Makefile config.status: creating src/modules/X11/Makefile config.status: creating src/modules/internet/Makefile config.status: creating src/modules/lapack/Makefile config.status: creating src/modules/vfonts/Makefile config.status: creating src/nmath/Makefile config.status: creating src/nmath/standalone/Makefile config.status: creating src/scripts/Makefile config.status: creating src/scripts/R.sh config.status: creating src/scripts/Rcmd config.status: creating src/scripts/f77_f2c config.status: creating src/scripts/mkinstalldirs config.status: creating src/scripts/pager config.status: creating src/unix/Makefile config.status: creating tests/Makefile config.status: creating tests/Embedding/Makefile config.status: creating tests/Examples/Makefile config.status: creating tests/Native/Makefile config.status: creating tools/Makefile config.status: creating src/include/config.h config.status: executing libtool commands config.status: executing po-directories commands config.status: creating po/POTFILES config.status: creating po/Makefile config.status: executing stamp-h commands R is now configured for arm-unknown-linux-gnueabihf Source directory: . Installation directory: /usr C compiler: gcc -std=gnu99 -O3 -pipe -g Fortran 77 compiler: gfortran -O3 -pipe -g C++ compiler: g++ -O3 -pipe -g Fortran 90/95 compiler: gfortran -O3 -pipe -g Obj-C compiler: Interfaces supported: X11, tcltk External libraries: readline, BLAS(generic), LAPACK(generic), lzma Additional capabilities: PNG, JPEG, TIFF, NLS, cairo Options enabled: shared R library, R profiling, memory profiling, Java Recommended packages: no touch configure-stamp *** make-arch *** /usr/bin/make CFLAGS="-O3 -pipe -g" \ CXXFLAGS="-O3 -pipe -g" \ FFLAGS="-O3 -pipe -g" \ FCFLAGS="-O3 -pipe -g" \ CC="gcc -std=gnu99" \ CXX=g++ \ F77=gfortran \ LDFLAGS="-Wl,-O1" \ R make[1]: Entering directory `/«PKGBUILDDIR»' make[2]: Entering directory `/«PKGBUILDDIR»/m4' make[2]: Nothing to be done for `R'. make[2]: Leaving directory `/«PKGBUILDDIR»/m4' make[2]: Entering directory `/«PKGBUILDDIR»/tools' make[2]: Nothing to be done for `R'. make[2]: Leaving directory `/«PKGBUILDDIR»/tools' make[2]: Entering directory `/«PKGBUILDDIR»/doc' make[3]: Entering directory `/«PKGBUILDDIR»/doc/html' make[3]: Leaving directory `/«PKGBUILDDIR»/doc/html' make[3]: Entering directory `/«PKGBUILDDIR»/doc/manual' make[3]: Nothing to be done for `R'. make[3]: Leaving directory `/«PKGBUILDDIR»/doc/manual' make[2]: Leaving directory `/«PKGBUILDDIR»/doc' make[2]: Entering directory `/«PKGBUILDDIR»/etc' make[2]: Leaving directory `/«PKGBUILDDIR»/etc' make[2]: Entering directory `/«PKGBUILDDIR»/share' make[2]: Leaving directory `/«PKGBUILDDIR»/share' make[2]: Entering directory `/«PKGBUILDDIR»/src' make[3]: Entering directory `/«PKGBUILDDIR»/src/scripts' creating src/scripts/R.fe make[4]: Entering directory `/«PKGBUILDDIR»/src/scripts' mkdir -p -- ../../bin make[4]: Leaving directory `/«PKGBUILDDIR»/src/scripts' make[3]: Leaving directory `/«PKGBUILDDIR»/src/scripts' make[3]: Entering directory `/«PKGBUILDDIR»/src/include' mkdir -p -- ../../include make[4]: Entering directory `/«PKGBUILDDIR»/src/include/R_ext' mkdir -p -- ../../../include/R_ext make[4]: Leaving directory `/«PKGBUILDDIR»/src/include/R_ext' make[3]: Leaving directory `/«PKGBUILDDIR»/src/include' make[3]: Entering directory `/«PKGBUILDDIR»/src/extra' make[4]: Entering directory `/«PKGBUILDDIR»/src/extra/tre' make[5]: Entering directory `/«PKGBUILDDIR»/src/extra/tre' making regcomp.d from regcomp.c making regerror.d from regerror.c making regexec.d from regexec.c making tre-ast.d from tre-ast.c making tre-compile.d from tre-compile.c making tre-match-approx.d from tre-match-approx.c making tre-match-backtrack.d from tre-match-backtrack.c making tre-match-parallel.d from tre-match-parallel.c making tre-mem.d from tre-mem.c making tre-parse.d from tre-parse.c making tre-stack.d from tre-stack.c making xmalloc.d from xmalloc.c make[5]: Leaving directory `/«PKGBUILDDIR»/src/extra/tre' make[5]: Entering directory `/«PKGBUILDDIR»/src/extra/tre' gcc -std=gnu99 -I. -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -fvisibility=hidden -c regcomp.c -o regcomp.o gcc -std=gnu99 -I. -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -fvisibility=hidden -c regerror.c -o regerror.o gcc -std=gnu99 -I. -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -fvisibility=hidden -c regexec.c -o regexec.o gcc -std=gnu99 -I. -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -fvisibility=hidden -c tre-ast.c -o tre-ast.o gcc -std=gnu99 -I. -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -fvisibility=hidden -c tre-compile.c -o tre-compile.o gcc -std=gnu99 -I. -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -fvisibility=hidden -c tre-match-approx.c -o tre-match-approx.o gcc -std=gnu99 -I. -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -fvisibility=hidden -c tre-match-backtrack.c -o tre-match-backtrack.o gcc -std=gnu99 -I. -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -fvisibility=hidden -c tre-match-parallel.c -o tre-match-parallel.o gcc -std=gnu99 -I. -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -fvisibility=hidden -c tre-mem.c -o tre-mem.o gcc -std=gnu99 -I. -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -fvisibility=hidden -c tre-parse.c -o tre-parse.o gcc -std=gnu99 -I. -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -fvisibility=hidden -c tre-stack.c -o tre-stack.o gcc -std=gnu99 -I. -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -fvisibility=hidden -c xmalloc.c -o xmalloc.o rm -f libtre.a ar cr libtre.a regcomp.o regerror.o regexec.o tre-ast.o tre-compile.o tre-match-approx.o tre-match-backtrack.o tre-match-parallel.o tre-mem.o tre-parse.o tre-stack.o xmalloc.o ranlib libtre.a make[5]: Leaving directory `/«PKGBUILDDIR»/src/extra/tre' make[4]: Leaving directory `/«PKGBUILDDIR»/src/extra/tre' make[3]: Leaving directory `/«PKGBUILDDIR»/src/extra' make[3]: Entering directory `/«PKGBUILDDIR»/src/appl' make[4]: Entering directory `/«PKGBUILDDIR»/src/appl' making bakslv.d from bakslv.c making binning.d from binning.c making cpoly.d from cpoly.c making cumsum.d from cumsum.c making fft.d from fft.c making fmin.d from fmin.c making integrate.d from integrate.c making interv.d from interv.c making lbfgsb.d from lbfgsb.c making machar.d from machar.c making maxcol.d from maxcol.c making pretty.d from pretty.c making rcont.d from rcont.c making rowsum.d from rowsum.c making stem.d from stem.c making strsignif.d from strsignif.c making tabulate.d from tabulate.c making uncmin.d from uncmin.c making zeroin.d from zeroin.c make[4]: Leaving directory `/«PKGBUILDDIR»/src/appl' make[4]: Entering directory `/«PKGBUILDDIR»/src/appl' gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c bakslv.c -o bakslv.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c binning.c -o binning.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c cpoly.c -o cpoly.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c cumsum.c -o cumsum.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c fft.c -o fft.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c fmin.c -o fmin.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c integrate.c -o integrate.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c interv.c -o interv.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c lbfgsb.c -o lbfgsb.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c machar.c -o machar.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c maxcol.c -o maxcol.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c pretty.c -o pretty.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c rcont.c -o rcont.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c rowsum.c -o rowsum.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c stem.c -o stem.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c strsignif.c -o strsignif.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c tabulate.c -o tabulate.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c uncmin.c -o uncmin.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c zeroin.c -o zeroin.o gfortran -fopenmp -fpic -O3 -pipe -g -c ch2inv.f -o ch2inv.o gfortran -fopenmp -fpic -O3 -pipe -g -c chol.f -o chol.o gfortran -fopenmp -fpic -O3 -pipe -g -c dchdc.f -o dchdc.o gfortran -fopenmp -fpic -O3 -pipe -g -c dpbfa.f -o dpbfa.o gfortran -fopenmp -fpic -O3 -pipe -g -c dpbsl.f -o dpbsl.o gfortran -fopenmp -fpic -O3 -pipe -g -c dpoco.f -o dpoco.o gfortran -fopenmp -fpic -O3 -pipe -g -c dpodi.f -o dpodi.o gfortran -fopenmp -fpic -O3 -pipe -g -c dpofa.f -o dpofa.o gfortran -fopenmp -fpic -O3 -pipe -g -c dposl.f -o dposl.o gfortran -fopenmp -fpic -O3 -pipe -g -c dqrdc.f -o dqrdc.o gfortran -fopenmp -fpic -O3 -pipe -g -c dqrdc2.f -o dqrdc2.o gfortran -fopenmp -fpic -O3 -pipe -g -c dqrls.f -o dqrls.o gfortran -fopenmp -fpic -O3 -pipe -g -c dqrsl.f -o dqrsl.o gfortran -fopenmp -fpic -O3 -pipe -g -c dqrutl.f -o dqrutl.o gfortran -fopenmp -fpic -O3 -pipe -g -c dsvdc.f -o dsvdc.o gfortran -fopenmp -fpic -O3 -pipe -g -c dtrco.f -o dtrco.o gfortran -fopenmp -fpic -O3 -pipe -g -c dtrsl.f -o dtrsl.o gfortran -fopenmp -fpic -O3 -pipe -g -c eigen.f -o eigen.o rm -f libappl.a ar cr libappl.a bakslv.o binning.o cpoly.o cumsum.o fft.o fmin.o integrate.o interv.o lbfgsb.o machar.o maxcol.o pretty.o rcont.o rowsum.o stem.o strsignif.o tabulate.o uncmin.o zeroin.o ch2inv.o chol.o dchdc.o dpbfa.o dpbsl.o dpoco.o dpodi.o dpofa.o dposl.o dqrdc.o dqrdc2.o dqrls.o dqrsl.o dqrutl.o dsvdc.o dtrco.o dtrsl.o eigen.o ranlib libappl.a make[4]: Leaving directory `/«PKGBUILDDIR»/src/appl' make[3]: Leaving directory `/«PKGBUILDDIR»/src/appl' make[3]: Entering directory `/«PKGBUILDDIR»/src/nmath' make[4]: Entering directory `/«PKGBUILDDIR»/src/nmath' making mlutils.d from mlutils.c making d1mach.d from d1mach.c making i1mach.d from i1mach.c making fmax2.d from fmax2.c making fmin2.d from fmin2.c making fprec.d from fprec.c making fround.d from fround.c making ftrunc.d from ftrunc.c making sign.d from sign.c making fsign.d from fsign.c making imax2.d from imax2.c making imin2.d from imin2.c making chebyshev.d from chebyshev.c making log1p.d from log1p.c making expm1.d from expm1.c making lgammacor.d from lgammacor.c making gammalims.d from gammalims.c making stirlerr.d from stirlerr.c making bd0.d from bd0.c making gamma.d from gamma.c making lgamma.d from lgamma.c making gamma_cody.d from gamma_cody.c making beta.d from beta.c making lbeta.d from lbeta.c making polygamma.d from polygamma.c making bessel_i.d from bessel_i.c making bessel_j.d from bessel_j.c making bessel_k.d from bessel_k.c making bessel_y.d from bessel_y.c making choose.d from choose.c making snorm.d from snorm.c making sexp.d from sexp.c making dgamma.d from dgamma.c making pgamma.d from pgamma.c making qgamma.d from qgamma.c making rgamma.d from rgamma.c making dbeta.d from dbeta.c making pbeta.d from pbeta.c making qbeta.d from qbeta.c making rbeta.d from rbeta.c making dunif.d from dunif.c making punif.d from punif.c making qunif.d from qunif.c making runif.d from runif.c making dnorm.d from dnorm.c making pnorm.d from pnorm.c making qnorm.d from qnorm.c making rnorm.d from rnorm.c making dlnorm.d from dlnorm.c making plnorm.d from plnorm.c making qlnorm.d from qlnorm.c making rlnorm.d from rlnorm.c making df.d from df.c making pf.d from pf.c making qf.d from qf.c making rf.d from rf.c making dnf.d from dnf.c making dt.d from dt.c making pt.d from pt.c making qt.d from qt.c making rt.d from rt.c making dnt.d from dnt.c making dchisq.d from dchisq.c making pchisq.d from pchisq.c making qchisq.d from qchisq.c making rchisq.d from rchisq.c making rnchisq.d from rnchisq.c making dbinom.d from dbinom.c making pbinom.d from pbinom.c making qbinom.d from qbinom.c making rbinom.d from rbinom.c making rmultinom.d from rmultinom.c making dcauchy.d from dcauchy.c making pcauchy.d from pcauchy.c making qcauchy.d from qcauchy.c making rcauchy.d from rcauchy.c making dexp.d from dexp.c making pexp.d from pexp.c making qexp.d from qexp.c making rexp.d from rexp.c making dgeom.d from dgeom.c making pgeom.d from pgeom.c making qgeom.d from qgeom.c making rgeom.d from rgeom.c making dhyper.d from dhyper.c making phyper.d from phyper.c making qhyper.d from qhyper.c making rhyper.d from rhyper.c making dnbinom.d from dnbinom.c making pnbinom.d from pnbinom.c making qnbinom.d from qnbinom.c making rnbinom.d from rnbinom.c making dpois.d from dpois.c making ppois.d from ppois.c making qpois.d from qpois.c making rpois.d from rpois.c making dweibull.d from dweibull.c making pweibull.d from pweibull.c making qweibull.d from qweibull.c making rweibull.d from rweibull.c making dlogis.d from dlogis.c making plogis.d from plogis.c making qlogis.d from qlogis.c making rlogis.d from rlogis.c making dnchisq.d from dnchisq.c making pnchisq.d from pnchisq.c making qnchisq.d from qnchisq.c making dnbeta.d from dnbeta.c making pnbeta.d from pnbeta.c making qnbeta.d from qnbeta.c making pnf.d from pnf.c making pnt.d from pnt.c making qnf.d from qnf.c making qnt.d from qnt.c making ptukey.d from ptukey.c making qtukey.d from qtukey.c making toms708.d from toms708.c making wilcox.d from wilcox.c making signrank.d from signrank.c make[4]: Leaving directory `/«PKGBUILDDIR»/src/nmath' make[4]: Entering directory `/«PKGBUILDDIR»/src/nmath' gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c mlutils.c -o mlutils.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c d1mach.c -o d1mach.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c i1mach.c -o i1mach.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c fmax2.c -o fmax2.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c fmin2.c -o fmin2.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c fprec.c -o fprec.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c fround.c -o fround.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c ftrunc.c -o ftrunc.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c sign.c -o sign.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c fsign.c -o fsign.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c imax2.c -o imax2.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c imin2.c -o imin2.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c chebyshev.c -o chebyshev.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c log1p.c -o log1p.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c expm1.c -o expm1.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c lgammacor.c -o lgammacor.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c gammalims.c -o gammalims.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c stirlerr.c -o stirlerr.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c bd0.c -o bd0.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c gamma.c -o gamma.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c lgamma.c -o lgamma.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c gamma_cody.c -o gamma_cody.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c beta.c -o beta.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c lbeta.c -o lbeta.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c polygamma.c -o polygamma.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c bessel_i.c -o bessel_i.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c bessel_j.c -o bessel_j.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c bessel_k.c -o bessel_k.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c bessel_y.c -o bessel_y.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c choose.c -o choose.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c snorm.c -o snorm.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c sexp.c -o sexp.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c dgamma.c -o dgamma.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c pgamma.c -o pgamma.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c qgamma.c -o qgamma.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c rgamma.c -o rgamma.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c dbeta.c -o dbeta.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c pbeta.c -o pbeta.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c qbeta.c -o qbeta.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c rbeta.c -o rbeta.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c dunif.c -o dunif.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c punif.c -o punif.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c qunif.c -o qunif.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c runif.c -o runif.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c dnorm.c -o dnorm.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c pnorm.c -o pnorm.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c qnorm.c -o qnorm.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c rnorm.c -o rnorm.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c dlnorm.c -o dlnorm.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c plnorm.c -o plnorm.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c qlnorm.c -o qlnorm.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c rlnorm.c -o rlnorm.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c df.c -o df.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c pf.c -o pf.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c qf.c -o qf.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c rf.c -o rf.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c dnf.c -o dnf.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c dt.c -o dt.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c pt.c -o pt.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c qt.c -o qt.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c rt.c -o rt.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c dnt.c -o dnt.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c dchisq.c -o dchisq.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c pchisq.c -o pchisq.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c qchisq.c -o qchisq.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c rchisq.c -o rchisq.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c rnchisq.c -o rnchisq.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c dbinom.c -o dbinom.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c pbinom.c -o pbinom.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c qbinom.c -o qbinom.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c rbinom.c -o rbinom.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c rmultinom.c -o rmultinom.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c dcauchy.c -o dcauchy.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c pcauchy.c -o pcauchy.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c qcauchy.c -o qcauchy.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c rcauchy.c -o rcauchy.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c dexp.c -o dexp.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c pexp.c -o pexp.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c qexp.c -o qexp.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c rexp.c -o rexp.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c dgeom.c -o dgeom.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c pgeom.c -o pgeom.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c qgeom.c -o qgeom.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c rgeom.c -o rgeom.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c dhyper.c -o dhyper.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c phyper.c -o phyper.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c qhyper.c -o qhyper.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c rhyper.c -o rhyper.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c dnbinom.c -o dnbinom.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c pnbinom.c -o pnbinom.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c qnbinom.c -o qnbinom.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c rnbinom.c -o rnbinom.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c dpois.c -o dpois.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c ppois.c -o ppois.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c qpois.c -o qpois.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c rpois.c -o rpois.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c dweibull.c -o dweibull.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c pweibull.c -o pweibull.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c qweibull.c -o qweibull.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c rweibull.c -o rweibull.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c dlogis.c -o dlogis.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c plogis.c -o plogis.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c qlogis.c -o qlogis.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c rlogis.c -o rlogis.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c dnchisq.c -o dnchisq.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c pnchisq.c -o pnchisq.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c qnchisq.c -o qnchisq.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c dnbeta.c -o dnbeta.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c pnbeta.c -o pnbeta.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c qnbeta.c -o qnbeta.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c pnf.c -o pnf.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c pnt.c -o pnt.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c qnf.c -o qnf.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c qnt.c -o qnt.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c ptukey.c -o ptukey.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c qtukey.c -o qtukey.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c toms708.c -o toms708.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c wilcox.c -o wilcox.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c signrank.c -o signrank.o rm -rf libnmath.a ar cr libnmath.a mlutils.o d1mach.o i1mach.o fmax2.o fmin2.o fprec.o fround.o ftrunc.o sign.o fsign.o imax2.o imin2.o chebyshev.o log1p.o expm1.o lgammacor.o gammalims.o stirlerr.o bd0.o gamma.o lgamma.o gamma_cody.o beta.o lbeta.o polygamma.o bessel_i.o bessel_j.o bessel_k.o bessel_y.o choose.o snorm.o sexp.o dgamma.o pgamma.o qgamma.o rgamma.o dbeta.o pbeta.o qbeta.o rbeta.o dunif.o punif.o qunif.o runif.o dnorm.o pnorm.o qnorm.o rnorm.o dlnorm.o plnorm.o qlnorm.o rlnorm.o df.o pf.o qf.o rf.o dnf.o dt.o pt.o qt.o rt.o dnt.o dchisq.o pchisq.o qchisq.o rchisq.o rnchisq.o dbinom.o pbinom.o qbinom.o rbinom.o rmultinom.o dcauchy.o pcauchy.o qcauchy.o rcauchy.o dexp.o pexp.o qexp.o rexp.o dgeom.o pgeom.o qgeom.o rgeom.o dhyper.o phyper.o qhyper.o rhyper.o dnbinom.o pnbinom.o qnbinom.o rnbinom.o dpois.o ppois.o qpois.o rpois.o dweibull.o pweibull.o qweibull.o rweibull.o dlogis.o plogis.o qlogis.o rlogis.o dnchisq.o pnchisq.o qnchisq.o dnbeta.o pnbeta.o qnbeta.o pnf.o pnt.o qnf.o qnt.o ptukey.o qtukey.o toms708.o wilcox.o signrank.o ranlib libnmath.a make[4]: Leaving directory `/«PKGBUILDDIR»/src/nmath' make[3]: Leaving directory `/«PKGBUILDDIR»/src/nmath' make[3]: Entering directory `/«PKGBUILDDIR»/src/unix' config.status: creating src/unix/Makefile make[3]: Leaving directory `/«PKGBUILDDIR»/src/unix' make[3]: Entering directory `/«PKGBUILDDIR»/src/unix' make[4]: Entering directory `/«PKGBUILDDIR»/src/unix' making dynload.d from dynload.c making edit.d from edit.c making stubs.d from stubs.c making system.d from system.c making sys-unix.d from sys-unix.c making sys-std.d from sys-std.c making X11.d from X11.c making aqua.d from aqua.c making Rembedded.d from Rembedded.c make[4]: Leaving directory `/«PKGBUILDDIR»/src/unix' make[4]: Entering directory `/«PKGBUILDDIR»/src/unix' gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c dynload.c -o dynload.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c edit.c -o edit.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c stubs.c -o stubs.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c system.c -o system.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c sys-unix.c -o sys-unix.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c sys-std.c -o sys-std.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c X11.c -o X11.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c aqua.c -o aqua.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c Rembedded.c -o Rembedded.o rm -rf libunix.a ar cr libunix.a dynload.o edit.o stubs.o system.o sys-unix.o sys-std.o X11.o aqua.o Rembedded.o ranlib libunix.a make[4]: Leaving directory `/«PKGBUILDDIR»/src/unix' make[4]: Entering directory `/«PKGBUILDDIR»/src/unix' gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -DR_HOME='"/«PKGBUILDDIR»"' -o Rscript \ ./Rscript.c make[4]: Leaving directory `/«PKGBUILDDIR»/src/unix' make[3]: Leaving directory `/«PKGBUILDDIR»/src/unix' make[3]: Entering directory `/«PKGBUILDDIR»/src/main' config.status: creating src/main/Makefile make[3]: Leaving directory `/«PKGBUILDDIR»/src/main' make[3]: Entering directory `/«PKGBUILDDIR»/src/main' make[4]: Entering directory `/«PKGBUILDDIR»/src/main' making CConverters.d from CConverters.c making CommandLineArgs.d from CommandLineArgs.c making Rdynload.d from Rdynload.c making Renviron.d from Renviron.c making RNG.d from RNG.c making agrep.d from agrep.c making apply.d from apply.c making arithmetic.d from arithmetic.c making array.d from array.c making attrib.d from attrib.c making base.d from base.c making bind.d from bind.c making builtin.d from builtin.c making character.d from character.c making coerce.d from coerce.c making colors.d from colors.c making complex.d from complex.c making connections.d from connections.c making context.d from context.c making cov.d from cov.c making cum.d from cum.c making dcf.d from dcf.c making datetime.d from datetime.c making debug.d from debug.c making deparse.d from deparse.c making deriv.d from deriv.c making devices.d from devices.c making dotcode.d from dotcode.c making dounzip.d from dounzip.c making dstruct.d from dstruct.c making duplicate.d from duplicate.c making engine.d from engine.c making envir.d from envir.c making errors.d from errors.c making eval.d from eval.c making format.d from format.c making fourier.d from fourier.c making gevents.d from gevents.c making gram.d from gram.c making gram-ex.d from gram-ex.c making gramLatex.d from gramLatex.c making gramRd.d from gramRd.c making graphics.d from graphics.c making grep.d from grep.c making identical.d from identical.c making inlined.d from inlined.c making inspect.d from inspect.c making internet.d from internet.c making iosupport.d from iosupport.c making lapack.d from lapack.c making list.d from list.c making localecharset.d from localecharset.c making logic.d from logic.c making main.d from main.c making mapply.d from mapply.c making match.d from match.c making memory.d from memory.c making model.d from model.c making names.d from names.c making objects.d from objects.c making optim.d from optim.c making optimize.d from optimize.c making options.d from options.c making par.d from par.c making paste.d from paste.c making platform.d from platform.c making plot.d from plot.c making plot3d.d from plot3d.c making plotmath.d from plotmath.c making print.d from print.c making printarray.d from printarray.c making printvector.d from printvector.c making printutils.d from printutils.c making qsort.d from qsort.c making random.d from random.c making raw.d from raw.c making registration.d from registration.c making relop.d from relop.c making rlocale.d from rlocale.c making saveload.d from saveload.c making scan.d from scan.c making seq.d from seq.c making serialize.d from serialize.c making size.d from size.c making sort.d from sort.c making source.d from source.c making split.d from split.c making sprintf.d from sprintf.c making startup.d from startup.c making subassign.d from subassign.c making subscript.d from subscript.c making subset.d from subset.c making summary.d from summary.c making sysutils.d from sysutils.c making unique.d from unique.c making util.d from util.c making version.d from version.c making vfonts.d from vfonts.c making Rmain.d from Rmain.c making alloca.d from alloca.c making mkdtemp.d from mkdtemp.c making strdup.d from strdup.c making strncasecmp.d from strncasecmp.c make[4]: Leaving directory `/«PKGBUILDDIR»/src/main' make[4]: Entering directory `/«PKGBUILDDIR»/src/main' gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c CConverters.c -o CConverters.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c CommandLineArgs.c -o CommandLineArgs.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c Rdynload.c -o Rdynload.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c Renviron.c -o Renviron.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c RNG.c -o RNG.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c agrep.c -o agrep.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c apply.c -o apply.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c arithmetic.c -o arithmetic.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c array.c -o array.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c attrib.c -o attrib.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c base.c -o base.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c bind.c -o bind.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c builtin.c -o builtin.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c character.c -o character.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c coerce.c -o coerce.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c colors.c -o colors.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c complex.c -o complex.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c connections.c -o connections.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c context.c -o context.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c cov.c -o cov.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c cum.c -o cum.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c dcf.c -o dcf.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c datetime.c -o datetime.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c debug.c -o debug.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c deparse.c -o deparse.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c deriv.c -o deriv.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c devices.c -o devices.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c dotcode.c -o dotcode.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c dounzip.c -o dounzip.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c dstruct.c -o dstruct.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c duplicate.c -o duplicate.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c engine.c -o engine.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c envir.c -o envir.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c errors.c -o errors.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c eval.c -o eval.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c format.c -o format.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c fourier.c -o fourier.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c gevents.c -o gevents.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c gram.c -o gram.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c gram-ex.c -o gram-ex.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c gramLatex.c -o gramLatex.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c gramRd.c -o gramRd.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c graphics.c -o graphics.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c grep.c -o grep.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c identical.c -o identical.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c inlined.c -o inlined.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c inspect.c -o inspect.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c internet.c -o internet.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c iosupport.c -o iosupport.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c lapack.c -o lapack.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c list.c -o list.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c localecharset.c -o localecharset.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c logic.c -o logic.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c main.c -o main.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c mapply.c -o mapply.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c match.c -o match.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c memory.c -o memory.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c model.c -o model.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c names.c -o names.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c objects.c -o objects.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c optim.c -o optim.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c optimize.c -o optimize.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c options.c -o options.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c par.c -o par.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c paste.c -o paste.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c platform.c -o platform.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c plot.c -o plot.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c plot3d.c -o plot3d.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c plotmath.c -o plotmath.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c print.c -o print.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c printarray.c -o printarray.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c printvector.c -o printvector.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c printutils.c -o printutils.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c qsort.c -o qsort.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c random.c -o random.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c raw.c -o raw.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c registration.c -o registration.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c relop.c -o relop.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c rlocale.c -o rlocale.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c saveload.c -o saveload.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c scan.c -o scan.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c seq.c -o seq.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c serialize.c -o serialize.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c size.c -o size.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c sort.c -o sort.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c source.c -o source.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c split.c -o split.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c sprintf.c -o sprintf.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c startup.c -o startup.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c subassign.c -o subassign.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c subscript.c -o subscript.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c subset.c -o subset.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c summary.c -o summary.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c sysutils.c -o sysutils.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c unique.c -o unique.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c util.c -o util.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c version.c -o version.o gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c vfonts.c -o vfonts.o gfortran -fopenmp -fpic -O3 -pipe -g -c xxxpr.f -o xxxpr.o gcc -std=gnu99 -shared -fopenmp -Wl,-O1 -o libR.so CConverters.o CommandLineArgs.o Rdynload.o Renviron.o RNG.o agrep.o apply.o arithmetic.o array.o attrib.o base.o bind.o builtin.o character.o coerce.o colors.o complex.o connections.o context.o cov.o cum.o dcf.o datetime.o debug.o deparse.o deriv.o devices.o dotcode.o dounzip.o dstruct.o duplicate.o engine.o envir.o errors.o eval.o format.o fourier.o gevents.o gram.o gram-ex.o gramLatex.o gramRd.o graphics.o grep.o identical.o inlined.o inspect.o internet.o iosupport.o lapack.o list.o localecharset.o logic.o main.o mapply.o match.o memory.o model.o names.o objects.o optim.o optimize.o options.o par.o paste.o platform.o plot.o plot3d.o plotmath.o print.o printarray.o printvector.o printutils.o qsort.o random.o raw.o registration.o relop.o rlocale.o saveload.o scan.o seq.o serialize.o size.o sort.o source.o split.o sprintf.o startup.o subassign.o subscript.o subset.o summary.o sysutils.o unique.o util.o version.o vfonts.o xxxpr.o ../unix/Rembedded.o ../unix/libunix.a ../appl/libappl.a ../nmath/libnmath.a ../extra/tre/libtre.a -lblas -lgfortran -lm -lreadline -lpcre -llzma -lbz2 -lz -lrt -ldl -lm make[5]: Entering directory `/«PKGBUILDDIR»/src/main' mkdir -p -- /«PKGBUILDDIR»/bin/exec mkdir -p -- /«PKGBUILDDIR»/lib make[5]: Leaving directory `/«PKGBUILDDIR»/src/main' make[4]: Leaving directory `/«PKGBUILDDIR»/src/main' make[4]: Entering directory `/«PKGBUILDDIR»/src/main' gcc -std=gnu99 -I../../src/extra -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c Rmain.c -o Rmain.o gcc -std=gnu99 -Wl,--export-dynamic -fopenmp -Wl,-O1 -o R.bin Rmain.o -L../../lib -lR make[5]: Entering directory `/«PKGBUILDDIR»/src/main' make[5]: Leaving directory `/«PKGBUILDDIR»/src/main' make[4]: Leaving directory `/«PKGBUILDDIR»/src/main' make[3]: Leaving directory `/«PKGBUILDDIR»/src/main' make[3]: Entering directory `/«PKGBUILDDIR»/src/modules' make[4]: Entering directory `/«PKGBUILDDIR»/src/modules/internet' making Rhttpd.d from Rhttpd.c making Rsock.d from Rsock.c making internet.d from internet.c making nanoftp.d from nanoftp.c making nanohttp.d from nanohttp.c making sock.d from sock.c making sockconn.d from sockconn.c make[5]: Entering directory `/«PKGBUILDDIR»/src/modules/internet' make[5]: `Makedeps' is up to date. make[5]: Leaving directory `/«PKGBUILDDIR»/src/modules/internet' make[5]: Entering directory `/«PKGBUILDDIR»/src/modules/internet' gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -fvisibility=hidden -c Rhttpd.c -o Rhttpd.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -fvisibility=hidden -c Rsock.c -o Rsock.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -fvisibility=hidden -c internet.c -o internet.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -fvisibility=hidden -c nanoftp.c -o nanoftp.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -fvisibility=hidden -c nanohttp.c -o nanohttp.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -fvisibility=hidden -c sock.c -o sock.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -fvisibility=hidden -c sockconn.c -o sockconn.o gcc -std=gnu99 -shared -Wl,-O1 -o internet.so Rhttpd.o Rsock.o internet.o nanoftp.o nanohttp.o sock.o sockconn.o -L../../../lib -lR make[6]: Entering directory `/«PKGBUILDDIR»/src/modules/internet' mkdir -p -- /«PKGBUILDDIR»/modules make[6]: Leaving directory `/«PKGBUILDDIR»/src/modules/internet' make[5]: Leaving directory `/«PKGBUILDDIR»/src/modules/internet' make[4]: Leaving directory `/«PKGBUILDDIR»/src/modules/internet' make[4]: Entering directory `/«PKGBUILDDIR»/src/modules/lapack' making Lapack.d from Lapack.c make[5]: Entering directory `/«PKGBUILDDIR»/src/modules/lapack' make[5]: `Makedeps' is up to date. make[5]: Leaving directory `/«PKGBUILDDIR»/src/modules/lapack' make[5]: Entering directory `/«PKGBUILDDIR»/src/modules/lapack' gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c Lapack.c -o Lapack.o gcc -std=gnu99 -shared -Wl,-O1 -o lapack.so Lapack.o -L../../../lib -lR -llapack -lblas -lgfortran -lm make[6]: Entering directory `/«PKGBUILDDIR»/src/modules/lapack' make[6]: Leaving directory `/«PKGBUILDDIR»/src/modules/lapack' make[5]: Leaving directory `/«PKGBUILDDIR»/src/modules/lapack' make[4]: Leaving directory `/«PKGBUILDDIR»/src/modules/lapack' make[4]: Entering directory `/«PKGBUILDDIR»/src/modules/vfonts' making g_alab_her.d from g_alab_her.c making g_cntrlify.d from g_cntrlify.c making g_fontdb.d from g_fontdb.c making g_her_glyph.d from g_her_glyph.c make[5]: Entering directory `/«PKGBUILDDIR»/src/modules/vfonts' make[5]: `Makedeps' is up to date. make[5]: Leaving directory `/«PKGBUILDDIR»/src/modules/vfonts' make[5]: Entering directory `/«PKGBUILDDIR»/src/modules/vfonts' gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c g_alab_her.c -o g_alab_her.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c g_cntrlify.c -o g_cntrlify.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c g_fontdb.c -o g_fontdb.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c g_her_glyph.c -o g_her_glyph.o gcc -std=gnu99 -shared -Wl,-O1 -o vfonts.so g_alab_her.o g_cntrlify.o g_fontdb.o g_her_glyph.o -L../../../lib -lR -lm make[6]: Entering directory `/«PKGBUILDDIR»/src/modules/vfonts' make[6]: Leaving directory `/«PKGBUILDDIR»/src/modules/vfonts' make[5]: Leaving directory `/«PKGBUILDDIR»/src/modules/vfonts' make[4]: Leaving directory `/«PKGBUILDDIR»/src/modules/vfonts' make[4]: Entering directory `/«PKGBUILDDIR»/src/modules/X11' making dataentry.d from dataentry.c making devX11.d from devX11.c making rotated.d from rotated.c making rbitmap.d from rbitmap.c make[5]: Entering directory `/«PKGBUILDDIR»/src/modules/X11' make[5]: `Makedeps' is up to date. make[5]: Leaving directory `/«PKGBUILDDIR»/src/modules/X11' make[5]: Entering directory `/«PKGBUILDDIR»/src/modules/X11' gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -pthread -I/usr/include/pango-1.0 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng12 -I../../../src/library/grDevices/src/cairo -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c dataentry.c -o dataentry.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -pthread -I/usr/include/pango-1.0 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng12 -I../../../src/library/grDevices/src/cairo -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c devX11.c -o devX11.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -pthread -I/usr/include/pango-1.0 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng12 -I../../../src/library/grDevices/src/cairo -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c rotated.c -o rotated.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -pthread -I/usr/include/pango-1.0 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng12 -I../../../src/library/grDevices/src/cairo -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c rbitmap.c -o rbitmap.o gcc -std=gnu99 -shared -Wl,-O1 -o R_X11.so dataentry.o devX11.o rotated.o rbitmap.o -lSM -lICE -lpangocairo-1.0 -lpango-1.0 -lgobject-2.0 -lglib-2.0 -lpng12 -lz -lcairo -lX11 -lX11 -lXt -ltiff -ljpeg -lpng -lz -L../../../lib -lR -lm make[6]: Entering directory `/«PKGBUILDDIR»/src/modules/X11' make[6]: Leaving directory `/«PKGBUILDDIR»/src/modules/X11' make[5]: Leaving directory `/«PKGBUILDDIR»/src/modules/X11' make[4]: Leaving directory `/«PKGBUILDDIR»/src/modules/X11' make[3]: Leaving directory `/«PKGBUILDDIR»/src/modules' make[3]: Entering directory `/«PKGBUILDDIR»/src/library' mkdir -p -- ../../library make[4]: Entering directory `/«PKGBUILDDIR»/src/library/profile' building system startup profile mkdir -p -- ../../../library/base/R make[4]: Leaving directory `/«PKGBUILDDIR»/src/library/profile' make[4]: Entering directory `/«PKGBUILDDIR»/src/library/base' building package 'base' make[5]: Entering directory `/«PKGBUILDDIR»/src/library/base' mkdir -p -- ../../../library/base/demo mkdir -p -- ../../../library/base/po make[5]: Leaving directory `/«PKGBUILDDIR»/src/library/base' make[4]: Leaving directory `/«PKGBUILDDIR»/src/library/base' make[4]: Entering directory `/«PKGBUILDDIR»/src/library/tools' building package 'tools' mkdir -p -- ../../../library/tools make[5]: Entering directory `/«PKGBUILDDIR»/src/library/tools' mkdir -p -- ../../../library/tools/R mkdir -p -- ../../../library/tools/po make[5]: Leaving directory `/«PKGBUILDDIR»/src/library/tools' make[5]: Entering directory `/«PKGBUILDDIR»/src/library/tools' make[6]: Entering directory `/«PKGBUILDDIR»/src/library/tools/src' making text.d from text.c making init.d from init.c making Rmd5.d from Rmd5.c making md5.d from md5.c making signals.d from signals.c gcc -std=gnu99 -I../../../../include -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -O3 -pipe -g -c text.c -o text.o gcc -std=gnu99 -I../../../../include -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -O3 -pipe -g -c init.c -o init.o gcc -std=gnu99 -I../../../../include -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -O3 -pipe -g -c Rmd5.c -o Rmd5.o gcc -std=gnu99 -I../../../../include -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -O3 -pipe -g -c md5.c -o md5.o gcc -std=gnu99 -I../../../../include -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -O3 -pipe -g -c signals.c -o signals.o gcc -std=gnu99 -shared -Wl,-O1 -o tools.so text.o init.o Rmd5.o md5.o signals.o -L../../../../lib -lR make[7]: Entering directory `/«PKGBUILDDIR»/src/library/tools/src' make[7]: `Makedeps' is up to date. make[7]: Leaving directory `/«PKGBUILDDIR»/src/library/tools/src' make[7]: Entering directory `/«PKGBUILDDIR»/src/library/tools/src' mkdir -p -- ../../../../library/tools/libs make[7]: Leaving directory `/«PKGBUILDDIR»/src/library/tools/src' make[6]: Leaving directory `/«PKGBUILDDIR»/src/library/tools/src' make[5]: Leaving directory `/«PKGBUILDDIR»/src/library/tools' make[4]: Leaving directory `/«PKGBUILDDIR»/src/library/tools' make[4]: Entering directory `/«PKGBUILDDIR»/src/library/compiler' building package 'compiler' mkdir -p -- ../../../library/compiler make[5]: Entering directory `/«PKGBUILDDIR»/src/library/compiler' mkdir -p -- ../../../library/compiler/R mkdir -p -- ../../../library/compiler/po make[5]: Leaving directory `/«PKGBUILDDIR»/src/library/compiler' make[5]: Entering directory `/«PKGBUILDDIR»/src/library/compiler' byte-compiling package 'compiler' make[5]: Leaving directory `/«PKGBUILDDIR»/src/library/compiler' make[4]: Leaving directory `/«PKGBUILDDIR»/src/library/compiler' make[4]: Entering directory `/«PKGBUILDDIR»/src/library/base' byte-compiling package 'base' make[4]: Leaving directory `/«PKGBUILDDIR»/src/library/base' make[4]: Entering directory `/«PKGBUILDDIR»/src/library/tools' byte-compiling package 'tools' make[4]: Leaving directory `/«PKGBUILDDIR»/src/library/tools' make[4]: Entering directory `/«PKGBUILDDIR»/src/library/utils' building package 'utils' mkdir -p -- ../../../library/utils mkdir -p -- ../../../library/utils/doc make[5]: Entering directory `/«PKGBUILDDIR»/src/library/utils' mkdir -p -- ../../../library/utils/R mkdir -p -- ../../../library/utils/po mkdir -p -- ../../../library/utils/Sweave mkdir -p -- ../../../library/utils/misc make[5]: Leaving directory `/«PKGBUILDDIR»/src/library/utils' make[5]: Entering directory `/«PKGBUILDDIR»/src/library/utils' byte-compiling package 'utils' make[5]: Leaving directory `/«PKGBUILDDIR»/src/library/utils' make[4]: Leaving directory `/«PKGBUILDDIR»/src/library/utils' make[4]: Entering directory `/«PKGBUILDDIR»/src/library/grDevices' building package 'grDevices' mkdir -p -- ../../../library/grDevices make[5]: Entering directory `/«PKGBUILDDIR»/src/library/grDevices' mkdir -p -- ../../../library/grDevices/R mkdir -p -- ../../../library/grDevices/po mkdir -p -- ../../../library/grDevices/afm mkdir -p -- ../../../library/grDevices/enc mkdir -p -- ../../../library/grDevices/icc make[5]: Leaving directory `/«PKGBUILDDIR»/src/library/grDevices' make[5]: Entering directory `/«PKGBUILDDIR»/src/library/grDevices' make[6]: Entering directory `/«PKGBUILDDIR»/src/library/grDevices/src' making axis_scales.d from axis_scales.c making chull.d from chull.c making devCairo.d from devCairo.c making devNull.d from devNull.c making devPicTeX.d from devPicTeX.c making devPS.d from devPS.c making devQuartz.d from devQuartz.c making init.d from init.c gcc -std=gnu99 -I../../../../include -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fpic -O3 -pipe -g -c axis_scales.c -o axis_scales.o gcc -std=gnu99 -I../../../../include -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fpic -O3 -pipe -g -c chull.c -o chull.o gcc -std=gnu99 -I../../../../include -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fpic -O3 -pipe -g -c devCairo.c -o devCairo.o gcc -std=gnu99 -I../../../../include -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fpic -O3 -pipe -g -c devNull.c -o devNull.o gcc -std=gnu99 -I../../../../include -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fpic -O3 -pipe -g -c devPicTeX.c -o devPicTeX.o gcc -std=gnu99 -I../../../../include -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fpic -O3 -pipe -g -c devPS.c -o devPS.o gcc -std=gnu99 -I../../../../include -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fpic -O3 -pipe -g -c devQuartz.c -o devQuartz.o gcc -std=gnu99 -I../../../../include -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fpic -O3 -pipe -g -c init.c -o init.o gcc -std=gnu99 -shared -Wl,-O1 -o grDevices.so axis_scales.o chull.o devCairo.o devNull.o devPicTeX.o devPS.o devQuartz.o init.o -lz -L../../../../lib -lR make[7]: Entering directory `/«PKGBUILDDIR»/src/library/grDevices/src' make[7]: `Makedeps' is up to date. make[7]: Leaving directory `/«PKGBUILDDIR»/src/library/grDevices/src' make[7]: Entering directory `/«PKGBUILDDIR»/src/library/grDevices/src' mkdir -p -- ../../../../library/grDevices/libs make[8]: Entering directory `/«PKGBUILDDIR»/src/library/grDevices/src/cairo' making cairoBM.d from cairoBM.c make[9]: Entering directory `/«PKGBUILDDIR»/src/library/grDevices/src/cairo' make[9]: `Makedeps' is up to date. make[9]: Leaving directory `/«PKGBUILDDIR»/src/library/grDevices/src/cairo' make[9]: Entering directory `/«PKGBUILDDIR»/src/library/grDevices/src/cairo' make[10]: Entering directory `/«PKGBUILDDIR»/src/library/grDevices/src/cairo' gcc -std=gnu99 -I. -I../../../../../src/include -I../../../../../src/include -pthread -I/usr/include/pango-1.0 -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/arm-linux-gnueabihf/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng12 -I../../../../../src/modules/X11 -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -c cairoBM.c -o cairoBM.o gcc -std=gnu99 -shared -Wl,-O1 -o cairo.so cairoBM.o ../../../../../src/modules/X11/rbitmap.o -lpangocairo-1.0 -lpango-1.0 -lgobject-2.0 -lglib-2.0 -lpng12 -lz -lcairo -ltiff -ljpeg -lpng -lz -L../../../../../lib -lR -lm make[10]: Leaving directory `/«PKGBUILDDIR»/src/library/grDevices/src/cairo' make[9]: Leaving directory `/«PKGBUILDDIR»/src/library/grDevices/src/cairo' make[8]: Leaving directory `/«PKGBUILDDIR»/src/library/grDevices/src/cairo' make[7]: Leaving directory `/«PKGBUILDDIR»/src/library/grDevices/src' make[6]: Leaving directory `/«PKGBUILDDIR»/src/library/grDevices/src' make[5]: Leaving directory `/«PKGBUILDDIR»/src/library/grDevices' make[5]: Entering directory `/«PKGBUILDDIR»/src/library/grDevices' byte-compiling package 'grDevices' make[5]: Leaving directory `/«PKGBUILDDIR»/src/library/grDevices' make[4]: Leaving directory `/«PKGBUILDDIR»/src/library/grDevices' make[4]: Entering directory `/«PKGBUILDDIR»/src/library/graphics' building package 'graphics' mkdir -p -- ../../../library/graphics make[5]: Entering directory `/«PKGBUILDDIR»/src/library/graphics' mkdir -p -- ../../../library/graphics/R mkdir -p -- ../../../library/graphics/po make[5]: Leaving directory `/«PKGBUILDDIR»/src/library/graphics' make[5]: Entering directory `/«PKGBUILDDIR»/src/library/graphics' byte-compiling package 'graphics' make[5]: Leaving directory `/«PKGBUILDDIR»/src/library/graphics' make[4]: Leaving directory `/«PKGBUILDDIR»/src/library/graphics' make[4]: Entering directory `/«PKGBUILDDIR»/src/library/stats' building package 'stats' mkdir -p -- ../../../library/stats make[5]: Entering directory `/«PKGBUILDDIR»/src/library/stats' mkdir -p -- ../../../library/stats/R mkdir -p -- ../../../library/stats/po make[5]: Leaving directory `/«PKGBUILDDIR»/src/library/stats' make[5]: Entering directory `/«PKGBUILDDIR»/src/library/stats' make[6]: Entering directory `/«PKGBUILDDIR»/src/library/stats/src' making init.d from init.c making kmeans.d from kmeans.c making ansari.d from ansari.c making bandwidths.d from bandwidths.c making chisqsim.d from chisqsim.c making d2x2xk.d from d2x2xk.c making fexact.d from fexact.c making kendall.d from kendall.c making ks.d from ks.c making line.d from line.c making smooth.d from smooth.c making prho.d from prho.c making swilk.d from swilk.c making ksmooth.d from ksmooth.c making loessc.d from loessc.c making monoSpl.d from monoSpl.c making isoreg.d from isoreg.c making Srunmed.d from Srunmed.c making Trunmed.d from Trunmed.c making dblcen.d from dblcen.c making distance.d from distance.c making hclust-utils.d from hclust-utils.c making nls.d from nls.c making rWishart.d from rWishart.c making HoltWinters.d from HoltWinters.c making PPsum.d from PPsum.c making arima.d from arima.c making burg.d from burg.c making filter.d from filter.c making mAR.d from mAR.c making pacf.d from pacf.c making starma.d from starma.c making port.d from port.c making family.d from family.c making sbart.d from sbart.c making approx.d from approx.c making loglin.d from loglin.c making lowess.d from lowess.c making massdist.d from massdist.c making splines.d from splines.c making lm.d from lm.c gcc -std=gnu99 -I../../../../include -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -O3 -pipe -g -c init.c -o init.o gcc -std=gnu99 -I../../../../include -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -O3 -pipe -g -c kmeans.c -o kmeans.o gcc -std=gnu99 -I../../../../include -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -O3 -pipe -g -c ansari.c -o ansari.o gcc -std=gnu99 -I../../../../include -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -O3 -pipe -g -c bandwidths.c -o bandwidths.o gcc -std=gnu99 -I../../../../include -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -O3 -pipe -g -c chisqsim.c -o chisqsim.o gcc -std=gnu99 -I../../../../include -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -O3 -pipe -g -c d2x2xk.c -o d2x2xk.o gcc -std=gnu99 -I../../../../include -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -O3 -pipe -g -c fexact.c -o fexact.o gcc -std=gnu99 -I../../../../include -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -O3 -pipe -g -c kendall.c -o kendall.o gcc -std=gnu99 -I../../../../include -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -O3 -pipe -g -c ks.c -o ks.o gcc -std=gnu99 -I../../../../include -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -O3 -pipe -g -c line.c -o line.o gcc -std=gnu99 -I../../../../include -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -O3 -pipe -g -c smooth.c -o smooth.o gcc -std=gnu99 -I../../../../include -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -O3 -pipe -g -c prho.c -o prho.o gcc -std=gnu99 -I../../../../include -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -O3 -pipe -g -c swilk.c -o swilk.o gcc -std=gnu99 -I../../../../include -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -O3 -pipe -g -c ksmooth.c -o ksmooth.o gcc -std=gnu99 -I../../../../include -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -O3 -pipe -g -c loessc.c -o loessc.o gcc -std=gnu99 -I../../../../include -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -O3 -pipe -g -c monoSpl.c -o monoSpl.o gcc -std=gnu99 -I../../../../include -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -O3 -pipe -g -c isoreg.c -o isoreg.o gcc -std=gnu99 -I../../../../include -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -O3 -pipe -g -c Srunmed.c -o Srunmed.o gcc -std=gnu99 -I../../../../include -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -O3 -pipe -g -c Trunmed.c -o Trunmed.o gcc -std=gnu99 -I../../../../include -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -O3 -pipe -g -c dblcen.c -o dblcen.o gcc -std=gnu99 -I../../../../include -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -O3 -pipe -g -c distance.c -o distance.o gcc -std=gnu99 -I../../../../include -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -O3 -pipe -g -c hclust-utils.c -o hclust-utils.o gcc -std=gnu99 -I../../../../include -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -O3 -pipe -g -c nls.c -o nls.o gcc -std=gnu99 -I../../../../include -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -O3 -pipe -g -c rWishart.c -o rWishart.o gcc -std=gnu99 -I../../../../include -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -O3 -pipe -g -c HoltWinters.c -o HoltWinters.o gcc -std=gnu99 -I../../../../include -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -O3 -pipe -g -c PPsum.c -o PPsum.o gcc -std=gnu99 -I../../../../include -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -O3 -pipe -g -c arima.c -o arima.o gcc -std=gnu99 -I../../../../include -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -O3 -pipe -g -c burg.c -o burg.o gcc -std=gnu99 -I../../../../include -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -O3 -pipe -g -c filter.c -o filter.o gcc -std=gnu99 -I../../../../include -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -O3 -pipe -g -c mAR.c -o mAR.o gcc -std=gnu99 -I../../../../include -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -O3 -pipe -g -c pacf.c -o pacf.o gcc -std=gnu99 -I../../../../include -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -O3 -pipe -g -c starma.c -o starma.o gcc -std=gnu99 -I../../../../include -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -O3 -pipe -g -c port.c -o port.o gcc -std=gnu99 -I../../../../include -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -O3 -pipe -g -c family.c -o family.o gcc -std=gnu99 -I../../../../include -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -O3 -pipe -g -c sbart.c -o sbart.o gcc -std=gnu99 -I../../../../include -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -O3 -pipe -g -c approx.c -o approx.o gcc -std=gnu99 -I../../../../include -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -O3 -pipe -g -c loglin.c -o loglin.o gcc -std=gnu99 -I../../../../include -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -O3 -pipe -g -c lowess.c -o lowess.o gcc -std=gnu99 -I../../../../include -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -O3 -pipe -g -c massdist.c -o massdist.o gcc -std=gnu99 -I../../../../include -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -O3 -pipe -g -c splines.c -o splines.o gcc -std=gnu99 -I../../../../include -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -O3 -pipe -g -c lm.c -o lm.o gfortran -fvisibility=hidden -fpic -O3 -pipe -g -c bsplvd.f -o bsplvd.o gfortran -fvisibility=hidden -fpic -O3 -pipe -g -c bvalue.f -o bvalue.o gfortran -fvisibility=hidden -fpic -O3 -pipe -g -c bvalus.f -o bvalus.o gfortran -fvisibility=hidden -fpic -O3 -pipe -g -c loessf.f -o loessf.o gfortran -fvisibility=hidden -fpic -O3 -pipe -g -c ppr.f -o ppr.o gfortran -fvisibility=hidden -fpic -O3 -pipe -g -c qsbart.f -o qsbart.o gfortran -fvisibility=hidden -fpic -O3 -pipe -g -c sgram.f -o sgram.o gfortran -fvisibility=hidden -fpic -O3 -pipe -g -c sinerp.f -o sinerp.o gfortran -fvisibility=hidden -fpic -O3 -pipe -g -c sslvrg.f -o sslvrg.o gfortran -fvisibility=hidden -fpic -O3 -pipe -g -c stxwx.f -o stxwx.o gfortran -fvisibility=hidden -fpic -O3 -pipe -g -c hclust.f -o hclust.o gfortran -fvisibility=hidden -fpic -O3 -pipe -g -c kmns.f -o kmns.o gfortran -fvisibility=hidden -fpic -O3 -pipe -g -c eureka.f -o eureka.o gfortran -fvisibility=hidden -fpic -O3 -pipe -g -c stl.f -o stl.o gfortran -fpic -O3 -pipe -g -ffloat-store -c portsrc.f -o portsrc.o gfortran -fvisibility=hidden -fpic -O3 -pipe -g -c lminfl.f -o lminfl.o gcc -std=gnu99 -shared -Wl,-O1 -o stats.so init.o kmeans.o ansari.o bandwidths.o chisqsim.o d2x2xk.o fexact.o kendall.o ks.o line.o smooth.o prho.o swilk.o ksmooth.o loessc.o monoSpl.o isoreg.o Srunmed.o Trunmed.o dblcen.o distance.o hclust-utils.o nls.o rWishart.o HoltWinters.o PPsum.o arima.o burg.o filter.o mAR.o pacf.o starma.o port.o family.o sbart.o approx.o loglin.o lowess.o massdist.o splines.o lm.o bsplvd.o bvalue.o bvalus.o loessf.o ppr.o qsbart.o sgram.o sinerp.o sslvrg.o stxwx.o hclust.o kmns.o eureka.o stl.o portsrc.o lminfl.o -fopenmp -llapack -lblas -lgfortran -lm -L../../../../lib -lR make[7]: Entering directory `/«PKGBUILDDIR»/src/library/stats/src' make[7]: `Makedeps' is up to date. make[7]: Leaving directory `/«PKGBUILDDIR»/src/library/stats/src' make[7]: Entering directory `/«PKGBUILDDIR»/src/library/stats/src' mkdir -p -- ../../../../library/stats/libs make[7]: Leaving directory `/«PKGBUILDDIR»/src/library/stats/src' make[6]: Leaving directory `/«PKGBUILDDIR»/src/library/stats/src' make[5]: Leaving directory `/«PKGBUILDDIR»/src/library/stats' make[5]: Entering directory `/«PKGBUILDDIR»/src/library/stats' byte-compiling package 'stats' make[5]: Leaving directory `/«PKGBUILDDIR»/src/library/stats' make[4]: Leaving directory `/«PKGBUILDDIR»/src/library/stats' make[4]: Entering directory `/«PKGBUILDDIR»/src/library/datasets' building package 'datasets' mkdir -p -- ../../../library/datasets make[5]: Entering directory `/«PKGBUILDDIR»/src/library/datasets' make[5]: Leaving directory `/«PKGBUILDDIR»/src/library/datasets' mkdir -p -- ../../../library/datasets/data Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'AirPassengers' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'AirPassengers' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'BJsales' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'BJsales' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'BOD' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'BOD' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'CO2' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'CO2' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'ChickWeight' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'ChickWeight' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'DNase' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'DNase' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'EuStockMarkets' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'EuStockMarkets' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'Formaldehyde' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'Formaldehyde' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'HairEyeColor' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'HairEyeColor' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'Harman23.cor' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'Harman23.cor' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'Harman74.cor' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'Harman74.cor' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'Indometh' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'Indometh' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'InsectSprays' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'InsectSprays' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'JohnsonJohnson' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'JohnsonJohnson' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'LakeHuron' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'LakeHuron' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'LifeCycleSavings' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'LifeCycleSavings' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'Loblolly' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'Loblolly' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'Nile' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'Nile' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'Orange' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'Orange' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'OrchardSprays' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'OrchardSprays' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'PlantGrowth' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'PlantGrowth' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'Puromycin' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'Puromycin' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'Seatbelts' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'Seatbelts' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'Theoph' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'Theoph' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'Titanic' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'Titanic' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'ToothGrowth' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'ToothGrowth' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'UCBAdmissions' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'UCBAdmissions' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'UKDriverDeaths' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'UKDriverDeaths' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'UKLungDeaths' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'UKLungDeaths' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'UKgas' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'UKgas' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'USAccDeaths' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'USAccDeaths' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'USArrests' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'USArrests' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'USJudgeRatings' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'USJudgeRatings' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'USPersonalExpenditure' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'USPersonalExpenditure' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'VADeaths' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'VADeaths' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'WWWusage' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'WWWusage' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'WorldPhones' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'WorldPhones' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'ability.cov' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'ability.cov' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'airmiles' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'airmiles' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'airquality' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'airquality' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'anscombe' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'anscombe' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'attenu' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'attenu' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'attitude' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'attitude' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'austres' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'austres' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'beavers' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'beavers' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'cars' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'cars' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'chickwts' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'chickwts' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'co2' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'co2' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'crimtab' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'crimtab' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'discoveries' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'discoveries' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'esoph' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'esoph' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'euro' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'euro' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'eurodist' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'eurodist' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'faithful' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'faithful' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'freeny' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'freeny' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'infert' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'infert' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'iris' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'iris' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'iris3' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'iris3' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'islands' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'islands' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'lh' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'lh' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'longley' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'longley' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'lynx' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'lynx' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'morley' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'morley' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'mtcars' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'mtcars' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'nhtemp' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'nhtemp' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'nottem' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'nottem' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'occupationalStatus' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'occupationalStatus' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'precip' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'precip' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'presidents' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'presidents' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'pressure' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'pressure' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'quakes' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'quakes' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'randu' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'randu' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'rivers' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'rivers' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'rock' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'rock' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'sleep' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'sleep' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'stackloss' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'stackloss' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'state' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'state' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'sunspot.month' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'sunspot.month' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'sunspot.year' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'sunspot.year' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'sunspots' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'sunspots' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'swiss' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'swiss' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'treering' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'treering' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'trees' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'trees' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'uspop' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'uspop' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'volcano' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'volcano' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'warpbreaks' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'warpbreaks' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'women' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'women' not found make[4]: Leaving directory `/«PKGBUILDDIR»/src/library/datasets' make[4]: Entering directory `/«PKGBUILDDIR»/src/library/methods' building package 'methods' mkdir -p -- ../../../library/methods make[5]: Entering directory `/«PKGBUILDDIR»/src/library/methods' mkdir -p -- ../../../library/methods/R mkdir -p -- ../../../library/methods/po make[5]: Leaving directory `/«PKGBUILDDIR»/src/library/methods' make[5]: Entering directory `/«PKGBUILDDIR»/src/library/methods' make[6]: Entering directory `/«PKGBUILDDIR»/src/library/methods/src' making do_substitute_direct.d from do_substitute_direct.c making init.d from init.c making methods_list_dispatch.d from methods_list_dispatch.c making slot.d from slot.c making class_support.d from class_support.c making tests.d from tests.c gcc -std=gnu99 -I../../../../include -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -O3 -pipe -g -c do_substitute_direct.c -o do_substitute_direct.o gcc -std=gnu99 -I../../../../include -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -O3 -pipe -g -c init.c -o init.o gcc -std=gnu99 -I../../../../include -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -O3 -pipe -g -c methods_list_dispatch.c -o methods_list_dispatch.o gcc -std=gnu99 -I../../../../include -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -O3 -pipe -g -c slot.c -o slot.o gcc -std=gnu99 -I../../../../include -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -O3 -pipe -g -c class_support.c -o class_support.o gcc -std=gnu99 -I../../../../include -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -O3 -pipe -g -c tests.c -o tests.o gcc -std=gnu99 -shared -Wl,-O1 -o methods.so do_substitute_direct.o init.o methods_list_dispatch.o slot.o class_support.o tests.o -L../../../../lib -lR make[7]: Entering directory `/«PKGBUILDDIR»/src/library/methods/src' make[7]: `Makedeps' is up to date. make[7]: Leaving directory `/«PKGBUILDDIR»/src/library/methods/src' make[7]: Entering directory `/«PKGBUILDDIR»/src/library/methods/src' mkdir -p -- ../../../../library/methods/libs make[7]: Leaving directory `/«PKGBUILDDIR»/src/library/methods/src' make[6]: Leaving directory `/«PKGBUILDDIR»/src/library/methods/src' make[5]: Leaving directory `/«PKGBUILDDIR»/src/library/methods' make[5]: Entering directory `/«PKGBUILDDIR»/src/library/methods' byte-compiling 'methods' initializing class and method definitions ... done make[5]: Leaving directory `/«PKGBUILDDIR»/src/library/methods' make[4]: Leaving directory `/«PKGBUILDDIR»/src/library/methods' make[4]: Entering directory `/«PKGBUILDDIR»/src/library/grid' building package 'grid' mkdir -p -- ../../../library/grid mkdir -p -- ../../../library/grid/doc make[5]: Entering directory `/«PKGBUILDDIR»/src/library/grid' mkdir -p -- ../../../library/grid/R mkdir -p -- ../../../library/grid/po make[5]: Leaving directory `/«PKGBUILDDIR»/src/library/grid' make[5]: Entering directory `/«PKGBUILDDIR»/src/library/grid' make[6]: Entering directory `/«PKGBUILDDIR»/src/library/grid/src' making gpar.d from gpar.c making grid.d from grid.c making just.d from just.c making layout.d from layout.c making matrix.d from matrix.c making register.d from register.c making state.d from state.c making unit.d from unit.c making util.d from util.c making viewport.d from viewport.c gcc -std=gnu99 -I../../../../include -DNDEBUG -fvisibility=hidden -fpic -O3 -pipe -g -c gpar.c -o gpar.o gcc -std=gnu99 -I../../../../include -DNDEBUG -fvisibility=hidden -fpic -O3 -pipe -g -c grid.c -o grid.o gcc -std=gnu99 -I../../../../include -DNDEBUG -fvisibility=hidden -fpic -O3 -pipe -g -c just.c -o just.o gcc -std=gnu99 -I../../../../include -DNDEBUG -fvisibility=hidden -fpic -O3 -pipe -g -c layout.c -o layout.o gcc -std=gnu99 -I../../../../include -DNDEBUG -fvisibility=hidden -fpic -O3 -pipe -g -c matrix.c -o matrix.o gcc -std=gnu99 -I../../../../include -DNDEBUG -fvisibility=hidden -fpic -O3 -pipe -g -c register.c -o register.o gcc -std=gnu99 -I../../../../include -DNDEBUG -fvisibility=hidden -fpic -O3 -pipe -g -c state.c -o state.o gcc -std=gnu99 -I../../../../include -DNDEBUG -fvisibility=hidden -fpic -O3 -pipe -g -c unit.c -o unit.o gcc -std=gnu99 -I../../../../include -DNDEBUG -fvisibility=hidden -fpic -O3 -pipe -g -c util.c -o util.o gcc -std=gnu99 -I../../../../include -DNDEBUG -fvisibility=hidden -fpic -O3 -pipe -g -c viewport.c -o viewport.o gcc -std=gnu99 -shared -Wl,-O1 -o grid.so gpar.o grid.o just.o layout.o matrix.o register.o state.o unit.o util.o viewport.o -L../../../../lib -lR make[7]: Entering directory `/«PKGBUILDDIR»/src/library/grid/src' make[7]: `Makedeps' is up to date. make[7]: Leaving directory `/«PKGBUILDDIR»/src/library/grid/src' make[7]: Entering directory `/«PKGBUILDDIR»/src/library/grid/src' mkdir -p -- ../../../../library/grid/libs make[7]: Leaving directory `/«PKGBUILDDIR»/src/library/grid/src' make[6]: Leaving directory `/«PKGBUILDDIR»/src/library/grid/src' make[5]: Leaving directory `/«PKGBUILDDIR»/src/library/grid' make[5]: Entering directory `/«PKGBUILDDIR»/src/library/grid' byte-compiling package 'grid' make[5]: Leaving directory `/«PKGBUILDDIR»/src/library/grid' make[4]: Leaving directory `/«PKGBUILDDIR»/src/library/grid' make[4]: Entering directory `/«PKGBUILDDIR»/src/library/splines' building package 'splines' mkdir -p -- ../../../library/splines make[5]: Entering directory `/«PKGBUILDDIR»/src/library/splines' mkdir -p -- ../../../library/splines/R mkdir -p -- ../../../library/splines/po make[5]: Leaving directory `/«PKGBUILDDIR»/src/library/splines' make[5]: Entering directory `/«PKGBUILDDIR»/src/library/splines' make[6]: Entering directory `/«PKGBUILDDIR»/src/library/splines/src' making splines.d from splines.c gcc -std=gnu99 -I../../../../include -DNDEBUG -fpic -O3 -pipe -g -c splines.c -o splines.o gcc -std=gnu99 -shared -Wl,-O1 -o splines.so splines.o -L../../../../lib -lR make[7]: Entering directory `/«PKGBUILDDIR»/src/library/splines/src' make[7]: `Makedeps' is up to date. make[7]: Leaving directory `/«PKGBUILDDIR»/src/library/splines/src' make[7]: Entering directory `/«PKGBUILDDIR»/src/library/splines/src' mkdir -p -- ../../../../library/splines/libs make[7]: Leaving directory `/«PKGBUILDDIR»/src/library/splines/src' make[6]: Leaving directory `/«PKGBUILDDIR»/src/library/splines/src' make[5]: Leaving directory `/«PKGBUILDDIR»/src/library/splines' make[5]: Entering directory `/«PKGBUILDDIR»/src/library/splines' byte-compiling package 'splines' make[5]: Leaving directory `/«PKGBUILDDIR»/src/library/splines' make[4]: Leaving directory `/«PKGBUILDDIR»/src/library/splines' make[4]: Entering directory `/«PKGBUILDDIR»/src/library/stats4' building package 'stats4' mkdir -p -- ../../../library/stats4 make[5]: Entering directory `/«PKGBUILDDIR»/src/library/stats4' mkdir -p -- ../../../library/stats4/R mkdir -p -- ../../../library/stats4/po make[5]: Leaving directory `/«PKGBUILDDIR»/src/library/stats4' make[5]: Entering directory `/«PKGBUILDDIR»/src/library/stats4' byte-compiling package 'stats4' make[5]: Leaving directory `/«PKGBUILDDIR»/src/library/stats4' make[4]: Leaving directory `/«PKGBUILDDIR»/src/library/stats4' make[4]: Entering directory `/«PKGBUILDDIR»/src/library/tcltk' building package 'tcltk' mkdir -p -- ../../../library/tcltk/R make[5]: Entering directory `/«PKGBUILDDIR»/src/library/tcltk' mkdir -p -- ../../../library/tcltk/exec mkdir -p -- ../../../library/tcltk/po make[5]: Leaving directory `/«PKGBUILDDIR»/src/library/tcltk' make[5]: Entering directory `/«PKGBUILDDIR»/src/library/tcltk/src' making init.d from init.c making tcltk.d from tcltk.c making tcltk_unix.d from tcltk_unix.c gcc -std=gnu99 -I../../../../include -DNDEBUG -I/usr/include/tcl8.5 -I/usr/include/tcl8.5 -fpic -O3 -pipe -g -c init.c -o init.o gcc -std=gnu99 -I../../../../include -DNDEBUG -I/usr/include/tcl8.5 -I/usr/include/tcl8.5 -fpic -O3 -pipe -g -c tcltk.c -o tcltk.o gcc -std=gnu99 -I../../../../include -DNDEBUG -I/usr/include/tcl8.5 -I/usr/include/tcl8.5 -fpic -O3 -pipe -g -c tcltk_unix.c -o tcltk_unix.o gcc -std=gnu99 -shared -Wl,-O1 -o tcltk.so init.o tcltk.o tcltk_unix.o -L/usr/lib -ltcl8.5 -L/usr/lib -ltk8.5 -lX11 -lXss -lXext -lm -L../../../../lib -lR make[6]: Entering directory `/«PKGBUILDDIR»/src/library/tcltk/src' make[6]: `Makedeps' is up to date. make[6]: Leaving directory `/«PKGBUILDDIR»/src/library/tcltk/src' make[6]: Entering directory `/«PKGBUILDDIR»/src/library/tcltk/src' mkdir -p -- ../../../../library/tcltk/libs make[6]: Leaving directory `/«PKGBUILDDIR»/src/library/tcltk/src' make[5]: Leaving directory `/«PKGBUILDDIR»/src/library/tcltk/src' make[5]: Entering directory `/«PKGBUILDDIR»/src/library/tcltk' byte-compiling package 'tcltk' make[5]: Leaving directory `/«PKGBUILDDIR»/src/library/tcltk' make[4]: Leaving directory `/«PKGBUILDDIR»/src/library/tcltk' make[4]: Entering directory `/«PKGBUILDDIR»/src/library/parallel' building package 'parallel' mkdir -p -- ../../../library/parallel mkdir -p -- ../../../library/parallel/doc make[5]: Entering directory `/«PKGBUILDDIR»/src/library/parallel' mkdir -p -- ../../../library/parallel/R mkdir -p -- ../../../library/parallel/po make[5]: Leaving directory `/«PKGBUILDDIR»/src/library/parallel' make[5]: Entering directory `/«PKGBUILDDIR»/src/library/parallel' make[6]: Entering directory `/«PKGBUILDDIR»/src/library/parallel/src' making init.d from init.c making rngstream.d from rngstream.c making fork.d from fork.c gcc -std=gnu99 -I../../../../include -DNDEBUG -fvisibility=hidden -fpic -O3 -pipe -g -c init.c -o init.o gcc -std=gnu99 -I../../../../include -DNDEBUG -fvisibility=hidden -fpic -O3 -pipe -g -c rngstream.c -o rngstream.o gcc -std=gnu99 -I../../../../include -DNDEBUG -fvisibility=hidden -fpic -O3 -pipe -g -c fork.c -o fork.o gcc -std=gnu99 -shared -Wl,-O1 -o parallel.so init.o rngstream.o fork.o -L../../../../lib -lR make[7]: Entering directory `/«PKGBUILDDIR»/src/library/parallel/src' make[7]: `Makedeps' is up to date. make[7]: Leaving directory `/«PKGBUILDDIR»/src/library/parallel/src' make[7]: Entering directory `/«PKGBUILDDIR»/src/library/parallel/src' mkdir -p -- ../../../../library/parallel/libs make[7]: Leaving directory `/«PKGBUILDDIR»/src/library/parallel/src' make[6]: Leaving directory `/«PKGBUILDDIR»/src/library/parallel/src' make[5]: Leaving directory `/«PKGBUILDDIR»/src/library/parallel' make[5]: Entering directory `/«PKGBUILDDIR»/src/library/parallel' byte-compiling package 'parallel' make[5]: Leaving directory `/«PKGBUILDDIR»/src/library/parallel' make[4]: Leaving directory `/«PKGBUILDDIR»/src/library/parallel' make[4]: Entering directory `/«PKGBUILDDIR»/src/library/base' make[4]: Leaving directory `/«PKGBUILDDIR»/src/library/base' installing parsed NAMESPACE files make[3]: Leaving directory `/«PKGBUILDDIR»/src/library' make[2]: Leaving directory `/«PKGBUILDDIR»/src' make[2]: Entering directory `/«PKGBUILDDIR»/tests' make[2]: Nothing to be done for `R'. make[2]: Leaving directory `/«PKGBUILDDIR»/tests' make[2]: Entering directory `/«PKGBUILDDIR»/po' make[3]: Entering directory `/«PKGBUILDDIR»/po' installing translations: mkdir -p -- ../share/locale/da/LC_MESSAGES da mkdir -p -- ../share/locale/en/LC_MESSAGES en mkdir -p -- ../share/locale/en_GB/LC_MESSAGES en_GB mkdir -p -- ../share/locale/es/LC_MESSAGES es mkdir -p -- ../share/locale/fr/LC_MESSAGES fr mkdir -p -- ../share/locale/de/LC_MESSAGES de mkdir -p -- ../share/locale/it/LC_MESSAGES it mkdir -p -- ../share/locale/ja/LC_MESSAGES ja mkdir -p -- ../share/locale/ko/LC_MESSAGES ko mkdir -p -- ../share/locale/nn/LC_MESSAGES nn mkdir -p -- ../share/locale/pl/LC_MESSAGES pl mkdir -p -- ../share/locale/pt_BR/LC_MESSAGES pt_BR mkdir -p -- ../share/locale/ru/LC_MESSAGES ru mkdir -p -- ../share/locale/tr/LC_MESSAGES tr mkdir -p -- ../share/locale/zh_CN/LC_MESSAGES zh_CN mkdir -p -- ../share/locale/zh_TW/LC_MESSAGES zh_TW mkdir -p -- ../share/locale/en@quot/LC_MESSAGES en@quot make[3]: Leaving directory `/«PKGBUILDDIR»/po' make[2]: Leaving directory `/«PKGBUILDDIR»/po' you should 'make docs' now ... make[1]: Leaving directory `/«PKGBUILDDIR»' (cd src/nmath/standalone; \ /usr/bin/make CFLAGS="-O3 -pipe -g -D_REENTRANT" \ CXXFLAGS="-O3 -pipe -g -D_REENTRANT" \ FFLAGS="-O3 -pipe -g -D_REENTRANT" \ CC="gcc -std=gnu99" \ CXX=g++ \ F77=gfortran \ libRmath_la_LDFLAGS=-Wl,-soname,libRmath.so.1 \ shared static ) make[1]: Entering directory `/«PKGBUILDDIR»/src/nmath/standalone' (cd ../../include; /usr/bin/make Rmath.h) make[2]: Entering directory `/«PKGBUILDDIR»/src/include' make[2]: `Rmath.h' is up to date. make[2]: Leaving directory `/«PKGBUILDDIR»/src/include' Copying source files make[2]: Entering directory `/«PKGBUILDDIR»/src/nmath/standalone' making mlutils.d from mlutils.c making d1mach.d from d1mach.c making i1mach.d from i1mach.c making fmax2.d from fmax2.c making fmin2.d from fmin2.c making fprec.d from fprec.c making fround.d from fround.c making ftrunc.d from ftrunc.c making sign.d from sign.c making fsign.d from fsign.c making imax2.d from imax2.c making imin2.d from imin2.c making chebyshev.d from chebyshev.c making log1p.d from log1p.c making expm1.d from expm1.c making lgammacor.d from lgammacor.c making gammalims.d from gammalims.c making stirlerr.d from stirlerr.c making bd0.d from bd0.c making gamma.d from gamma.c making lgamma.d from lgamma.c making gamma_cody.d from gamma_cody.c making beta.d from beta.c making lbeta.d from lbeta.c making polygamma.d from polygamma.c making bessel_i.d from bessel_i.c making bessel_j.d from bessel_j.c making bessel_k.d from bessel_k.c making bessel_y.d from bessel_y.c making choose.d from choose.c making snorm.d from snorm.c making sexp.d from sexp.c making dgamma.d from dgamma.c making pgamma.d from pgamma.c making qgamma.d from qgamma.c making rgamma.d from rgamma.c making dbeta.d from dbeta.c making pbeta.d from pbeta.c making qbeta.d from qbeta.c making rbeta.d from rbeta.c making dunif.d from dunif.c making punif.d from punif.c making qunif.d from qunif.c making runif.d from runif.c making dnorm.d from dnorm.c making pnorm.d from pnorm.c making qnorm.d from qnorm.c making rnorm.d from rnorm.c making dlnorm.d from dlnorm.c making plnorm.d from plnorm.c making qlnorm.d from qlnorm.c making rlnorm.d from rlnorm.c making df.d from df.c making pf.d from pf.c making qf.d from qf.c making rf.d from rf.c making dnf.d from dnf.c making dt.d from dt.c making pt.d from pt.c making qt.d from qt.c making rt.d from rt.c making dnt.d from dnt.c making dchisq.d from dchisq.c making pchisq.d from pchisq.c making qchisq.d from qchisq.c making rchisq.d from rchisq.c making rnchisq.d from rnchisq.c making dbinom.d from dbinom.c making pbinom.d from pbinom.c making qbinom.d from qbinom.c making rbinom.d from rbinom.c making rmultinom.d from rmultinom.c making dcauchy.d from dcauchy.c making pcauchy.d from pcauchy.c making qcauchy.d from qcauchy.c making rcauchy.d from rcauchy.c making dexp.d from dexp.c making pexp.d from pexp.c making qexp.d from qexp.c making rexp.d from rexp.c making dgeom.d from dgeom.c making pgeom.d from pgeom.c making qgeom.d from qgeom.c making rgeom.d from rgeom.c making dhyper.d from dhyper.c making phyper.d from phyper.c making qhyper.d from qhyper.c making rhyper.d from rhyper.c making dnbinom.d from dnbinom.c making pnbinom.d from pnbinom.c making qnbinom.d from qnbinom.c making rnbinom.d from rnbinom.c making dpois.d from dpois.c making ppois.d from ppois.c making qpois.d from qpois.c making rpois.d from rpois.c making dweibull.d from dweibull.c making pweibull.d from pweibull.c making qweibull.d from qweibull.c making rweibull.d from rweibull.c making dlogis.d from dlogis.c making plogis.d from plogis.c making qlogis.d from qlogis.c making rlogis.d from rlogis.c making dnchisq.d from dnchisq.c making pnchisq.d from pnchisq.c making qnchisq.d from qnchisq.c making dnbeta.d from dnbeta.c making pnbeta.d from pnbeta.c making qnbeta.d from qnbeta.c making pnf.d from pnf.c making pnt.d from pnt.c making qnf.d from qnf.c making qnt.d from qnt.c making ptukey.d from ptukey.c making qtukey.d from qtukey.c making toms708.d from toms708.c making wilcox.d from wilcox.c making signrank.d from signrank.c making std_unif.d from std_unif.c make[2]: Leaving directory `/«PKGBUILDDIR»/src/nmath/standalone' make[2]: Entering directory `/«PKGBUILDDIR»/src/nmath/standalone' gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c mlutils.c -o mlutils.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c d1mach.c -o d1mach.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c i1mach.c -o i1mach.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c fmax2.c -o fmax2.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c fmin2.c -o fmin2.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c fprec.c -o fprec.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c fround.c -o fround.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c ftrunc.c -o ftrunc.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c sign.c -o sign.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c fsign.c -o fsign.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c imax2.c -o imax2.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c imin2.c -o imin2.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c chebyshev.c -o chebyshev.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c log1p.c -o log1p.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c expm1.c -o expm1.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c lgammacor.c -o lgammacor.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c gammalims.c -o gammalims.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c stirlerr.c -o stirlerr.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c bd0.c -o bd0.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c gamma.c -o gamma.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c lgamma.c -o lgamma.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c gamma_cody.c -o gamma_cody.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c beta.c -o beta.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c lbeta.c -o lbeta.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c polygamma.c -o polygamma.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c bessel_i.c -o bessel_i.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c bessel_j.c -o bessel_j.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c bessel_k.c -o bessel_k.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c bessel_y.c -o bessel_y.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c choose.c -o choose.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c snorm.c -o snorm.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c sexp.c -o sexp.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c dgamma.c -o dgamma.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c pgamma.c -o pgamma.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c qgamma.c -o qgamma.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c rgamma.c -o rgamma.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c dbeta.c -o dbeta.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c pbeta.c -o pbeta.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c qbeta.c -o qbeta.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c rbeta.c -o rbeta.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c dunif.c -o dunif.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c punif.c -o punif.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c qunif.c -o qunif.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c runif.c -o runif.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c dnorm.c -o dnorm.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c pnorm.c -o pnorm.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c qnorm.c -o qnorm.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c rnorm.c -o rnorm.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c dlnorm.c -o dlnorm.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c plnorm.c -o plnorm.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c qlnorm.c -o qlnorm.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c rlnorm.c -o rlnorm.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c df.c -o df.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c pf.c -o pf.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c qf.c -o qf.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c rf.c -o rf.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c dnf.c -o dnf.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c dt.c -o dt.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c pt.c -o pt.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c qt.c -o qt.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c rt.c -o rt.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c dnt.c -o dnt.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c dchisq.c -o dchisq.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c pchisq.c -o pchisq.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c qchisq.c -o qchisq.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c rchisq.c -o rchisq.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c rnchisq.c -o rnchisq.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c dbinom.c -o dbinom.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c pbinom.c -o pbinom.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c qbinom.c -o qbinom.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c rbinom.c -o rbinom.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c rmultinom.c -o rmultinom.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c dcauchy.c -o dcauchy.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c pcauchy.c -o pcauchy.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c qcauchy.c -o qcauchy.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c rcauchy.c -o rcauchy.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c dexp.c -o dexp.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c pexp.c -o pexp.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c qexp.c -o qexp.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c rexp.c -o rexp.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c dgeom.c -o dgeom.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c pgeom.c -o pgeom.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c qgeom.c -o qgeom.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c rgeom.c -o rgeom.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c dhyper.c -o dhyper.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c phyper.c -o phyper.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c qhyper.c -o qhyper.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c rhyper.c -o rhyper.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c dnbinom.c -o dnbinom.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c pnbinom.c -o pnbinom.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c qnbinom.c -o qnbinom.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c rnbinom.c -o rnbinom.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c dpois.c -o dpois.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c ppois.c -o ppois.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c qpois.c -o qpois.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c rpois.c -o rpois.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c dweibull.c -o dweibull.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c pweibull.c -o pweibull.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c qweibull.c -o qweibull.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c rweibull.c -o rweibull.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c dlogis.c -o dlogis.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c plogis.c -o plogis.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c qlogis.c -o qlogis.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c rlogis.c -o rlogis.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c dnchisq.c -o dnchisq.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c pnchisq.c -o pnchisq.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c qnchisq.c -o qnchisq.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c dnbeta.c -o dnbeta.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c pnbeta.c -o pnbeta.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c qnbeta.c -o qnbeta.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H 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-I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c toms708.c -o toms708.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c wilcox.c -o wilcox.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c signrank.c -o signrank.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -c std_unif.c -o std_unif.lo gcc -std=gnu99 -shared -fopenmp -o libRmath.so -Wl,-soname,libRmath.so.1 mlutils.lo d1mach.lo i1mach.lo fmax2.lo fmin2.lo fprec.lo fround.lo ftrunc.lo sign.lo fsign.lo imax2.lo imin2.lo chebyshev.lo log1p.lo expm1.lo lgammacor.lo gammalims.lo stirlerr.lo bd0.lo gamma.lo lgamma.lo gamma_cody.lo beta.lo lbeta.lo polygamma.lo bessel_i.lo bessel_j.lo bessel_k.lo bessel_y.lo choose.lo snorm.lo sexp.lo dgamma.lo pgamma.lo qgamma.lo rgamma.lo dbeta.lo pbeta.lo qbeta.lo rbeta.lo dunif.lo punif.lo qunif.lo runif.lo dnorm.lo pnorm.lo qnorm.lo rnorm.lo dlnorm.lo plnorm.lo qlnorm.lo rlnorm.lo df.lo pf.lo qf.lo rf.lo dnf.lo dt.lo pt.lo qt.lo rt.lo dnt.lo dchisq.lo pchisq.lo qchisq.lo rchisq.lo rnchisq.lo dbinom.lo pbinom.lo qbinom.lo rbinom.lo rmultinom.lo dcauchy.lo pcauchy.lo qcauchy.lo rcauchy.lo dexp.lo pexp.lo qexp.lo rexp.lo dgeom.lo pgeom.lo qgeom.lo rgeom.lo dhyper.lo phyper.lo qhyper.lo rhyper.lo dnbinom.lo pnbinom.lo qnbinom.lo rnbinom.lo dpois.lo ppois.lo qpois.lo rpois.lo dweibull.lo pweibull.lo qweibull.lo rweibull.lo dlogis.lo plogis.lo qlogis.lo rlogis.lo dnchisq.lo pnchisq.lo qnchisq.lo dnbeta.lo pnbeta.lo qnbeta.lo pnf.lo pnt.lo qnf.lo qnt.lo ptukey.lo qtukey.lo toms708.lo wilcox.lo signrank.lo std_unif.lo make[2]: Leaving directory `/«PKGBUILDDIR»/src/nmath/standalone' make[2]: Entering directory `/«PKGBUILDDIR»/src/nmath/standalone' gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c mlutils.c -o mlutils.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c d1mach.c -o d1mach.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c i1mach.c -o i1mach.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c fmax2.c -o fmax2.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c fmin2.c -o fmin2.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c fprec.c -o fprec.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c fround.c -o fround.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c ftrunc.c -o ftrunc.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c sign.c -o sign.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c fsign.c -o fsign.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c imax2.c -o imax2.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c imin2.c -o imin2.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c chebyshev.c -o chebyshev.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c log1p.c -o log1p.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c expm1.c -o expm1.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c lgammacor.c -o lgammacor.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c gammalims.c -o gammalims.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c stirlerr.c -o stirlerr.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c bd0.c -o bd0.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c gamma.c -o gamma.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c lgamma.c -o lgamma.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c gamma_cody.c -o gamma_cody.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c beta.c -o beta.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c lbeta.c -o lbeta.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c polygamma.c -o polygamma.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c bessel_i.c -o bessel_i.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c bessel_j.c -o bessel_j.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c bessel_k.c -o bessel_k.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c bessel_y.c -o bessel_y.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c choose.c -o choose.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c snorm.c -o snorm.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c sexp.c -o sexp.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c dgamma.c -o dgamma.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c pgamma.c -o pgamma.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c qgamma.c -o qgamma.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c rgamma.c -o rgamma.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c dbeta.c -o dbeta.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c pbeta.c -o pbeta.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c qbeta.c -o qbeta.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c rbeta.c -o rbeta.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c dunif.c -o dunif.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c punif.c -o punif.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c qunif.c -o qunif.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c runif.c -o runif.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c dnorm.c -o dnorm.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c pnorm.c -o pnorm.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c qnorm.c -o qnorm.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c rnorm.c -o rnorm.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c dlnorm.c -o dlnorm.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c plnorm.c -o plnorm.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c qlnorm.c -o qlnorm.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c rlnorm.c -o rlnorm.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c df.c -o df.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c pf.c -o pf.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c qf.c -o qf.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c rf.c -o rf.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c dnf.c -o dnf.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c dt.c -o dt.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c pt.c -o pt.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c qt.c -o qt.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c rt.c -o rt.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c dnt.c -o dnt.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c dchisq.c -o dchisq.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c pchisq.c -o pchisq.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c qchisq.c -o qchisq.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c rchisq.c -o rchisq.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c rnchisq.c -o rnchisq.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c dbinom.c -o dbinom.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c pbinom.c -o pbinom.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c qbinom.c -o qbinom.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c rbinom.c -o rbinom.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c rmultinom.c -o rmultinom.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c dcauchy.c -o dcauchy.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c pcauchy.c -o pcauchy.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c qcauchy.c -o qcauchy.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c rcauchy.c -o rcauchy.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c dexp.c -o dexp.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c pexp.c -o pexp.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c qexp.c -o qexp.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c rexp.c -o rexp.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c dgeom.c -o dgeom.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c pgeom.c -o pgeom.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c qgeom.c -o qgeom.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c rgeom.c -o rgeom.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c dhyper.c -o dhyper.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c phyper.c -o phyper.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c qhyper.c -o qhyper.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c rhyper.c -o rhyper.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c dnbinom.c -o dnbinom.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c pnbinom.c -o pnbinom.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c qnbinom.c -o qnbinom.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c rnbinom.c -o rnbinom.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c dpois.c -o dpois.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c ppois.c -o ppois.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c qpois.c -o qpois.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c rpois.c -o rpois.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c dweibull.c -o dweibull.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c pweibull.c -o pweibull.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c qweibull.c -o qweibull.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c rweibull.c -o rweibull.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c dlogis.c -o dlogis.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c plogis.c -o plogis.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c qlogis.c -o qlogis.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c rlogis.c -o rlogis.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c dnchisq.c -o dnchisq.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c pnchisq.c -o pnchisq.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c qnchisq.c -o qnchisq.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c dnbeta.c -o dnbeta.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c pnbeta.c -o pnbeta.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c qnbeta.c -o qnbeta.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c pnf.c -o pnf.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c pnt.c -o pnt.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c qnf.c -o qnf.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c qnt.c -o qnt.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c ptukey.c -o ptukey.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c qtukey.c -o qtukey.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c toms708.c -o toms708.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c wilcox.c -o wilcox.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c signrank.c -o signrank.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fopenmp -O3 -pipe -g -D_REENTRANT -c std_unif.c -o std_unif.o ar cr libRmath.a mlutils.o d1mach.o i1mach.o fmax2.o fmin2.o fprec.o fround.o ftrunc.o sign.o fsign.o imax2.o imin2.o chebyshev.o log1p.o expm1.o lgammacor.o gammalims.o stirlerr.o bd0.o gamma.o lgamma.o gamma_cody.o beta.o lbeta.o polygamma.o bessel_i.o bessel_j.o bessel_k.o bessel_y.o choose.o snorm.o sexp.o dgamma.o pgamma.o qgamma.o rgamma.o dbeta.o pbeta.o qbeta.o rbeta.o dunif.o punif.o qunif.o runif.o dnorm.o pnorm.o qnorm.o rnorm.o dlnorm.o plnorm.o qlnorm.o rlnorm.o df.o pf.o qf.o rf.o dnf.o dt.o pt.o qt.o rt.o dnt.o dchisq.o pchisq.o qchisq.o rchisq.o rnchisq.o dbinom.o pbinom.o qbinom.o rbinom.o rmultinom.o dcauchy.o pcauchy.o qcauchy.o rcauchy.o dexp.o pexp.o qexp.o rexp.o dgeom.o pgeom.o qgeom.o rgeom.o dhyper.o phyper.o qhyper.o rhyper.o dnbinom.o pnbinom.o qnbinom.o rnbinom.o dpois.o ppois.o qpois.o rpois.o dweibull.o pweibull.o qweibull.o rweibull.o dlogis.o plogis.o qlogis.o rlogis.o dnchisq.o pnchisq.o qnchisq.o dnbeta.o pnbeta.o qnbeta.o pnf.o pnt.o qnf.o qnt.o ptukey.o qtukey.o toms708.o wilcox.o signrank.o std_unif.o ranlib libRmath.a make[2]: Leaving directory `/«PKGBUILDDIR»/src/nmath/standalone' make[1]: Leaving directory `/«PKGBUILDDIR»/src/nmath/standalone' /usr/bin/make docs R_CMD_BUILD_HELP_OPTS="--txt --example" make[1]: Entering directory `/«PKGBUILDDIR»' make[2]: Entering directory `/«PKGBUILDDIR»/m4' make[2]: Nothing to be done for `R'. make[2]: Leaving directory `/«PKGBUILDDIR»/m4' make[2]: Entering directory `/«PKGBUILDDIR»/tools' make[2]: Nothing to be done for `R'. make[2]: Leaving directory `/«PKGBUILDDIR»/tools' make[2]: Entering directory `/«PKGBUILDDIR»/doc' make[3]: Entering directory `/«PKGBUILDDIR»/doc/html' make[3]: Leaving directory `/«PKGBUILDDIR»/doc/html' make[3]: Entering directory `/«PKGBUILDDIR»/doc/manual' make[3]: Nothing to be done for `R'. make[3]: Leaving directory `/«PKGBUILDDIR»/doc/manual' make[2]: Leaving directory `/«PKGBUILDDIR»/doc' make[2]: Entering directory `/«PKGBUILDDIR»/etc' make[2]: Leaving directory `/«PKGBUILDDIR»/etc' make[2]: Entering directory `/«PKGBUILDDIR»/share' make[2]: Leaving directory `/«PKGBUILDDIR»/share' make[2]: Entering directory `/«PKGBUILDDIR»/src' make[3]: Entering directory `/«PKGBUILDDIR»/src/scripts' make[4]: Entering directory `/«PKGBUILDDIR»/src/scripts' make[4]: Leaving directory `/«PKGBUILDDIR»/src/scripts' make[3]: Leaving directory `/«PKGBUILDDIR»/src/scripts' make[3]: Entering directory `/«PKGBUILDDIR»/src/include' make[4]: Entering directory `/«PKGBUILDDIR»/src/include/R_ext' make[4]: Nothing to be done for `R'. make[4]: Leaving directory `/«PKGBUILDDIR»/src/include/R_ext' make[3]: Leaving directory `/«PKGBUILDDIR»/src/include' make[3]: Entering directory `/«PKGBUILDDIR»/src/extra' make[4]: Entering directory `/«PKGBUILDDIR»/src/extra/tre' make[5]: Entering directory `/«PKGBUILDDIR»/src/extra/tre' make[5]: `Makedeps' is up to date. make[5]: Leaving directory `/«PKGBUILDDIR»/src/extra/tre' make[5]: Entering directory `/«PKGBUILDDIR»/src/extra/tre' make[5]: `libtre.a' is up to date. make[5]: Leaving directory `/«PKGBUILDDIR»/src/extra/tre' make[4]: Leaving directory `/«PKGBUILDDIR»/src/extra/tre' make[3]: Leaving directory `/«PKGBUILDDIR»/src/extra' make[3]: Entering directory `/«PKGBUILDDIR»/src/appl' make[4]: Entering directory `/«PKGBUILDDIR»/src/appl' make[4]: `Makedeps' is up to date. make[4]: Leaving directory `/«PKGBUILDDIR»/src/appl' make[4]: Entering directory `/«PKGBUILDDIR»/src/appl' make[4]: `libappl.a' is up to date. make[4]: Leaving directory `/«PKGBUILDDIR»/src/appl' make[3]: Leaving directory `/«PKGBUILDDIR»/src/appl' make[3]: Entering directory `/«PKGBUILDDIR»/src/nmath' make[4]: Entering directory `/«PKGBUILDDIR»/src/nmath' make[4]: `Makedeps' is up to date. make[4]: Leaving directory `/«PKGBUILDDIR»/src/nmath' make[4]: Entering directory `/«PKGBUILDDIR»/src/nmath' make[4]: `libnmath.a' is up to date. make[4]: Leaving directory `/«PKGBUILDDIR»/src/nmath' make[3]: Leaving directory `/«PKGBUILDDIR»/src/nmath' make[3]: Entering directory `/«PKGBUILDDIR»/src/unix' make[4]: Entering directory `/«PKGBUILDDIR»/src/unix' make[4]: `Makedeps' is up to date. make[4]: Leaving directory `/«PKGBUILDDIR»/src/unix' make[4]: Entering directory `/«PKGBUILDDIR»/src/unix' make[4]: `libunix.a' is up to date. make[4]: Leaving directory `/«PKGBUILDDIR»/src/unix' make[4]: Entering directory `/«PKGBUILDDIR»/src/unix' gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -DR_HOME='"/«PKGBUILDDIR»"' -o Rscript \ ./Rscript.c make[4]: Leaving directory `/«PKGBUILDDIR»/src/unix' make[3]: Leaving directory `/«PKGBUILDDIR»/src/unix' make[3]: Entering directory `/«PKGBUILDDIR»/src/main' make[4]: Entering directory `/«PKGBUILDDIR»/src/main' make[4]: `Makedeps' is up to date. make[4]: Leaving directory `/«PKGBUILDDIR»/src/main' make[4]: Entering directory `/«PKGBUILDDIR»/src/main' make[5]: Entering directory `/«PKGBUILDDIR»/src/main' /«PKGBUILDDIR»/lib/libR.so is unchanged make[5]: Leaving directory `/«PKGBUILDDIR»/src/main' make[4]: Leaving directory `/«PKGBUILDDIR»/src/main' make[4]: Entering directory `/«PKGBUILDDIR»/src/main' make[5]: Entering directory `/«PKGBUILDDIR»/src/main' /«PKGBUILDDIR»/bin/exec/R is unchanged make[5]: Leaving directory `/«PKGBUILDDIR»/src/main' make[4]: Leaving directory `/«PKGBUILDDIR»/src/main' make[3]: Leaving directory `/«PKGBUILDDIR»/src/main' make[3]: Entering directory `/«PKGBUILDDIR»/src/modules' make[4]: Entering directory `/«PKGBUILDDIR»/src/modules/internet' make[5]: Entering directory `/«PKGBUILDDIR»/src/modules/internet' make[5]: `Makedeps' is up to date. make[5]: Leaving directory `/«PKGBUILDDIR»/src/modules/internet' make[5]: Entering directory 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directory `/«PKGBUILDDIR»/src/library/base' make[4]: Leaving directory `/«PKGBUILDDIR»/src/library/base' make[4]: Entering directory `/«PKGBUILDDIR»/src/library/tools' building package 'tools' make[5]: Entering directory `/«PKGBUILDDIR»/src/library/tools' all.R is unchanged make[5]: Leaving directory `/«PKGBUILDDIR»/src/library/tools' make[5]: Entering directory `/«PKGBUILDDIR»/src/library/tools' make[6]: Entering directory `/«PKGBUILDDIR»/src/library/tools/src' make[7]: Entering directory `/«PKGBUILDDIR»/src/library/tools/src' make[7]: `Makedeps' is up to date. make[7]: Leaving directory `/«PKGBUILDDIR»/src/library/tools/src' make[7]: Entering directory `/«PKGBUILDDIR»/src/library/tools/src' ../../../../library/tools/libs/tools.so is unchanged make[7]: Leaving directory `/«PKGBUILDDIR»/src/library/tools/src' make[6]: Leaving directory `/«PKGBUILDDIR»/src/library/tools/src' make[5]: Leaving directory `/«PKGBUILDDIR»/src/library/tools' make[4]: Leaving directory `/«PKGBUILDDIR»/src/library/tools' make[4]: Entering directory `/«PKGBUILDDIR»/src/library/compiler' building package 'compiler' make[5]: Entering directory `/«PKGBUILDDIR»/src/library/compiler' all.R is unchanged make[5]: Leaving directory `/«PKGBUILDDIR»/src/library/compiler' make[5]: Entering directory `/«PKGBUILDDIR»/src/library/compiler' make[5]: Nothing to be done for `mklazycomp'. make[5]: Leaving directory `/«PKGBUILDDIR»/src/library/compiler' make[4]: Leaving directory `/«PKGBUILDDIR»/src/library/compiler' make[4]: Entering directory `/«PKGBUILDDIR»/src/library/base' make[4]: Nothing to be done for `mklazycomp'. make[4]: Leaving directory `/«PKGBUILDDIR»/src/library/base' make[4]: Entering directory `/«PKGBUILDDIR»/src/library/tools' make[4]: Nothing to be done for `mklazycomp'. make[4]: Leaving directory `/«PKGBUILDDIR»/src/library/tools' make[4]: Entering directory `/«PKGBUILDDIR»/src/library/utils' building package 'utils' make[5]: Entering directory `/«PKGBUILDDIR»/src/library/utils' all.R is unchanged make[5]: Nothing to be done for `iconvlist'. make[5]: Leaving directory `/«PKGBUILDDIR»/src/library/utils' make[5]: Entering directory `/«PKGBUILDDIR»/src/library/utils' make[5]: Nothing to be done for `mklazycomp'. make[5]: Leaving directory `/«PKGBUILDDIR»/src/library/utils' make[4]: Leaving directory `/«PKGBUILDDIR»/src/library/utils' make[4]: Entering directory `/«PKGBUILDDIR»/src/library/grDevices' building package 'grDevices' make[5]: Entering directory `/«PKGBUILDDIR»/src/library/grDevices' all.R is unchanged make[5]: Leaving directory `/«PKGBUILDDIR»/src/library/grDevices' make[5]: Entering directory `/«PKGBUILDDIR»/src/library/grDevices' make[6]: Entering directory `/«PKGBUILDDIR»/src/library/grDevices/src' make[7]: Entering directory `/«PKGBUILDDIR»/src/library/grDevices/src' make[7]: `Makedeps' is up to date. make[7]: Leaving directory `/«PKGBUILDDIR»/src/library/grDevices/src' make[7]: Entering directory `/«PKGBUILDDIR»/src/library/grDevices/src' ../../../../library/grDevices/libs/grDevices.so is unchanged make[8]: Entering directory `/«PKGBUILDDIR»/src/library/grDevices/src/cairo' make[9]: Entering directory `/«PKGBUILDDIR»/src/library/grDevices/src/cairo' make[9]: `Makedeps' is up to date. make[9]: Leaving directory `/«PKGBUILDDIR»/src/library/grDevices/src/cairo' make[9]: Entering directory `/«PKGBUILDDIR»/src/library/grDevices/src/cairo' make[10]: Entering directory `/«PKGBUILDDIR»/src/library/grDevices/src/cairo' make[10]: `cairo.so' is up to date. make[10]: Leaving directory `/«PKGBUILDDIR»/src/library/grDevices/src/cairo' make[9]: Leaving directory `/«PKGBUILDDIR»/src/library/grDevices/src/cairo' make[8]: Leaving directory `/«PKGBUILDDIR»/src/library/grDevices/src/cairo' make[7]: Leaving directory `/«PKGBUILDDIR»/src/library/grDevices/src' make[6]: Leaving directory `/«PKGBUILDDIR»/src/library/grDevices/src' make[5]: Leaving directory `/«PKGBUILDDIR»/src/library/grDevices' make[5]: Entering directory `/«PKGBUILDDIR»/src/library/grDevices' make[5]: Nothing to be done for `mklazycomp'. make[5]: Leaving directory `/«PKGBUILDDIR»/src/library/grDevices' make[4]: Leaving directory `/«PKGBUILDDIR»/src/library/grDevices' make[4]: Entering directory `/«PKGBUILDDIR»/src/library/graphics' building package 'graphics' make[5]: Entering directory `/«PKGBUILDDIR»/src/library/graphics' all.R is unchanged make[5]: Leaving directory `/«PKGBUILDDIR»/src/library/graphics' make[5]: Entering directory `/«PKGBUILDDIR»/src/library/graphics' make[5]: Nothing to be done for `mklazycomp'. make[5]: Leaving directory `/«PKGBUILDDIR»/src/library/graphics' make[4]: Leaving directory `/«PKGBUILDDIR»/src/library/graphics' make[4]: Entering directory `/«PKGBUILDDIR»/src/library/stats' building package 'stats' make[5]: Entering directory `/«PKGBUILDDIR»/src/library/stats' all.R is unchanged make[5]: Leaving directory `/«PKGBUILDDIR»/src/library/stats' make[5]: Entering directory `/«PKGBUILDDIR»/src/library/stats' make[6]: Entering directory `/«PKGBUILDDIR»/src/library/stats/src' make[7]: Entering directory `/«PKGBUILDDIR»/src/library/stats/src' make[7]: `Makedeps' is up to date. make[7]: Leaving directory `/«PKGBUILDDIR»/src/library/stats/src' make[7]: Entering directory `/«PKGBUILDDIR»/src/library/stats/src' ../../../../library/stats/libs/stats.so is unchanged make[7]: Leaving directory `/«PKGBUILDDIR»/src/library/stats/src' make[6]: Leaving directory `/«PKGBUILDDIR»/src/library/stats/src' make[5]: Leaving directory `/«PKGBUILDDIR»/src/library/stats' make[5]: Entering directory `/«PKGBUILDDIR»/src/library/stats' make[5]: Nothing to be done for `mklazycomp'. make[5]: Leaving directory `/«PKGBUILDDIR»/src/library/stats' make[4]: Leaving directory `/«PKGBUILDDIR»/src/library/stats' make[4]: Entering directory `/«PKGBUILDDIR»/src/library/datasets' building package 'datasets' make[5]: Entering directory `/«PKGBUILDDIR»/src/library/datasets' make[5]: Leaving directory `/«PKGBUILDDIR»/src/library/datasets' Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'AirPassengers' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'AirPassengers' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'BJsales' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'BJsales' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'BOD' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'BOD' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'CO2' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'CO2' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'ChickWeight' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'ChickWeight' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'DNase' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'DNase' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'EuStockMarkets' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'EuStockMarkets' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'Formaldehyde' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'Formaldehyde' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'HairEyeColor' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'HairEyeColor' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'Harman23.cor' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'Harman23.cor' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'Harman74.cor' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'Harman74.cor' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'Indometh' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'Indometh' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'InsectSprays' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'InsectSprays' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'JohnsonJohnson' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'JohnsonJohnson' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'LakeHuron' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'LakeHuron' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'LifeCycleSavings' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'LifeCycleSavings' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'Loblolly' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'Loblolly' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'Nile' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'Nile' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'Orange' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'Orange' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'OrchardSprays' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'OrchardSprays' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'PlantGrowth' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'PlantGrowth' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'Puromycin' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'Puromycin' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'Seatbelts' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'Seatbelts' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'Theoph' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'Theoph' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'Titanic' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'Titanic' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'ToothGrowth' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'ToothGrowth' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'UCBAdmissions' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'UCBAdmissions' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'UKDriverDeaths' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'UKDriverDeaths' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'UKLungDeaths' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'UKLungDeaths' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'UKgas' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'UKgas' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'USAccDeaths' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'USAccDeaths' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'USArrests' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'USArrests' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'USJudgeRatings' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'USJudgeRatings' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'USPersonalExpenditure' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'USPersonalExpenditure' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'VADeaths' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'VADeaths' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'WWWusage' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'WWWusage' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'WorldPhones' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'WorldPhones' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'ability.cov' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'ability.cov' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'airmiles' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'airmiles' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'airquality' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'airquality' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'anscombe' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'anscombe' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'attenu' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'attenu' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'attitude' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'attitude' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'austres' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'austres' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'beavers' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'beavers' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'cars' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'cars' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'chickwts' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'chickwts' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'co2' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'co2' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'crimtab' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'crimtab' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'discoveries' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'discoveries' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'esoph' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'esoph' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'euro' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'euro' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'eurodist' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'eurodist' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'faithful' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'faithful' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'freeny' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'freeny' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'infert' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'infert' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'iris' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'iris' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'iris3' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'iris3' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'islands' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'islands' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'lh' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'lh' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'longley' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'longley' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'lynx' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'lynx' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'morley' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'morley' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'mtcars' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'mtcars' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'nhtemp' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'nhtemp' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'nottem' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'nottem' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'occupationalStatus' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'occupationalStatus' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'precip' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'precip' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'presidents' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'presidents' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'pressure' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'pressure' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'quakes' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'quakes' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'randu' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'randu' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'rivers' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'rivers' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'rock' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'rock' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'sleep' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'sleep' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'stackloss' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'stackloss' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'state' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'state' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'sunspot.month' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'sunspot.month' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'sunspot.year' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'sunspot.year' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'sunspots' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'sunspots' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'swiss' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'swiss' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'treering' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'treering' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'trees' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'trees' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'uspop' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'uspop' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'volcano' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'volcano' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'warpbreaks' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'warpbreaks' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'women' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = tmpEnv) : data set 'women' not found make[4]: Leaving directory `/«PKGBUILDDIR»/src/library/datasets' make[4]: Entering directory `/«PKGBUILDDIR»/src/library/methods' building package 'methods' make[5]: Entering directory `/«PKGBUILDDIR»/src/library/methods' all.R is unchanged make[5]: Leaving directory `/«PKGBUILDDIR»/src/library/methods' make[5]: Entering directory `/«PKGBUILDDIR»/src/library/methods' make[6]: Entering directory `/«PKGBUILDDIR»/src/library/methods/src' make[7]: Entering directory `/«PKGBUILDDIR»/src/library/methods/src' make[7]: `Makedeps' is up to date. make[7]: Leaving directory `/«PKGBUILDDIR»/src/library/methods/src' make[7]: Entering directory `/«PKGBUILDDIR»/src/library/methods/src' ../../../../library/methods/libs/methods.so is unchanged make[7]: Leaving directory `/«PKGBUILDDIR»/src/library/methods/src' make[6]: Leaving directory `/«PKGBUILDDIR»/src/library/methods/src' make[5]: Leaving directory `/«PKGBUILDDIR»/src/library/methods' make[5]: Entering directory `/«PKGBUILDDIR»/src/library/methods' make[5]: Nothing to be done for `RfilesLazy'. make[5]: Leaving directory `/«PKGBUILDDIR»/src/library/methods' make[4]: Leaving directory `/«PKGBUILDDIR»/src/library/methods' make[4]: Entering directory `/«PKGBUILDDIR»/src/library/grid' building package 'grid' make[5]: Entering directory `/«PKGBUILDDIR»/src/library/grid' all.R is unchanged make[5]: Leaving directory `/«PKGBUILDDIR»/src/library/grid' make[5]: Entering directory `/«PKGBUILDDIR»/src/library/grid' make[6]: Entering directory `/«PKGBUILDDIR»/src/library/grid/src' make[7]: Entering directory `/«PKGBUILDDIR»/src/library/grid/src' make[7]: `Makedeps' is up to date. make[7]: Leaving directory `/«PKGBUILDDIR»/src/library/grid/src' make[7]: Entering directory `/«PKGBUILDDIR»/src/library/grid/src' ../../../../library/grid/libs/grid.so is unchanged make[7]: Leaving directory `/«PKGBUILDDIR»/src/library/grid/src' make[6]: Leaving directory `/«PKGBUILDDIR»/src/library/grid/src' make[5]: Leaving directory `/«PKGBUILDDIR»/src/library/grid' make[5]: Entering directory `/«PKGBUILDDIR»/src/library/grid' make[5]: Nothing to be done for `mklazycomp'. make[5]: Leaving directory `/«PKGBUILDDIR»/src/library/grid' make[4]: Leaving directory `/«PKGBUILDDIR»/src/library/grid' make[4]: Entering directory `/«PKGBUILDDIR»/src/library/splines' building package 'splines' make[5]: Entering directory `/«PKGBUILDDIR»/src/library/splines' all.R is unchanged make[5]: Leaving directory `/«PKGBUILDDIR»/src/library/splines' make[5]: Entering directory `/«PKGBUILDDIR»/src/library/splines' make[6]: Entering directory `/«PKGBUILDDIR»/src/library/splines/src' make[7]: Entering directory `/«PKGBUILDDIR»/src/library/splines/src' make[7]: `Makedeps' is up to date. make[7]: Leaving directory `/«PKGBUILDDIR»/src/library/splines/src' make[7]: Entering directory `/«PKGBUILDDIR»/src/library/splines/src' ../../../../library/splines/libs/splines.so is unchanged make[7]: Leaving directory `/«PKGBUILDDIR»/src/library/splines/src' make[6]: Leaving directory `/«PKGBUILDDIR»/src/library/splines/src' make[5]: Leaving directory `/«PKGBUILDDIR»/src/library/splines' make[5]: Entering directory `/«PKGBUILDDIR»/src/library/splines' make[5]: Nothing to be done for `mklazycomp'. make[5]: Leaving directory `/«PKGBUILDDIR»/src/library/splines' make[4]: Leaving directory `/«PKGBUILDDIR»/src/library/splines' make[4]: Entering directory `/«PKGBUILDDIR»/src/library/stats4' building package 'stats4' make[5]: Entering directory `/«PKGBUILDDIR»/src/library/stats4' all.R is unchanged make[5]: Leaving directory `/«PKGBUILDDIR»/src/library/stats4' make[5]: Entering directory `/«PKGBUILDDIR»/src/library/stats4' make[5]: Nothing to be done for `mklazycomp'. make[5]: Leaving directory `/«PKGBUILDDIR»/src/library/stats4' make[4]: Leaving directory `/«PKGBUILDDIR»/src/library/stats4' make[4]: Entering directory `/«PKGBUILDDIR»/src/library/tcltk' building package 'tcltk' all.R is unchanged make[5]: Entering directory `/«PKGBUILDDIR»/src/library/tcltk' make[5]: Leaving directory `/«PKGBUILDDIR»/src/library/tcltk' make[5]: Entering directory `/«PKGBUILDDIR»/src/library/tcltk/src' make[6]: Entering directory `/«PKGBUILDDIR»/src/library/tcltk/src' make[6]: `Makedeps' is up to date. make[6]: Leaving directory `/«PKGBUILDDIR»/src/library/tcltk/src' make[6]: Entering directory `/«PKGBUILDDIR»/src/library/tcltk/src' ../../../../library/tcltk/libs/tcltk.so is unchanged make[6]: Leaving directory `/«PKGBUILDDIR»/src/library/tcltk/src' make[5]: Leaving directory `/«PKGBUILDDIR»/src/library/tcltk/src' make[5]: Entering directory `/«PKGBUILDDIR»/src/library/tcltk' make[5]: Nothing to be done for `mklazycomp'. make[5]: Leaving directory `/«PKGBUILDDIR»/src/library/tcltk' make[4]: Leaving directory `/«PKGBUILDDIR»/src/library/tcltk' make[4]: Entering directory `/«PKGBUILDDIR»/src/library/parallel' building package 'parallel' make[5]: Entering directory `/«PKGBUILDDIR»/src/library/parallel' all.R is unchanged make[5]: Leaving directory `/«PKGBUILDDIR»/src/library/parallel' make[5]: Entering directory `/«PKGBUILDDIR»/src/library/parallel' make[6]: Entering directory `/«PKGBUILDDIR»/src/library/parallel/src' make[7]: Entering directory `/«PKGBUILDDIR»/src/library/parallel/src' make[7]: `Makedeps' is up to date. make[7]: Leaving directory `/«PKGBUILDDIR»/src/library/parallel/src' make[7]: Entering directory `/«PKGBUILDDIR»/src/library/parallel/src' ../../../../library/parallel/libs/parallel.so is unchanged make[7]: Leaving directory `/«PKGBUILDDIR»/src/library/parallel/src' make[6]: Leaving directory `/«PKGBUILDDIR»/src/library/parallel/src' make[5]: Leaving directory `/«PKGBUILDDIR»/src/library/parallel' make[5]: Entering directory `/«PKGBUILDDIR»/src/library/parallel' make[5]: Nothing to be done for `mklazycomp'. make[5]: Leaving directory `/«PKGBUILDDIR»/src/library/parallel' make[4]: Leaving directory `/«PKGBUILDDIR»/src/library/parallel' make[4]: Entering directory `/«PKGBUILDDIR»/src/library/base' make[4]: Leaving directory `/«PKGBUILDDIR»/src/library/base' installing parsed NAMESPACE files make[3]: Leaving directory `/«PKGBUILDDIR»/src/library' make[2]: Leaving directory `/«PKGBUILDDIR»/src' make[2]: Entering directory `/«PKGBUILDDIR»/tests' make[2]: Nothing to be done for `R'. make[2]: Leaving directory `/«PKGBUILDDIR»/tests' make[2]: Entering directory `/«PKGBUILDDIR»/po' make[3]: Entering directory `/«PKGBUILDDIR»/po' installing translations: da en en_GB es fr de it ja ko nn pl pt_BR ru tr zh_CN zh_TW en@quot make[3]: Leaving directory `/«PKGBUILDDIR»/po' make[2]: Leaving directory `/«PKGBUILDDIR»/po' you should 'make docs' now ... make[2]: Entering directory `/«PKGBUILDDIR»/doc' creating NEWS creating NEWS.pdf make[3]: Entering directory `/«PKGBUILDDIR»/doc/manual' creating doc/manual/R-FAQ.html creating doc/manual/version.texi creating doc/manual/R-admin.html creating doc/manual/R-data.html creating doc/manual/R-exts.html creating doc/manual/R-intro.html creating doc/manual/R-ints.html creating doc/manual/R-lang.html make[4]: Entering directory `/«PKGBUILDDIR»/doc/html' make[4]: Leaving directory `/«PKGBUILDDIR»/doc/html' make[3]: Leaving directory `/«PKGBUILDDIR»/doc/manual' make[2]: Leaving directory `/«PKGBUILDDIR»/doc' make[2]: Entering directory `/«PKGBUILDDIR»/src/library' make[3]: Entering directory `/«PKGBUILDDIR»/src/library' installing parsed Rd make[4]: Entering directory `/«PKGBUILDDIR»/src/library' base stats utils methods graphics grDevices datasets grid tools tcltk splines stats4 compiler parallel make[4]: Leaving directory `/«PKGBUILDDIR»/src/library' make[3]: Leaving directory `/«PKGBUILDDIR»/src/library' make[3]: Entering directory `/«PKGBUILDDIR»/src/library' building/updating package metadata ... Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'AirPassengers' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'BJsales' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'BOD' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'CO2' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'ChickWeight' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'DNase' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'EuStockMarkets' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'Formaldehyde' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'HairEyeColor' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'Harman23.cor' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'Harman74.cor' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'Indometh' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'InsectSprays' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'JohnsonJohnson' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'LakeHuron' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'LifeCycleSavings' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'Loblolly' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'Nile' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'Orange' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'OrchardSprays' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'PlantGrowth' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'Puromycin' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'Seatbelts' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'Theoph' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'Titanic' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'ToothGrowth' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'UCBAdmissions' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'UKDriverDeaths' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'UKLungDeaths' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'UKgas' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'USAccDeaths' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'USArrests' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'USJudgeRatings' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'USPersonalExpenditure' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'VADeaths' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'WWWusage' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'WorldPhones' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'ability.cov' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'airmiles' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'airquality' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'anscombe' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'attenu' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'attitude' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'austres' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'beavers' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'cars' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'chickwts' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'co2' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'crimtab' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'discoveries' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'esoph' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'euro' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'eurodist' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'faithful' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'freeny' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'infert' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'iris' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'iris3' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'islands' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'lh' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'longley' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'lynx' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'morley' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'mtcars' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'nhtemp' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'nottem' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'occupationalStatus' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'precip' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'presidents' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'pressure' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'quakes' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'randu' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'rivers' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'rock' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'sleep' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'stackloss' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'state' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'sunspot.month' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'sunspot.year' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'sunspots' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'swiss' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'treering' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'trees' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'uspop' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'volcano' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'warpbreaks' not found Warning in utils::data(list = f, package = package, lib.loc = lib.loc, envir = dataEnv) : data set 'women' not found make[3]: Leaving directory `/«PKGBUILDDIR»/src/library' make[3]: Entering directory `/«PKGBUILDDIR»/src/library' writing package indices make[4]: Entering directory `/«PKGBUILDDIR»/src/library' make[4]: Leaving directory `/«PKGBUILDDIR»/src/library' make[3]: Leaving directory `/«PKGBUILDDIR»/src/library' make[2]: Leaving directory `/«PKGBUILDDIR»/src/library' make[1]: Leaving directory `/«PKGBUILDDIR»' touch make-arch-stamp *** check *** touch check-stamp fakeroot debian/rules binary-arch *** install-arch *** dh_testdir dh_testroot dh_prep -a dh_installdirs -A /«PKGBUILDDIR»/debian/r-base-core /usr/bin/make DESTDIR=/«PKGBUILDDIR»/debian/r-base-core install make[1]: Entering directory `/«PKGBUILDDIR»' make[2]: Entering directory `/«PKGBUILDDIR»/m4' make[2]: Nothing to be done for `install'. make[2]: Leaving directory `/«PKGBUILDDIR»/m4' make[2]: Entering directory `/«PKGBUILDDIR»/tools' make[2]: Nothing to be done for `install'. make[2]: Leaving directory `/«PKGBUILDDIR»/tools' make[2]: Entering directory `/«PKGBUILDDIR»/doc' installing doc ... mkdir -p -- /«PKGBUILDDIR»/debian/r-base-core/usr/share/R/doc mkdir -p -- /«PKGBUILDDIR»/debian/r-base-core/usr/share/man/man1 make[3]: Entering directory `/«PKGBUILDDIR»/doc/html' installing doc/html ... mkdir -p -- /«PKGBUILDDIR»/debian/r-base-core/usr/share/R/doc/html make[3]: Leaving directory `/«PKGBUILDDIR»/doc/html' make[3]: Entering directory `/«PKGBUILDDIR»/doc/manual' installing doc/manual ... mkdir -p -- /«PKGBUILDDIR»/debian/r-base-core/usr/share/R/doc/manual make[3]: Leaving directory `/«PKGBUILDDIR»/doc/manual' make[2]: Leaving directory `/«PKGBUILDDIR»/doc' make[2]: Entering directory `/«PKGBUILDDIR»/etc' mkdir -p -- /«PKGBUILDDIR»/debian/r-base-core/usr/lib/R/etc installing etc ... make[2]: Leaving directory `/«PKGBUILDDIR»/etc' make[2]: Entering directory `/«PKGBUILDDIR»/share' installing share ... mkdir -p -- /«PKGBUILDDIR»/debian/r-base-core/usr/share/R/share mkdir -p -- /«PKGBUILDDIR»/debian/r-base-core/usr/share/R/share/R mkdir -p -- /«PKGBUILDDIR»/debian/r-base-core/usr/share/R/share/encodings mkdir -p -- /«PKGBUILDDIR»/debian/r-base-core/usr/share/R/share/java mkdir -p -- /«PKGBUILDDIR»/debian/r-base-core/usr/share/R/share/licenses mkdir -p -- /«PKGBUILDDIR»/debian/r-base-core/usr/share/R/share/make mkdir -p -- /«PKGBUILDDIR»/debian/r-base-core/usr/share/R/share/sh mkdir -p -- /«PKGBUILDDIR»/debian/r-base-core/usr/share/R/share/texmf mkdir -p -- /«PKGBUILDDIR»/debian/r-base-core/usr/share/R/share/texmf/bibtex/bib mkdir -p -- /«PKGBUILDDIR»/debian/r-base-core/usr/share/R/share/texmf/bibtex/bst mkdir -p -- /«PKGBUILDDIR»/debian/r-base-core/usr/share/R/share/texmf/tex/latex make[2]: Leaving directory `/«PKGBUILDDIR»/share' make[2]: Entering directory `/«PKGBUILDDIR»/src' make[3]: Entering directory `/«PKGBUILDDIR»/src/scripts' mkdir -p -- /«PKGBUILDDIR»/debian/r-base-core/usr/lib/R/bin make[3]: Leaving directory `/«PKGBUILDDIR»/src/scripts' make[3]: Entering directory `/«PKGBUILDDIR»/src/include' make[4]: Entering directory `/«PKGBUILDDIR»/src/include/R_ext' mkdir -p -- /«PKGBUILDDIR»/debian/r-base-core/usr/share/R/include/R_ext make[4]: Leaving directory `/«PKGBUILDDIR»/src/include/R_ext' make[3]: Leaving directory `/«PKGBUILDDIR»/src/include' make[3]: Entering directory `/«PKGBUILDDIR»/src/extra' make[4]: Entering directory `/«PKGBUILDDIR»/src/extra/blas' make[4]: Nothing to be done for `install'. make[4]: Leaving directory `/«PKGBUILDDIR»/src/extra/blas' make[4]: Entering directory `/«PKGBUILDDIR»/src/extra/bzip2' make[4]: Nothing to be done for `install'. make[4]: Leaving directory `/«PKGBUILDDIR»/src/extra/bzip2' make[4]: Entering directory `/«PKGBUILDDIR»/src/extra/pcre' make[4]: Nothing to be done for `install'. make[4]: Leaving directory `/«PKGBUILDDIR»/src/extra/pcre' make[4]: Entering directory `/«PKGBUILDDIR»/src/extra/tre' make[4]: Nothing to be done for `install'. make[4]: Leaving directory `/«PKGBUILDDIR»/src/extra/tre' make[4]: Entering directory `/«PKGBUILDDIR»/src/extra/xdr' make[4]: Nothing to be done for `install'. make[4]: Leaving directory `/«PKGBUILDDIR»/src/extra/xdr' make[4]: Entering directory `/«PKGBUILDDIR»/src/extra/xz' make[4]: Nothing to be done for `install'. make[4]: Leaving directory `/«PKGBUILDDIR»/src/extra/xz' make[4]: Entering directory `/«PKGBUILDDIR»/src/extra/zlib' make[4]: Nothing to be done for `install'. make[4]: Leaving directory `/«PKGBUILDDIR»/src/extra/zlib' make[4]: Entering directory `/«PKGBUILDDIR»/src/extra/intl' make[4]: Nothing to be done for `install'. make[4]: Leaving directory `/«PKGBUILDDIR»/src/extra/intl' make[3]: Leaving directory `/«PKGBUILDDIR»/src/extra' make[3]: Entering directory `/«PKGBUILDDIR»/src/appl' make[3]: Nothing to be done for `install'. make[3]: Leaving directory `/«PKGBUILDDIR»/src/appl' make[3]: Entering directory `/«PKGBUILDDIR»/src/nmath' make[3]: Nothing to be done for `install'. make[3]: Leaving directory `/«PKGBUILDDIR»/src/nmath' make[3]: Entering directory `/«PKGBUILDDIR»/src/unix' gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -DR_HOME='"/usr/lib/R"' -o Rscript \ ./Rscript.c mkdir -p -- /«PKGBUILDDIR»/debian/r-base-core/usr/lib/pkgconfig make[3]: Leaving directory `/«PKGBUILDDIR»/src/unix' make[3]: Entering directory `/«PKGBUILDDIR»/src/main' mkdir -p -- /«PKGBUILDDIR»/debian/r-base-core/usr/lib/R/bin/exec make[4]: Entering directory `/«PKGBUILDDIR»/src/main' make[4]: Leaving directory `/«PKGBUILDDIR»/src/main' make[4]: Entering directory `/«PKGBUILDDIR»/src/main' mkdir -p -- /«PKGBUILDDIR»/debian/r-base-core/usr/lib/R/lib make[4]: Leaving directory `/«PKGBUILDDIR»/src/main' make[3]: Leaving directory `/«PKGBUILDDIR»/src/main' make[3]: Entering directory `/«PKGBUILDDIR»/src/modules' make[4]: Entering directory `/«PKGBUILDDIR»/src/modules/internet' mkdir -p -- /«PKGBUILDDIR»/debian/r-base-core/usr/lib/R/modules make[4]: Leaving directory `/«PKGBUILDDIR»/src/modules/internet' make[4]: Entering directory `/«PKGBUILDDIR»/src/modules/lapack' make[4]: Leaving directory `/«PKGBUILDDIR»/src/modules/lapack' make[4]: Entering directory `/«PKGBUILDDIR»/src/modules/vfonts' make[4]: Leaving directory `/«PKGBUILDDIR»/src/modules/vfonts' make[4]: Entering directory `/«PKGBUILDDIR»/src/modules/X11' make[4]: Leaving directory `/«PKGBUILDDIR»/src/modules/X11' make[3]: Leaving directory `/«PKGBUILDDIR»/src/modules' make[3]: Entering directory `/«PKGBUILDDIR»/src/library' mkdir -p -- /«PKGBUILDDIR»/debian/r-base-core/usr/lib/R/library installing packages ... building HTML index ... make[3]: Leaving directory `/«PKGBUILDDIR»/src/library' make[2]: Leaving directory `/«PKGBUILDDIR»/src' make[2]: Entering directory `/«PKGBUILDDIR»/tests' make[2]: Nothing to be done for `install'. make[2]: Leaving directory `/«PKGBUILDDIR»/tests' make[2]: Entering directory `/«PKGBUILDDIR»/po' installing translations: mkdir -p -- /«PKGBUILDDIR»/debian/r-base-core/usr/share/R/share/locale/da/LC_MESSAGES da mkdir -p -- /«PKGBUILDDIR»/debian/r-base-core/usr/share/R/share/locale/en/LC_MESSAGES en mkdir -p -- /«PKGBUILDDIR»/debian/r-base-core/usr/share/R/share/locale/en_GB/LC_MESSAGES en_GB mkdir -p -- /«PKGBUILDDIR»/debian/r-base-core/usr/share/R/share/locale/es/LC_MESSAGES es mkdir -p -- /«PKGBUILDDIR»/debian/r-base-core/usr/share/R/share/locale/fr/LC_MESSAGES fr mkdir -p -- /«PKGBUILDDIR»/debian/r-base-core/usr/share/R/share/locale/de/LC_MESSAGES de mkdir -p -- /«PKGBUILDDIR»/debian/r-base-core/usr/share/R/share/locale/it/LC_MESSAGES it mkdir -p -- /«PKGBUILDDIR»/debian/r-base-core/usr/share/R/share/locale/ja/LC_MESSAGES ja mkdir -p -- /«PKGBUILDDIR»/debian/r-base-core/usr/share/R/share/locale/ko/LC_MESSAGES ko mkdir -p -- /«PKGBUILDDIR»/debian/r-base-core/usr/share/R/share/locale/nn/LC_MESSAGES nn mkdir -p -- /«PKGBUILDDIR»/debian/r-base-core/usr/share/R/share/locale/pl/LC_MESSAGES pl mkdir -p -- /«PKGBUILDDIR»/debian/r-base-core/usr/share/R/share/locale/pt_BR/LC_MESSAGES pt_BR mkdir -p -- /«PKGBUILDDIR»/debian/r-base-core/usr/share/R/share/locale/ru/LC_MESSAGES ru mkdir -p -- /«PKGBUILDDIR»/debian/r-base-core/usr/share/R/share/locale/tr/LC_MESSAGES tr mkdir -p -- /«PKGBUILDDIR»/debian/r-base-core/usr/share/R/share/locale/zh_CN/LC_MESSAGES zh_CN mkdir -p -- /«PKGBUILDDIR»/debian/r-base-core/usr/share/R/share/locale/zh_TW/LC_MESSAGES zh_TW mkdir -p -- /«PKGBUILDDIR»/debian/r-base-core/usr/share/R/share/locale/en@quot/LC_MESSAGES en@quot make[2]: Leaving directory `/«PKGBUILDDIR»/po' make[1]: Leaving directory `/«PKGBUILDDIR»' (cd src/unix; \ rm -vf Rscript /«PKGBUILDDIR»/debian/r-base-core/usr/bin/Rscript; \ /usr/bin/make CFLAGS="-O3 -pipe -g -D_REENTRANT" \ CXXFLAGS="-O3 -pipe -g -D_REENTRANT" \ FFLAGS="-O3 -pipe -g -D_REENTRANT" \ CC="gcc -std=gnu99" \ CXX=g++ \ F77=gfortran \ RHOME=/usr/lib/R \ DESTDIR=/«PKGBUILDDIR»/debian/r-base-core \ install-Rscript ) removed `Rscript' removed `/«PKGBUILDDIR»/debian/r-base-core/usr/bin/Rscript' make[1]: Entering directory `/«PKGBUILDDIR»/src/unix' gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -O3 -pipe -g -D_REENTRANT -DR_HOME='"/usr/lib/R"' -o Rscript \ ./Rscript.c make[1]: Leaving directory `/«PKGBUILDDIR»/src/unix' #ls -ltr /«PKGBUILDDIR»/debian/r-base-core/usr/bin/ #strings src/unix/Rscript cp -vax src/unix/Rscript /«PKGBUILDDIR»/debian/r-base-core/usr/bin/ `src/unix/Rscript' -> `/«PKGBUILDDIR»/debian/r-base-core/usr/bin/Rscript' #ls -ltr /«PKGBUILDDIR»/debian/r-base-core/usr/bin/ #strings /«PKGBUILDDIR»/debian/r-base-core/usr/bin/Rscript (cd src/nmath/standalone; \ /usr/bin/make DESTDIR=/«PKGBUILDDIR»/debian/r-base-core install ) make[1]: Entering directory `/«PKGBUILDDIR»/src/nmath/standalone' make[2]: Entering directory `/«PKGBUILDDIR»/src/include' make[2]: `Rmath.h' is up to date. make[2]: Leaving directory `/«PKGBUILDDIR»/src/include' /«PKGBUILDDIR»/debian/r-base-core/usr/share/R/include/Rmath.h is unchanged make[1]: Leaving directory `/«PKGBUILDDIR»/src/nmath/standalone' chmod a+x /«PKGBUILDDIR»/debian/r-base-core/usr/share/R/share/sh/echo.sh rm -v /«PKGBUILDDIR»/debian/r-base-core/usr/lib/R/COPYING removed `/«PKGBUILDDIR»/debian/r-base-core/usr/lib/R/COPYING' (cd /«PKGBUILDDIR»/debian/r-base-core/usr/lib/R/; \ ln -s ../../share/common-licenses/GPL-2 COPYING) rm -v /«PKGBUILDDIR»/debian/r-base-core/usr/share/R/doc/COPYING removed `/«PKGBUILDDIR»/debian/r-base-core/usr/share/R/doc/COPYING' (cd /«PKGBUILDDIR»/debian/r-base-core/usr/share/R/doc; \ ln -s ../../../share/common-licenses/GPL-2 COPYING) # edd 03 Oct 2006 use link into /usr/share/, not /usr/lib/ (cd /«PKGBUILDDIR»/debian/r-base-core/usr/share/texmf/tex/latex && \ ln -s ../../../R/share/texmf R) dh_movefiles --sourcedir=debian/r-base-core -pr-doc-html dh_movefiles --sourcedir=debian/r-base-core -pr-base-html dh_movefiles --sourcedir=debian/r-base-core -pr-base-latex make prefix=/«PKGBUILDDIR»/debian/r-base-core/usr \ rdocdir=/«PKGBUILDDIR»/debian/r-base-core/usr/share/R/doc \ install-pdf make[1]: Entering directory `/«PKGBUILDDIR»' make[2]: Entering directory `/«PKGBUILDDIR»/doc/manual' creating doc/manual/version.tex collecting LaTeX docs for package 'base' ... Converting parsed Rd's to LaTeX ......................................... collecting LaTeX docs for package 'datasets' ... Converting parsed Rd's to LaTeX ........ collecting LaTeX docs for package 'grDevices' ... Converting parsed Rd's to LaTeX ...... collecting LaTeX docs for package 'graphics' ... Converting parsed Rd's to LaTeX ....... collecting LaTeX docs for package 'grid' ... Converting parsed Rd's to LaTeX ........ collecting LaTeX docs for package 'methods' ... Converting parsed Rd's to LaTeX ....... collecting LaTeX docs for package 'splines' ... Converting parsed Rd's to LaTeX . collecting LaTeX docs for package 'stats' ... Converting parsed Rd's to LaTeX .............................. collecting LaTeX docs for package 'stats4' ... Converting parsed Rd's to LaTeX . collecting LaTeX docs for package 'tcltk' ... Converting parsed Rd's to LaTeX . collecting LaTeX docs for package 'tools' ... Converting parsed Rd's to LaTeX ..... collecting LaTeX docs for package 'utils' ... Converting parsed Rd's to LaTeX ............ PDF/LaTeX documentation: reference index ... This is pdfTeX, Version 3.1415926-2.4-1.40.13 (TeX Live 2012/Debian) restricted \write18 enabled. entering extended mode (./refman.tex LaTeX2e <2011/06/27> Babel and hyphenation patterns for english, dumylang, nohyphenation, lo aded. (/usr/share/texlive/texmf-dist/tex/latex/base/book.cls Document Class: book 2007/10/19 v1.4h Standard LaTeX document class (/usr/share/texlive/texmf-dist/tex/latex/base/bk10.clo)) (../../share/texmf/tex/latex/Rd.sty (/usr/share/texlive/texmf-dist/tex/latex/base/ifthen.sty) (/usr/share/texlive/texmf-dist/tex/latex/tools/longtable.sty) (/usr/share/texlive/texmf-dist/tex/latex/tools/bm.sty) (/usr/share/texlive/texmf-dist/tex/latex/base/alltt.sty) (/usr/share/texlive/texmf-dist/tex/latex/tools/verbatim.sty) (/usr/share/texlive/texmf-dist/tex/latex/url/url.sty) NOT loading ae (/usr/share/texlive/texmf-dist/tex/latex/base/fontenc.sty (/usr/share/texlive/texmf-dist/tex/latex/base/t1enc.def)) (/usr/share/texlive/texmf-dist/tex/latex/psnfss/times.sty) NOT loading lmodern (/usr/share/texlive/texmf-dist/tex/latex/inconsolata/inconsolata.sty (/usr/share/texlive/texmf-dist/tex/latex/base/textcomp.sty (/usr/share/texlive/texmf-dist/tex/latex/base/ts1enc.def)) (/usr/share/texlive/texmf-dist/tex/latex/graphics/keyval.sty)) (/usr/share/texlive/texmf-dist/tex/latex/graphics/color.sty (/usr/share/texlive/texmf-dist/tex/latex/latexconfig/color.cfg) (/usr/share/texlive/texmf-dist/tex/latex/pdftex-def/pdftex.def (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/infwarerr.sty) (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/ltxcmds.sty))) (/usr/share/texlive/texmf-dist/tex/latex/hyperref/hyperref.sty (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/hobsub-hyperref.sty (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/hobsub-generic.sty)) (/usr/share/texlive/texmf-dist/tex/generic/ifxetex/ifxetex.sty) (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/kvoptions.sty) (/usr/share/texlive/texmf-dist/tex/latex/hyperref/pd1enc.def) (/usr/share/texlive/texmf-dist/tex/latex/latexconfig/hyperref.cfg)) Package hyperref Message: Driver (autodetected): hpdftex. (/usr/share/texlive/texmf-dist/tex/latex/hyperref/hpdftex.def (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/rerunfilecheck.sty)) Package hyperref Warning: Option `hyperindex' has already been used, (hyperref) setting the option has no effect on input line 356. Package hyperref Warning: Option `pagebackref' has already been used, (hyperref) setting the option has no effect on input line 356. ) (/usr/share/texlive/texmf-dist/tex/latex/base/inputenc.sty (/usr/share/texlive/texmf-dist/tex/latex/base/utf8.def (/usr/share/texlive/texmf-dist/tex/latex/base/t1enc.dfu) (/usr/share/texlive/texmf-dist/tex/latex/base/ot1enc.dfu) (/usr/share/texlive/texmf-dist/tex/latex/base/omsenc.dfu) (/usr/share/texlive/texmf-dist/tex/latex/base/ts1enc.dfu))) (/usr/share/texlive/texmf-dist/tex/latex/graphics/graphicx.sty (/usr/share/texlive/texmf-dist/tex/latex/graphics/graphics.sty (/usr/share/texlive/texmf-dist/tex/latex/graphics/trig.sty) (/usr/share/texlive/texmf-dist/tex/latex/latexconfig/graphics.cfg))) (/usr/share/texlive/texmf-dist/tex/latex/base/makeidx.sty) Writing index file refman.idx No file refman.aux. (/usr/share/texlive/texmf-dist/tex/latex/base/ts1cmr.fd) (/usr/share/texlive/texmf-dist/tex/latex/psnfss/t1ptm.fd) (/usr/share/texlive/texmf-dist/tex/context/base/supp-pdf.mkii [Loading MPS to PDF converter (version 2006.09.02).] ) (/usr/share/texlive/texmf-dist/tex/latex/hyperref/nameref.sty (/usr/share/texlive/texmf-dist/tex/generic/oberdiek/gettitlestring.sty)) (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/epstopdf-base.sty (/usr/share/texlive/texmf-dist/tex/latex/oberdiek/grfext.sty) (/usr/share/texlive/texmf-dist/tex/latex/latexconfig/epstopdf-sys.cfg)) (/usr/share/texlive/texmf-dist/tex/latex/psnfss/t1phv.fd) (./version.tex) (/usr/share/texlive/texmf-dist/tex/latex/psnfss/ts1ptm.fd) [1{/var/lib/texmf/fo nts/map/pdftex/updmap/pdftex.map}] [1] [2] (./base-pkg.tex Chapter 1. (/usr/share/texlive/texmf-dist/tex/latex/inconsolata/t1fi4.fd) LaTeX Font Warning: Font shape `T1/fi4/bx/n' undefined (Font) using `T1/fi4/m/n' instead on input line 2. [1] Underfull \hbox (badness 10000) in paragraph at lines 77--85 []\T1/ptm/m/n/10 a small pos-i-tive floating-point num-ber \T1/fi4/m/n/10 x \T1 /ptm/m/n/10 such that \T1/fi4/m/n/10 1 - x != 1\T1/ptm/m/n/10 . Underfull \hbox (badness 10000) in paragraph at lines 77--85 \T1/ptm/m/n/10 It equals \T1/fi4/m/n/10 double.base ^ double.neg.ulp.digits \T1 /ptm/m/n/10 if Underfull \hbox (badness 10000) in paragraph at lines 77--85 \T1/fi4/m/n/10 double.base \T1/ptm/m/n/10 is 2 or \T1/fi4/m/n/10 double.roundin g \T1/ptm/m/n/10 is 0; oth-er-wise, it is Underfull \hbox (badness 1668) in paragraph at lines 88--95 []\T1/ptm/m/n/10 the largest nor-mal-ized floating-point num-ber. Typ-i-cally, it is equal to [2] [3] Underfull \hbox (badness 1178) in paragraph at lines 224--228 []\T1/ptm/m/n/10 character string, the pre-ferred set-ting for [][]\T1/fi4/m/n/ 10 options[][][]("pkgType")\T1/ptm/m/n/10 . Val-ues [4] [5] [6] [7] Underfull \hbox (badness 2556) in paragraph at lines 431--437 []\T1/ptm/m/n/10 a nu-meric vec-tor or list with names par-tially match-ing `\T 1/fi4/m/n/10 insertions\T1/ptm/m/n/10 ', [8] [9] [10] [11] [12] [13] [14] [15] [16] Underfull \hbox (badness 2671) in paragraph at lines 982--985 []\T1/ptm/m/n/10 If the calls to \T1/fi4/m/n/10 FUN \T1/ptm/m/n/10 re-turn vec- tors of dif-fer-ent lengths, \T1/fi4/m/n/10 apply \T1/ptm/m/n/10 re-turns a lis t of length [17] [18] [19] Underfull \hbox (badness 10000) in paragraph at lines 1183--1189 []\T1/fi4/m/n/10 %% \T1/ptm/m/n/10 in-di-cates \T1/fi4/m/n/10 x mod y \T1/ptm/m /n/10 and \T1/fi4/m/n/10 %/% \T1/ptm/m/n/10 in-di-cates in-te-ger di-vi-sion. I t is guar-an-teed that Underfull \hbox (badness 3323) in paragraph at lines 1183--1189 \T1/fi4/m/n/10 x == (x %% y) + y * ( x %/% y ) \T1/ptm/m/n/10 (up to round-in g er-ror) un-less \T1/fi4/m/n/10 y == 0 \T1/ptm/m/n/10 where the [20] [21] [22] [23] [24] [25] [26] [27] [28] [29] Underfull \hbox (badness 10000) in paragraph at lines 1851--1853 []\T1/ptm/m/n/10 a date-time ob-ject, or some-thing which can be co-erced by [30] [31] [32] [33] [34] [35] [36] [37] [38] [39] [40] [41] Underfull \hbox (badness 10000) in paragraph at lines 2584--2587 [42] [43] [44] [45] Underfull \vbox (badness 10000) has occurred while \output is active [46] [47] [48] [49] [50] [51] Underfull \hbox (badness 10000) in paragraph at lines 3167--3169 []\T1/ptm/m/n/10 The num-ber of lines printed for the de-parsed call can be lim -ited by set-ting [52] [53] [54] [55] [56] [57] [58] [59] Underfull \hbox (badness 2173) in paragraph at lines 3714--3719 []\T1/ptm/m/n/10 Are the \T1/fi4/m/n/10 R.app \T1/ptm/m/n/10 GUI com-po-nents a nd the [][]\T1/fi4/m/n/10 quartz[][][] \T1/ptm/m/n/10 func-tion op-er-a-tional? Underfull \hbox (badness 3281) in paragraph at lines 3714--3719 \T1/ptm/m/n/10 Only on some Mac OS X builds. Note that this is dis-tinct from [60] Underfull \hbox (badness 2970) in paragraph at lines 3739--3745 []\T1/ptm/m/n/10 is there sup-port the [][]\T1/fi4/m/n/10 svg[][][]\T1/ptm/m/n/ 10 , [][]\T1/fi4/m/n/10 cairo_pdf[][][] \T1/ptm/m/n/10 and [][]\T1/fi4/m/n/10 c airo_ps[][][] \T1/ptm/m/n/10 de-vices, and for [61] [62] [63] Underfull \hbox (badness 10000) in paragraph at lines 3911--3916 \T1/fi4/m/n/10 deparse.level = 0 \T1/ptm/m/n/10 con-structs no la-bels; the de- fault, Underfull \hbox (badness 4391) in paragraph at lines 3911--3916 \T1/fi4/m/n/10 deparse.level = 1 or 2 \T1/ptm/m/n/10 con-structs la-bels from t he ar-gu-ment names, [64] [65] [66] [67] [68] Underfull \hbox (badness 2521) in paragraph at lines 4295--4297 []\T1/ptm/m/n/10 a char-ac-ter vec-tor, or an ob-ject that can be co-erced to c har-ac-ter by [69] [70] [71] [72] [73] [74] [75] [76] [77] [78] [79] [80] [81] [82] [83] [84] [85] [86] [87] [88] [89] [90] [91] Underfull \hbox (badness 10000) in paragraph at lines 5797--5800 []\T1/ptm/m/n/10 A note on `\T1/fi4/m/n/10 file://\T1/ptm/m/n/10 ' URLs. The mo st gen-eral form (from RFC1738) is [92] [93] [94] Underfull \hbox (badness 2790) in paragraph at lines 6005--6012 []\T1/fi4/m/n/10 file \T1/ptm/m/n/10 can be used with \T1/fi4/m/n/10 descriptio n = "clipboard" \T1/ptm/m/n/10 in mode \T1/fi4/m/n/10 "r" \T1/ptm/m/n/10 only. This reads Underfull \hbox (badness 3471) in paragraph at lines 6005--6012 \T1/ptm/m/n/10 the X11 pri-mary se-lec-tion (see [][]$\T1/fi4/m/n/10 http : / / standards . freedesktop . org / clipboards-[]spec / [95] [96] Underfull \vbox (badness 10000) has occurred while \output is active [97] [98] [99] [100] [101] [102] [103] [104] [105] Underfull \hbox (badness 4595) in paragraph at lines 6719--6722 []\T1/ptm/m/n/10 logical, in-di-cat-ing if an `x[i]' equal to the low-est (or h igh-est, for [106] Underfull \hbox (badness 2351) in paragraph at lines 6769--6772 [][][]\T1/fi4/m/n/10 split[][][] \T1/ptm/m/n/10 for split-ting a vari-able ac-c ord-ing to a group fac-tor; [][]\T1/fi4/m/n/10 factor[][][]\T1/ptm/m/n/10 , [][ ]\T1/fi4/m/n/10 tabulate[][][]\T1/ptm/m/n/10 , [][]\T1/fi4/m/n/10 table[][][]\T 1/ptm/m/n/10 , [107] [108] [109] [110] Underfull \hbox (badness 10000) in paragraph at lines 7002--7013 []\T1/fi4/m/n/10 data.frame \T1/ptm/m/n/10 con-verts each of its ar-gu-ments to a data frame by call-ing [111] Underfull \hbox (badness 4479) in paragraph at lines 7073--7082 [][][]\T1/fi4/m/n/10 I[][][]\T1/ptm/m/n/10 , [][]\T1/fi4/m/n/10 plot.data.frame [][][]\T1/ptm/m/n/10 , [][]\T1/fi4/m/n/10 print.data.frame[][][]\T1/ptm/m/n/10 , [][]\T1/fi4/m/n/10 row.names[][][]\T1/ptm/m/n/10 , [][]\T1/fi4/m/n/10 names[] [][] \T1/ptm/m/n/10 (for the col-umn names), Underfull \hbox (badness 2469) in paragraph at lines 7073--7082 [][]\T1/fi4/m/n/10 [.data.frame[][][] \T1/ptm/m/n/10 for sub-set-ting meth-ods, [][]\T1/fi4/m/n/10 Math.data.frame[][][] \T1/ptm/m/n/10 etc, about \T1/ptm/m/i t/10 Group \T1/ptm/m/n/10 meth-ods for [112] [113] [114] [115] [116] [117] Underfull \hbox (badness 10000) in paragraph at lines 7482--7494 \T1/fi4/m/n/10 23:59:59", format = "%Y-%m-%d %H:%M:%S", tz = "UTC") \T1/ptm/m/n /10 may give \T1/fi4/m/n/10 NA\T1/ptm/m/n/10 , and hence Underfull \hbox (badness 6220) in paragraph at lines 7482--7494 \T1/fi4/m/n/10 as.POSIXct("1969-12-31 23:59:59", tz = "UTC") \T1/ptm/m/n/10 wi ll give \T1/fi4/m/n/10 "1969-12-31 23:59:00"\T1/ptm/m/n/10 . [118] [119] [120] [121] [122] [123] [124] [125] [126] [127] [128] [129] [130] [131] [132] [133] [134] Underfull \hbox (badness 1394) in paragraph at lines 8594--8599 []\T1/ptm/m/n/10 Subtraction of date-time ob-jects gives an ob-ject of this cla ss, by call-ing \T1/fi4/m/n/10 difftime \T1/ptm/m/n/10 with [135] [136] [137] [138] [139] [140] [141] Underfull \hbox (badness 10000) in paragraph at lines 9006--9010 [][][]$\T1/fi4/m/n/10 http : / / en . wikipedia . org / wiki / IEEE _ 754-[]198 5$[][]\T1/ptm/m/n/10 , [][]$\T1/fi4/m/n/10 http : / / en . wikipedia . org / wi ki / IEEE _ [142] [143] [144] [145] [146] [147] Underfull \hbox (badness 2150) in paragraph at lines 9389--9392 []\T1/ptm/m/n/10 logical in-di-cat-ing if du-pli-ca-tion should be con-sid-ered from the re-verse Underfull \hbox (badness 6396) in paragraph at lines 9402--9410 []\T1/ptm/m/n/10 For the de-fault meth-ods, and when-ever there are equiv-a-len t method def-i-ni-tions for [148] [149] [150] [151] [152] [153] [154] [155] [156] [157] [158] [159] [160] [161] [162] [163] Underfull \hbox (badness 4569) in paragraph at lines 10467--10471 []\T1/ptm/m/n/10 When eval-u-at-ing ex-pres-sions in a data frame that has been passed as an ar-gu-ment Underfull \hbox (badness 2401) in paragraph at lines 10467--10471 \T1/ptm/m/n/10 to a func-tion, the rel-e-vant en-clo-sure is of-ten the caller' s en-vi-ron-ment, i.e., one needs [164] [165] [166] [167] [168] [169] [170] [171] Underfull \hbox (badness 2698) in paragraph at lines 11007--11016 []\T1/ptm/m/n/10 Both \T1/fi4/m/n/10 $ \T1/ptm/m/n/10 and \T1/fi4/m/n/10 [[ \T1 /ptm/m/n/10 can be ap-plied to en-vi-ron-ments. Only char-ac-ter in-dices are a l-lowed Underfull \hbox (badness 4341) in paragraph at lines 11007--11016 \T1/ptm/m/n/10 and no par-tial match-ing is done. The se-man-tics of these op-e r-a-tions are those of [172] [173] [174] [175] [176] [177] [178] [179] [180] [181] [182] [183] [184] [185] Underfull \hbox (badness 2253) in paragraph at lines 11938--11940 []\T1/ptm/m/n/10 character vec-tors con-tain-ing file paths. Tilde-expansion is done: see [186] Underfull \hbox (badness 1565) in paragraph at lines 11999--12003 [][][]\T1/fi4/m/n/10 Sys.readlink[][][] \T1/ptm/m/n/10 to find out about sym-bo lic links, [][]\T1/fi4/m/n/10 files[][][]\T1/ptm/m/n/10 , [][]\T1/fi4/m/n/10 fi le.access[][][]\T1/ptm/m/n/10 , [][]\T1/fi4/m/n/10 list.files[][][]\T1/ptm/m/n/ 10 , and [187] Underfull \hbox (badness 10000) in paragraph at lines 12042--12044 []\T1/ptm/m/n/10 It can also be used for en-vi-ron-ment paths such as \T1/fi4/m /n/10 PATH \T1/ptm/m/n/10 and \T1/fi4/m/n/10 R_LIBS \T1/ptm/m/n/10 with [188] Underfull \hbox (badness 1292) in paragraph at lines 12105--12113 \T1/ptm/m/n/10 ing spe-cial pager names be-ing in-ter-cepted by lower-level cod e (such as \T1/fi4/m/n/10 "internal" \T1/ptm/m/n/10 and [189] Underfull \hbox (badness 1466) in paragraph at lines 12173--12176 []\T1/ptm/m/n/10 character vec-tors, con-tain-ing file names or paths. For \T1/ fi4/m/n/10 file.copy \T1/ptm/m/n/10 and [190] Underfull \hbox (badness 10000) in paragraph at lines 12272--12276 [][][]\T1/fi4/m/n/10 file.info[][][]\T1/ptm/m/n/10 , [][]\T1/fi4/m/n/10 file.ac cess[][][]\T1/ptm/m/n/10 , [][]\T1/fi4/m/n/10 file.path[][][]\T1/ptm/m/n/10 , [ ][]\T1/fi4/m/n/10 file.show[][][]\T1/ptm/m/n/10 , [][]\T1/fi4/m/n/10 list.files [][][]\T1/ptm/m/n/10 , [][]\T1/fi4/m/n/10 unlink[][][]\T1/ptm/m/n/10 , [][]\T1/ fi4/m/n/10 basename[][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 12283--12286 [][][]$\T1/fi4/m/n/10 http : / / en . wikipedia . org / wiki / Hard _ link$[][] \T1/ptm/m/n/10 and [][]$\T1/fi4/m/n/10 http : / / en . wikipedia . org / wiki / [191] [192] [193] [194] Underfull \hbox (badness 3108) in paragraph at lines 12500--12507 []\T1/ptm/m/n/10 Find the in-dices of \T1/fi4/m/n/10 x \T1/ptm/m/n/10 in \T1/fi 4/m/n/10 vec\T1/ptm/m/n/10 , where \T1/fi4/m/n/10 vec \T1/ptm/m/n/10 must be so rted (non-decreasingly); i.e., if Underfull \hbox (badness 3965) in paragraph at lines 12537--12541 []\T1/ptm/m/n/10 This is the same com-pu-ta-tion as for the em-pir-i-cal dis-tr i-bu-tion func-tion, and in-deed, [195] [196] [197] [198] [199] [200] [201] [202] [203] [204] [205] Underfull \hbox (badness 4429) in paragraph at lines 13229--13232 []\T1/ptm/m/n/10 an atomic nu-mer-i-cal or char-ac-ter ob-ject, pos-si-bly [][] \T1/fi4/m/n/10 complex[][][] \T1/ptm/m/n/10 only for [206] Underfull \hbox (badness 10000) in paragraph at lines 13315--13317 []\T1/ptm/m/n/10 If you set \T1/fi4/m/n/10 format \T1/ptm/m/n/10 it over-rides the set-ting of \T1/fi4/m/n/10 mode\T1/ptm/m/n/10 , so Underfull \hbox (badness 10000) in paragraph at lines 13321--13325 []\T1/fi4/m/n/10 formatC \T1/ptm/m/n/10 does not nec-es-sar-ily align the num-b ers on the dec-i-mal point, so [207] [208] [209] [210] [211] [212] [213] [214] [215] [216] [217] [218] [219] Underfull \hbox (badness 1092) in paragraph at lines 14074--14079 [][]\T1/fi4/m/n/10 library.dynam[][][]\T1/ptm/m/n/10 , or can be found af-ter t he DLL has been loaded us-ing [220] [221] [222] Underfull \hbox (badness 6741) in paragraph at lines 14320--14324 \T1/ptm/m/n/10 Additionally, the list will have an ad-di-tional class, be-ing \ T1/fi4/m/n/10 CRoutine\T1/ptm/m/n/10 , \T1/fi4/m/n/10 CallRoutine\T1/ptm/m/n/10 , [223] [224] [225] [226] [227] Underfull \hbox (badness 1867) in paragraph at lines 14627--14634 []\T1/ptm/m/n/10 character string con-tain-ing a [][]reg-u-lar ex-pres-sion[][] [] (or char-ac-ter string for [228] [229] [230] [231] Underfull \vbox (badness 10000) has occurred while \output is active [232] [233] Underfull \hbox (badness 3679) in paragraph at lines 14999--15001 []\T1/ptm/m/n/10 The TRE li-brary of Ville Lau-rikari ([][]$\T1/fi4/m/n/10 http : / / laurikari . net / tre/$[][]\T1/ptm/m/n/10 ) is used ex-cept for [234] [235] [236] [237] [238] [239] [240] Underfull \hbox (badness 1478) in paragraph at lines 15467--15470 []\T1/ptm/m/n/10 A char-ac-ter vec-tor, or an ob-ject to be con-verted to a cha r-ac-ter vec-tor [241] [242] [243] [244] [245] [246] [247] Overfull \hbox (17.37834pt too wide) in paragraph at lines 15902--15905 []\T1/ptm/m/n/10 Sometimes it is bet-ter to use a con-struc-tion such as \T1/fi 4/m/n/10 (tmp <- yes; tmp[!test] <- no[!test]; tmp)\T1/ptm/m/n/10 , [248] [249] [250] Underfull \hbox (badness 1442) in paragraph at lines 16138--16140 []\T1/ptm/m/n/10 the choice of de-fault graph-ics de-vice launched when needed and by [][]\T1/fi4/m/n/10 dev.new[][][]\T1/ptm/m/n/10 : see [251] Underfull \hbox (badness 2452) in paragraph at lines 16230--16246 [][][]\T1/fi4/m/n/10 as.character[][][]\T1/ptm/m/n/10 , [][]\T1/fi4/m/n/10 as.c omplex[][][]\T1/ptm/m/n/10 , [][]\T1/fi4/m/n/10 as.double[][][]\T1/ptm/m/n/10 , [][]\T1/fi4/m/n/10 as.integer[][][]\T1/ptm/m/n/10 , [][]\T1/fi4/m/n/10 as.logi cal[][][]\T1/ptm/m/n/10 , [][]\T1/fi4/m/n/10 as.raw[][][]\T1/ptm/m/n/10 , [][]\ T1/fi4/m/n/10 as.vector[][][]\T1/ptm/m/n/10 , [252] [253] [254] [255] [256] [257] [258] [259] [260] [261] [262] Underfull \hbox (badness 4739) in paragraph at lines 16873--16875 []\T1/ptm/m/n/10 numeric scalar >= 0. Smaller dif-fer-ences are not con-sid-ere d, see [263] [264] [265] [266] [267] [268] Underfull \hbox (badness 1642) in paragraph at lines 17254--17259 []\T1/fi4/m/n/10 sapply \T1/ptm/m/n/10 is a user-friendly ver-sion and wrap-per of \T1/fi4/m/n/10 lapply \T1/ptm/m/n/10 by de-fault re-turn-ing a vec-tor, [269] [270] [271] [272] [273] [274] [275] Underfull \hbox (badness 10000) in paragraph at lines 17728--17732 []\T1/ptm/m/n/10 By de-fault \T1/fi4/m/n/10 R_LIBS \T1/ptm/m/n/10 is un-set, an d \T1/fi4/m/n/10 R_LIBS_USER \T1/ptm/m/n/10 is set to di-rec-tory Underfull \hbox (badness 2460) in paragraph at lines 17728--17732 \T1/ptm/m/n/10 `\T1/fi4/m/n/10 R/\T1/ptm/m/sl/10 R.version$platform\T1/fi4/m/n/ 10 -library/\T1/ptm/m/sl/10 x.y\T1/ptm/m/n/10 ' of the home di-rec-tory (or `\T 1/fi4/m/n/10 Library/R/\T1/ptm/m/sl/10 x.y\T1/fi4/m/n/10 /library\T1/ptm/m/n/10 ' [276] [277] [278] Underfull \hbox (badness 1014) in paragraph at lines 17893--17898 []\T1/ptm/m/n/10 Normally \T1/fi4/m/n/10 library \T1/ptm/m/n/10 re-turns (in-vi s-i-bly) the list of at-tached pack-ages, but \T1/fi4/m/n/10 TRUE \T1/ptm/m/n/1 0 or \T1/fi4/m/n/10 FALSE \T1/ptm/m/n/10 if [279] [280] [281] [282] [283] [284] [285] [286] [287] [288] [289] Underfull \hbox (badness 1264) in paragraph at lines 18584--18589 []\T1/ptm/m/n/10 character string. The fol-low-ing cat-e-gories should al-ways be sup-ported: [290] [291] [292] [293] [294] [295] Underfull \hbox (badness 4954) in paragraph at lines 18996--19002 []\T1/fi4/m/n/10 as.logical \T1/ptm/m/n/10 at-tempts to co-erce its ar-gu-ment to be of log-i-cal type. For [][]\T1/fi4/m/n/10 factor[][][]\T1/ptm/m/n/10 s, Underfull \hbox (badness 10000) in paragraph at lines 18996--19002 \T1/ptm/m/n/10 this uses the [][]\T1/fi4/m/n/10 levels[][][] \T1/ptm/m/n/10 (la -bels). Like [][]\T1/fi4/m/n/10 as.vector[][][] \T1/ptm/m/n/10 it strips at-tri butes in-clud-ing Underfull \hbox (badness 10000) in paragraph at lines 18996--19002 \T1/ptm/m/n/10 names. Char-ac-ter strings \T1/fi4/m/n/10 c("T", "TRUE", "True", "true") \T1/ptm/m/n/10 are re-garded as true, [296] [297] [298] [299] Underfull \hbox (badness 10000) in paragraph at lines 19241--19243 []\T1/ptm/m/n/10 The al-go-rithm used by \T1/fi4/m/n/10 make.unique \T1/ptm/m/n /10 has the prop-erty that [300] [301] [302] [303] [304] [305] [306] [307] [308] [309] [310] [311] [312] [313] [314] [315] Underfull \hbox (badness 1655) in paragraph at lines 20219--20225 [][][]$\T1/fi4/m/n/10 http : / / en . wikipedia . org / wiki / Data _ compressi on$[][] \T1/ptm/m/n/10 for back-ground on data com-pres-sion, [316] [317] Underfull \hbox (badness 1484) in paragraph at lines 20368--20376 []\T1/ptm/m/n/10 The address-space limit is 2Gb un-der 32-bit Win-dows un-less the OS's de-fault has been [318] [319] [320] [321] Underfull \hbox (badness 2790) in paragraph at lines 20622--20625 []\T1/fi4/m/n/10 packageStartupMessage \T1/ptm/m/n/10 is a vari-ant whose mes-s ages can be sup-pressed sep-a-rately by Underfull \hbox (badness 1571) in paragraph at lines 20622--20625 \T1/fi4/m/n/10 suppressPackageStartupMessages\T1/ptm/m/n/10 . (They are still m es-sages, so can be sup-pressed by [322] [323] [324] [325] [326] [327] [328] Underfull \hbox (badness 10000) in paragraph at lines 21059--21062 []\T1/ptm/m/n/10 It is pos-si-ble to up-date just part of the names at-tribute via the gen-eral rules: Underfull \hbox (badness 10000) in paragraph at lines 21059--21062 \T1/ptm/m/n/10 see the ex-am-ples. This works be-cause the ex-pres-sion there i s eval-u-ated as [329] [330] [331] [332] [333] [334] [335] [336] [337] [338] [339] [340] [341] [342] [343] [344] Underfull \hbox (badness 1199) in paragraph at lines 22082--22088 []\T1/ptm/m/n/10 The de-fault method for \T1/fi4/m/n/10 is.numeric \T1/ptm/m/n/ 10 re-turns \T1/fi4/m/n/10 TRUE \T1/ptm/m/n/10 if its ar-gu-ment is of [][]mode [][][] \T1/fi4/m/n/10 "numeric" Underfull \hbox (badness 2027) in paragraph at lines 22082--22088 \T1/ptm/m/n/10 ([][]type[][][] \T1/fi4/m/n/10 "double" \T1/ptm/m/n/10 or type \ T1/fi4/m/n/10 "integer"\T1/ptm/m/n/10 ) and not a fac-tor, and \T1/fi4/m/n/10 F ALSE \T1/ptm/m/n/10 oth-er-wise. That is, [345] [346] [347] [348] [349] [350] [351] Underfull \hbox (badness 1038) in paragraph at lines 22610--22619 []\T1/ptm/m/n/10 the pack-ages that are at-tached by de-fault when \T1/phv/m/n/ 10 R \T1/ptm/m/n/10 starts up. Ini-tially Underfull \hbox (badness 10000) in paragraph at lines 22610--22619 \T1/fi4/m/n/10 c("datasets", "utils", "grDevices", "graphics", "stats", "methods")\T1/ptm/m/n/10 . [352] Underfull \hbox (badness 6220) in paragraph at lines 22634--22636 []\T1/ptm/m/n/10 Extra command-line ar-gu-ment(s) for non-default meth-ods: see Underfull \hbox (badness 10000) in paragraph at lines 22696--22705 []\T1/ptm/m/n/10 the com-mand used for dis-play-ing text files by [][]\T1/fi4/m /n/10 file.show[][][]\T1/ptm/m/n/10 . De-faults to Underfull \hbox (badness 2600) in paragraph at lines 22696--22705 \T1/ptm/m/n/10 `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/fi4/m/n/10 /bin/pager\T1/pt m/m/n/10 ', which se-lects a pager via the \T1/fi4/m/n/10 PAGER \T1/ptm/m/n/10 en-vi-ron-ment vari-able Underfull \hbox (badness 2142) in paragraph at lines 22706--22712 []\T1/ptm/m/n/10 the de-fault pa-per for-mat used by [][]\T1/fi4/m/n/10 postscr ipt[][][]\T1/ptm/m/n/10 ; set by en-vi-ron-ment vari-able [353] Underfull \hbox (badness 1968) in paragraph at lines 22719--22724 []\T1/ptm/m/n/10 the com-mand used by [][]\T1/fi4/m/n/10 postscript[][][] \T1/p tm/m/n/10 for print-ing; set by en-vi-ron-ment vari-able Underfull \hbox (badness 10000) in paragraph at lines 22729--22738 []\T1/ptm/m/n/10 Used for the readline-based ter-mi-nal in-ter-face. De-fault v alue [354] [355] [356] Underfull \hbox (badness 10000) in paragraph at lines 22970--22976 []\T1/ptm/m/n/10 The URL of a Bio-con-duc-tor mir-ror for use by [][]\T1/fi4/m/ n/10 setRepositories[][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 22970--22976 \T1/ptm/m/n/10 e.g. the de-fault `\T1/fi4/m/n/10 "http://www.bioconductor.org"\ T1/ptm/m/n/10 ' or the Eu-ro-pean mir- Underfull \hbox (badness 10000) in paragraph at lines 22970--22976 \T1/ptm/m/n/10 ror `\T1/fi4/m/n/10 "http://bioconductor.statistik.tu-dortmund.d e"\T1/ptm/m/n/10 '. Can be set by Underfull \hbox (badness 10000) in paragraph at lines 22982--22985 []\T1/ptm/m/n/10 default Cc: ad-dress used by [][]\T1/fi4/m/n/10 create.post[][ ][] \T1/ptm/m/n/10 (and hence[][]\T1/fi4/m/n/10 bug.report[][][] \T1/ptm/m/n/10 and Underfull \hbox (badness 2689) in paragraph at lines 23003--23005 []\T1/ptm/m/n/10 optional in-te-ger vec-tor for set-ting ports of the in-ter-na l HTTP server, see Underfull \hbox (badness 7203) in paragraph at lines 23031--23034 []\T1/ptm/m/n/10 default email-ing method used by [][]\T1/fi4/m/n/10 create.pos t[][][] \T1/ptm/m/n/10 and hence [][]\T1/fi4/m/n/10 bug.report[][][] \T1/ptm/m/ n/10 and Underfull \hbox (badness 2680) in paragraph at lines 23041--23047 \T1/ptm/m/n/10 and \T1/fi4/m/n/10 "mac.binary.leopard"\T1/ptm/m/n/10 . Win-dows uses \T1/fi4/m/n/10 "win.binary"\T1/ptm/m/n/10 . (\T1/fi4/m/n/10 "mac.binary" \T1/ptm/m/n/10 and Underfull \hbox (badness 10000) in paragraph at lines 23049--23056 []\T1/ptm/m/n/10 URLs of the repos-i-to-ries for use by [][]\T1/fi4/m/n/10 upda te.packages[][][]\T1/ptm/m/n/10 . De-faults to Underfull \hbox (badness 10000) in paragraph at lines 23049--23056 \T1/fi4/m/n/10 c(CRAN="@CRAN@")\T1/ptm/m/n/10 , a value that causes some util-i -ties to prompt for a Underfull \hbox (badness 6380) in paragraph at lines 23049--23056 \T1/ptm/m/n/10 CRAN mir-ror. To avoid this do set the CRAN mir-ror, by some-thi ng like Underfull \hbox (badness 10000) in paragraph at lines 23049--23056 \T1/fi4/m/n/10 local({r <- getOption("repos"); r["CRAN"] <- "http://my.local.cr an"; [357] [358] [359] [360] [361] Underfull \hbox (badness 10000) in paragraph at lines 23331--23335 []\T1/ptm/m/n/10 The outer prod-uct of the ar-rays \T1/fi4/m/n/10 X \T1/ptm/m/n /10 and \T1/fi4/m/n/10 Y \T1/ptm/m/n/10 is the ar-ray \T1/fi4/m/n/10 A \T1/ptm/ m/n/10 with di-men- Underfull \hbox (badness 10000) in paragraph at lines 23331--23335 \T1/ptm/m/n/10 sion \T1/fi4/m/n/10 c(dim(X), dim(Y)) \T1/ptm/m/n/10 where el-e- ment \T1/fi4/m/n/10 A[c(arrayindex.x, arrayindex.y)] [362] [363] [364] [365] Underfull \hbox (badness 1748) in paragraph at lines 23608--23612 \T1/ptm/m/n/10 seem un-de-sir-able, e.g., when past-ing two char-ac-ter vec-tor s, or very de-sir-able, e.g. in [366] [367] [368] [369] [370] [371] [372] [373] Underfull \hbox (badness 2726) in paragraph at lines 24096--24099 []\T1/ptm/m/n/10 character string (or \T1/fi4/m/n/10 NULL\T1/ptm/m/n/10 ) in-di -cat-ing [][]\T1/fi4/m/n/10 NA[][][] \T1/ptm/m/n/10 val-ues in printed out-put, see [374] [375] [376] [377] [378] [379] [380] [381] [382] [383] [384] [385] [386] Underfull \hbox (badness 1052) in paragraph at lines 24872--24877 []\T1/fi4/m/n/10 qr.X \T1/ptm/m/n/10 re-turns $\OML/cmm/b/it/10 X$\T1/ptm/m/n/1 0 , the orig-i-nal ma-trix from which the qr ob-ject was con-structed, pro-vide d [387] [388] [389] [390] [391] [392] Underfull \hbox (badness 1097) in paragraph at lines 25248--25256 []\T1/ptm/m/n/10 The seed, \T1/fi4/m/n/10 .Random.seed[-1] == r[1:3] \T1/ptm/m/ n/10 is an in-te-ger vec-tor of length [393] [394] [395] [396] Underfull \hbox (badness 1533) in paragraph at lines 25562--25565 []\T1/ptm/m/n/10 As with all com-piled code, mis-specifying these func-tions ca n crash \T1/phv/m/n/10 R\T1/ptm/m/n/10 . Do in-clude the [397] [398] [399] [400] [401] [402] [403] [404] [405] [406] [407] [408] [409] [410] [411] [412] [413] [414] [415] [416] [417] [418] [419] [420] [421] [422] [423] Underfull \hbox (badness 6188) in paragraph at lines 27239--27241 []\T1/ptm/m/n/10 The POSIX 1003.2 stan-dard at [][]$\T1/fi4/m/n/10 http : / / p ubs . opengroup . org / onlinepubs / 9699919799 / [424] [425] [426] [427] [428] [429] [430] [431] [432] [433] [434] [435] [436] [437] [438] [439] [440] [441] Underfull \hbox (badness 10000) in paragraph at lines 28396--28400 []\T1/fi4/m/n/10 save.image() \T1/ptm/m/n/10 is just a short-cut for `save my c ur-rent workspace', i.e., [442] [443] [444] Underfull \hbox (badness 2302) in paragraph at lines 28602--28609 []\T1/ptm/m/n/10 The root-mean-square for a (pos-si-bly cen-tered) col-umn is d e-fined as $[]$, Underfull \hbox (badness 2837) in paragraph at lines 28602--28609 \T1/ptm/m/n/10 where $\OML/cmm/m/it/10 x$ \T1/ptm/m/n/10 is a vec-tor of the no n-missing val-ues and $\OML/cmm/m/it/10 n$ \T1/ptm/m/n/10 is the num-ber of non -missing Underfull \hbox (badness 4060) in paragraph at lines 28602--28609 \T1/ptm/m/n/10 val-ues. In the case \T1/fi4/m/n/10 center=TRUE\T1/ptm/m/n/10 , this is the same as the stan-dard de-vi-a-tion, but Underfull \hbox (badness 4805) in paragraph at lines 28602--28609 \T1/ptm/m/n/10 in gen-eral it is not. (To scale by the stan-dard de-vi-a-tions with-out cen-ter-ing, use [445] [446] Underfull \hbox (badness 2261) in paragraph at lines 28755--28760 []\T1/ptm/m/n/10 If \T1/fi4/m/n/10 strip.white \T1/ptm/m/n/10 is of length 1, i t ap-plies to all fields; oth-er-wise, if [447] Underfull \hbox (badness 10000) in paragraph at lines 28782--28788 []\T1/ptm/m/n/10 The es-capes which are in-ter-preted are the con-trol char-ac- ters Underfull \hbox (badness 4001) in paragraph at lines 28782--28788 \T1/ptm/m/n/10 `\T1/fi4/m/n/10 \a, \b, \f, \n, \r, \t, \v\T1/ptm/m/n/10 ' and o c-tal and hex-adec-i-mal rep-re-sen-ta- [448] Underfull \hbox (badness 10000) in paragraph at lines 28855--28860 []\T1/ptm/m/n/10 Note that since \T1/fi4/m/n/10 sep \T1/ptm/m/n/10 is a sep-a-r a-tor and not a ter-mi-na-tor, read-ing a file by Underfull \hbox (badness 1946) in paragraph at lines 28855--28860 \T1/fi4/m/n/10 scan("foo", sep="\n", blank.lines.skip=FALSE) \T1/ptm/m/n/10 wil l give an empty fi-nal line if the [449] [450] [451] [452] [453] Underfull \hbox (badness 6188) in paragraph at lines 29189--29192 []\T1/ptm/m/n/10 The fourth form gen-er-ates the in-te-ger se-quence \T1/fi4/m/ n/10 1, 2, ..., length(along.with)\T1/ptm/m/n/10 . [454] [455] [456] [457] [458] [459] [460] [461] [462] [463] [464] [465] [466] [467] [468] [469] [470] [471] [472] [473] [474] [475] [476] [477] [478] Underfull \vbox (badness 3803) has occurred while \output is active [479] [480] [481] [482] [483] [484] Underfull \vbox (badness 3803) has occurred while \output is active [485] [486] [487] [488] Underfull \hbox (badness 5008) in paragraph at lines 31395--31407 []\T1/ptm/m/n/10 The \T1/fi4/m/n/10 srcref \T1/ptm/m/n/10 func-tion pro-duces a n ob-ject of class \T1/fi4/m/n/10 srcref\T1/ptm/m/n/10 , which de-scribes a ran ge Underfull \hbox (badness 6141) in paragraph at lines 31395--31407 \T1/ptm/m/n/10 of char-ac-ters in a \T1/fi4/m/n/10 srcfile\T1/ptm/m/n/10 . T he \T1/fi4/m/n/10 lloc \T1/ptm/m/n/10 value gives the fol-low-ing val-ues: \T1/ fi4/m/n/10 c Overfull \hbox (112.28088pt too wide) in paragraph at lines 31395--31407 \T1/fi4/m/n/10 (first_line, first_byte, last_line, last_byte, first_column, la st_column, first_parsed, last_parsed)\T1/ptm/m/n/10 . [489] [490] Underfull \hbox (badness 1072) in paragraph at lines 31552--31556 []\T1/ptm/m/n/10 On front-ends which sup-port it, the com-mands his-tory is rea d from the file spec-i-fied by Underfull \hbox (badness 10000) in paragraph at lines 31557--31561 []\T1/ptm/m/n/10 The command-line op-tion `\T1/fi4/m/n/10 --vanilla\T1/ptm/m/n/ 10 ' im-plies `\T1/fi4/m/n/10 --no-site-file\T1/ptm/m/n/10 ', `\T1/fi4/m/n/10 - -no-init-file\T1/ptm/m/n/10 ', Underfull \hbox (badness 10000) in paragraph at lines 31585--31591 \T1/ptm/m/n/10 and `\T1/fi4/m/n/10 Rprofile.site\T1/ptm/m/n/10 ' are looked for first in architecture-specific di-rec-to-ries, e.g. Underfull \hbox (badness 3343) in paragraph at lines 31594--31601 \T1/ptm/m/n/10 early in the start-up pro-cess-ing. It con-tains en-vi-ron-ment vari-ables set by \T1/phv/m/n/10 R \T1/ptm/m/n/10 in the Underfull \hbox (badness 2573) in paragraph at lines 31594--31601 \T1/ptm/m/n/10 con-fig-ure pro-cess. Val-ues in that file can be over-rid-den i n site or user en-vi-ron-ment Underfull \hbox (badness 1917) in paragraph at lines 31594--31601 \T1/ptm/m/n/10 files: do not change `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/fi4/m/ n/10 /etc/Renviron\T1/ptm/m/n/10 ' it-self. Note that this is dis-tinct from [491] [492] [493] [494] Overfull \hbox (5.98903pt too wide) in paragraph at lines 31806--31809 []\T1/fi4/m/n/10 stopifnot(A, B) \T1/ptm/m/n/10 is con-cep-tu-ally equiv-a-lent to \T1/fi4/m/n/10 { if(any(is.na(A)) || !all(A)) stop(...) ; [495] Underfull \hbox (badness 10000) in paragraph at lines 31870--31876 []\T1/ptm/m/n/10 A char-ac-ter string. The de-fault for the \T1/fi4/m/n/10 form at \T1/ptm/m/n/10 meth-ods is [496] [497] [498] [499] [500] [501] [502] [503] [504] [505] [506] [507] [508] [509] [510] [511] [512] [513] [514] [515] [516] [517] [518] [519] Underfull \hbox (badness 4416) in paragraph at lines 33414--33416 []\T1/ptm/m/n/10 Argument \T1/fi4/m/n/10 names \T1/ptm/m/n/10 was in-tro-duced in \T1/phv/m/n/10 R \T1/ptm/m/n/10 2.13.0 to avoid need-ing the com-mon use of [520] [521] [522] [523] [524] [525] [526] [527] [528] [529] [530] [531] Underfull \hbox (badness 1472) in paragraph at lines 34102--34105 []\T1/ptm/m/n/10 logical. If \T1/fi4/m/n/10 TRUE\T1/ptm/m/n/10 , func-tions kee p their source in-clud-ing com-ments, see [532] [533] [534] [535] [536] [537] [538] [539] Underfull \hbox (badness 4217) in paragraph at lines 34611--34614 []\T1/ptm/m/n/10 Because of the way it is im-ple-mented, on a Unix-alike \T1/fi 4/m/n/10 stderr = TRUE \T1/ptm/m/n/10 im-plies [540] [541] Underfull \hbox (badness 2671) in paragraph at lines 34746--34749 []\T1/ptm/m/n/10 levels to re-move for all fac-tors in \T1/fi4/m/n/10 ...\T1/pt m/m/n/10 . If set to \T1/fi4/m/n/10 NULL\T1/ptm/m/n/10 , it im-plies [542] [543] [544] [545] [546] [547] Underfull \hbox (badness 10000) in paragraph at lines 35139--35142 [][][]\T1/fi4/m/n/10 getTaskCallbackNames[][][] [][]taskCallbackManager[][][] [ ][]$http : / / developer . r-[]project . org / [548] [549] Underfull \hbox (badness 10000) in paragraph at lines 35260--35264 [][][]\T1/fi4/m/n/10 addTaskCallback[][][]\T1/ptm/m/n/10 , [][]\T1/fi4/m/n/10 r emoveTaskCallback[][][]\T1/ptm/m/n/10 , [][]\T1/fi4/m/n/10 getTaskCallbackNames [][][]\T1/ptm/m/n/10 \ [][]$\T1/fi4/m/n/10 http : / / developer . [550] Underfull \hbox (badness 10000) in paragraph at lines 35322--35326 [][][]\T1/fi4/m/n/10 addTaskCallback[][][]\T1/ptm/m/n/10 , [][]\T1/fi4/m/n/10 r emoveTaskCallback[][][]\T1/ptm/m/n/10 , [][]\T1/fi4/m/n/10 taskCallbackManager[ ][][]\T1/ptm/m/n/10 \ [][]$\T1/fi4/m/n/10 http : / / developer . [551] [552] [553] [554] [555] [556] [557] [558] [559] [560] Underfull \hbox (badness 10000) in paragraph at lines 35939--35941 []\T1/ptm/m/n/10 Using [][]\T1/fi4/m/n/10 setBreakpoint[][][] \T1/ptm/m/n/10 (f rom pack-age \T1/ptm/b/n/10 utils\T1/ptm/m/n/10 ) may be an al-ter-na-tive, cal l-ing [561] [562] [563] [564] [565] [566] [567] Underfull \hbox (badness 1990) in paragraph at lines 36440--36448 []\T1/fi4/m/n/10 try \T1/ptm/m/n/10 eval-u-ates an ex-pres-sion and traps any e r-rors that oc-cur dur-ing the eval-u-a-tion. If Underfull \hbox (badness 4846) in paragraph at lines 36440--36448 \T1/ptm/m/n/10 an er-ror oc-curs then the er-ror mes-sage is printed to the [][ ]\T1/fi4/m/n/10 stderr[][][] \T1/ptm/m/n/10 con-nec-tion un-less [568] [569] [570] [571] [572] Underfull \hbox (badness 1515) in paragraph at lines 36706--36711 []\T1/ptm/m/n/10 On most plat-forms `file' in-cludes sym-bolic links, fi-fos an d sock-ets. Prior to \T1/phv/m/n/10 R \T1/ptm/m/n/10 2.15.0 [573] [574] [575] Underfull \hbox (badness 1917) in paragraph at lines 36929--36936 []\T1/ptm/m/n/10 When a func-tion call-ing \T1/fi4/m/n/10 UseMethod("fun") \T1/ ptm/m/n/10 is ap-plied to an ob-ject with class at-tribute [576] [577] [578] [579] [580] [581] [582] [583] [584] Underfull \hbox (badness 3668) in paragraph at lines 37494--37496 []\T1/ptm/m/n/10 logical, in-di-cat-ing if the call should be out-put im-me-di- ately, even if [585] Underfull \hbox (badness 2401) in paragraph at lines 37594--37598 []\T1/ptm/m/n/10 See the de-scrip-tion of [][]\T1/fi4/m/n/10 options[][][]("war n") \T1/ptm/m/n/10 for the cir-cum-stances un-der which there is a [586] [587] [588] Underfull \hbox (badness 10000) in paragraph at lines 37770--37775 []\T1/ptm/m/n/10 If \T1/fi4/m/n/10 arr.ind == TRUE \T1/ptm/m/n/10 and \T1/fi4/m /n/10 x \T1/ptm/m/n/10 is an [][]\T1/fi4/m/n/10 array[][][] \T1/ptm/m/n/10 (has a [][]\T1/fi4/m/n/10 dim[][][] \T1/ptm/m/n/10 at-tribute), the re-sult is Underfull \hbox (badness 1454) in paragraph at lines 37770--37775 \T1/fi4/m/n/10 arrayInd(which(x), dim(x), dimnames(x))\T1/ptm/m/n/10 , namely a ma-trix whose rows each are the [589] [590] [591] [592] [593] [594] [595] [596] [597] Underfull \hbox (badness 5417) in paragraph at lines 38279--38283 []\T1/fi4/m/n/10 .packages() \T1/ptm/m/n/10 re-turns the names of the cur-rentl y at-tached pack-ages \T1/ptm/m/it/10 in-vis-i-bly \T1/ptm/m/n/10 whereas [598] Underfull \hbox (badness 10000) in paragraph at lines 38332--38336 []\T1/fi4/m/n/10 .standard_regexps \T1/ptm/m/n/10 re-turns a list of `stan-dard ' reg-exps, in-clud-ing el-e-ments named [599]) (./datasets-pkg.tex [600] Chapter 2. [601] [602] [603] [604] [605] [606] [607] [608] [609] [610] [611] [612] Overfull \hbox (22.36993pt too wide) in paragraph at lines 691--693 []\T1/ptm/m/n/10 This ob-ject of class \T1/fi4/m/n/10 c("nfnGroupedData", "nfGr oupedData", "groupedData", "data.frame") [613] [614] Overfull \hbox (22.36993pt too wide) in paragraph at lines 823--825 []\T1/ptm/m/n/10 This ob-ject of class \T1/fi4/m/n/10 c("nfnGroupedData", "nfGr oupedData", "groupedData", "data.frame") [615] [616] [617] [618] [619] Overfull \hbox (22.36993pt too wide) in paragraph at lines 1128--1130 []\T1/ptm/m/n/10 This ob-ject of class \T1/fi4/m/n/10 c("nfnGroupedData", "nfGr oupedData", "groupedData", "data.frame") [620] [621] [622] [623] [624] [625] [626] [627] [628] Overfull \hbox (22.36993pt too wide) in paragraph at lines 1699--1701 []\T1/ptm/m/n/10 This ob-ject of class \T1/fi4/m/n/10 c("nfnGroupedData", "nfGr oupedData", "groupedData", "data.frame") [629] [630] [631] [632] [633] [634] [635] [636] Overfull \hbox (22.36993pt too wide) in paragraph at lines 2120--2122 []\T1/ptm/m/n/10 This ob-ject of class \T1/fi4/m/n/10 c("nfnGroupedData", "nfGr oupedData", "groupedData", "data.frame") [637] [638] [639] [640] [641] [642] [643] [644] Overfull \hbox (22.36993pt too wide) in paragraph at lines 2597--2599 []\T1/ptm/m/n/10 This ob-ject of class \T1/fi4/m/n/10 c("nfnGroupedData", "nfGr oupedData", "groupedData", "data.frame") [645] Underfull \vbox (badness 10000) has occurred while \output is active [646] Underfull \vbox (badness 10000) has occurred while \output is active [647] [648] [649] [650] [651] [652] [653] [654] [655] Overfull \vbox (20.49605pt too high) has occurred while \output is active [656] [657] [658] [659] [660] [661] Overfull \hbox (22.36993pt too wide) in paragraph at lines 3561--3563 []\T1/ptm/m/n/10 This ob-ject of class \T1/fi4/m/n/10 c("nfnGroupedData", "nfGr oupedData", "groupedData", "data.frame") [662] [663] [664] [665] Underfull \hbox (badness 1325) in paragraph at lines 3796--3799 []\T1/ptm/m/n/10 For back-ground on Bristle-cone pines and Methuse-lah Walk, se e [][]$\T1/fi4/m/n/10 http : / / www . sonic . net / [666] Underfull \vbox (badness 10000) has occurred while \output is active [667] [668] [669] [670] Underfull \vbox (badness 10000) has occurred while \output is active [671] Underfull \vbox (badness 10000) has occurred while \output is active [672] [673] [674] [675] [676] [677] [678] [679]) (./grDevices-pkg.tex [680] Chapter 3. [681] [682] [683] [684] Underfull \hbox (badness 1484) in paragraph at lines 274--278 []\T1/ptm/m/n/10 numeric vec-tor of length 3, \T1/fi4/m/n/10 c(mi, ma, n.)\T1/p tm/m/n/10 , with iden-ti-cal mean-ing to [685] [686] [687] [688] [689] [690] [691] [692] [693] [694] [695] [696] [697] Underfull \hbox (badness 5175) in paragraph at lines 1047--1049 []\T1/ptm/m/n/10 There is cur-rently no doc-u-men-ta-tion about the al-go-rithm . The source code is in [698] [699] [700] Underfull \hbox (badness 1852) in paragraph at lines 1237--1240 []\T1/fi4/m/n/10 densCols \T1/ptm/m/n/10 com-putes and re-turns the set of col- ors that will be used in plot-ting, call-ing [701] [702] [703] Underfull \hbox (badness 1490) in paragraph at lines 1439--1444 \T1/ptm/m/n/10 by [][]\T1/fi4/m/n/10 rasterImage[][][] \T1/ptm/m/n/10 and [][]\ T1/fi4/m/n/10 grid.raster[][][]\T1/ptm/m/n/10 ? Pos-si-ble val-ues \T1/fi4/m/n/ 10 "no"\T1/ptm/m/n/10 , \T1/fi4/m/n/10 "yes" \T1/ptm/m/n/10 and [704] Underfull \hbox (badness 2698) in paragraph at lines 1493--1496 []\T1/fi4/m/n/10 NULL \T1/ptm/m/n/10 if the de-vice does not sup-port cap-ture, oth-er-wise a ma-trix of color names (for [705] Underfull \hbox (badness 10000) in paragraph at lines 1562--1566 []\T1/ptm/m/n/10 logical; if \T1/fi4/m/n/10 TRUE\T1/ptm/m/n/10 , the func-tion also re-turns \T1/fi4/m/n/10 TRUE \T1/ptm/m/n/10 when Underfull \hbox (badness 6332) in paragraph at lines 1562--1566 [][]\T1/fi4/m/n/10 .Device[][][] == "null device" \T1/ptm/m/n/10 and [][]\T1/fi 4/m/n/10 getOption[][][]("device") \T1/ptm/m/n/10 is among the [706] [707] [708] [709] Underfull \hbox (badness 1033) in paragraph at lines 1845--1858 \T1/fi4/m/n/10 "pgnm"\T1/ptm/m/n/10 , \T1/fi4/m/n/10 "pgnmraw"\T1/ptm/m/n/10 , \T1/fi4/m/n/10 "pnm"\T1/ptm/m/n/10 , \T1/fi4/m/n/10 "pnmraw"\T1/ptm/m/n/10 , \T 1/fi4/m/n/10 "ppm"\T1/ptm/m/n/10 , \T1/fi4/m/n/10 "ppmraw"\T1/ptm/m/n/10 , \T1/ fi4/m/n/10 "pkm"\T1/ptm/m/n/10 , \T1/fi4/m/n/10 "pkmraw"\T1/ptm/m/n/10 , \T1/fi 4/m/n/10 "tiffcrle"\T1/ptm/m/n/10 , Underfull \hbox (badness 3758) in paragraph at lines 1845--1858 \T1/fi4/m/n/10 "tiffg3"\T1/ptm/m/n/10 , \T1/fi4/m/n/10 "tiffg32d"\T1/ptm/m/n/10 , \T1/fi4/m/n/10 "tiffg4"\T1/ptm/m/n/10 , \T1/fi4/m/n/10 "tifflzw"\T1/ptm/m/n/ 10 , \T1/fi4/m/n/10 "tiffpack"\T1/ptm/m/n/10 , \T1/fi4/m/n/10 "tiff12nc"\T1/ptm /m/n/10 , \T1/fi4/m/n/10 "tiff24nc"\T1/ptm/m/n/10 , Underfull \hbox (badness 3128) in paragraph at lines 1845--1858 \T1/fi4/m/n/10 "tiff32nc" "psmono"\T1/ptm/m/n/10 , \T1/fi4/m/n/10 "psgray"\T1/p tm/m/n/10 , \T1/fi4/m/n/10 "psrgb"\T1/ptm/m/n/10 , \T1/fi4/m/n/10 "bit"\T1/ptm/ m/n/10 , \T1/fi4/m/n/10 "bitrgb"\T1/ptm/m/n/10 , \T1/fi4/m/n/10 "bitcmyk"\T1/pt m/m/n/10 , \T1/fi4/m/n/10 "pngmono"\T1/ptm/m/n/10 , Underfull \hbox (badness 1546) in paragraph at lines 1845--1858 \T1/fi4/m/n/10 "pnggray"\T1/ptm/m/n/10 , \T1/fi4/m/n/10 "pngalpha"\T1/ptm/m/n/1 0 , \T1/fi4/m/n/10 "png16"\T1/ptm/m/n/10 , \T1/fi4/m/n/10 "png256"\T1/ptm/m/n/1 0 , \T1/fi4/m/n/10 "png16m"\T1/ptm/m/n/10 , \T1/fi4/m/n/10 "png48"\T1/ptm/m/n/1 0 , \T1/fi4/m/n/10 "jpeg"\T1/ptm/m/n/10 , \T1/fi4/m/n/10 "jpeggray"\T1/ptm/m/n/ 10 , [710] [711] Underfull \hbox (badness 10000) in paragraph at lines 1954--1956 []\T1/ptm/m/n/10 The de-fault value when a de-vice is opened is taken from the set-ting of [712] [713] Underfull \hbox (badness 6758) in paragraph at lines 2105--2108 []\T1/ptm/m/n/10 Some other op-tions which can be use-ful (see your Ghostscript doc-u-men-ta-tion) are [714] [715] [716] Overfull \hbox (80.83pt too wide) in paragraph at lines 2249--2251 []\T1/ptm/m/n/10 Navigation keys, passed as one of \T1/fi4/m/n/10 "Left", "Up", "Right", "Down", "PgUp", "PgDn", "End", "Home" [717] [718] [719] [720] [721] Underfull \hbox (badness 10000) in paragraph at lines 2602--2603 [722] [723] [724] [725] [726] [727] [728] Underfull \hbox (badness 1755) in paragraph at lines 3040--3042 []\T1/ptm/m/n/10 A length two in-te-ger vec-tor \T1/fi4/m/n/10 nr, nc \T1/ptm/m /n/10 giv-ing the num-ber of rows and columns, ful-fill-ing [729] [730] [731] [732] [733] Underfull \hbox (badness 7851) in paragraph at lines 3349--3352 []\T1/ptm/m/n/10 For use with \T1/fi4/m/n/10 onefile = FALSE \T1/ptm/m/n/10 giv e a C in-te-ger for-mat such as Underfull \hbox (badness 2662) in paragraph at lines 3363--3365 []\T1/ptm/m/n/10 title string to em-bed as the `\T1/fi4/m/n/10 /Title\T1/ptm/m/ n/10 ' field in the file. De-faults to [734] [735] [736] [737] [738] [739] [740] [741] [742] [743] [744] [745] [746] [747] [748] [749] [750] Underfull \hbox (badness 1789) in paragraph at lines 4400--4402 []\T1/ptm/m/n/10 title string to em-bed as the \T1/fi4/m/n/10 Title \T1/ptm/m/n /10 com-ment in the file. De-faults to Underfull \hbox (badness 1377) in paragraph at lines 4450--4455 []\T1/ptm/m/n/10 a char-ac-ter string de-scrib-ing the color model: cur-rently al-lowed val-ues [751] Underfull \hbox (badness 2671) in paragraph at lines 4477--4485 \T1/ptm/m/n/10 For use in this way you will prob-a-bly want to use [][]\T1/fi4/ m/n/10 setEPS[][][]() \T1/ptm/m/n/10 to set the de-faults as Underfull \hbox (badness 1418) in paragraph at lines 4526--4533 \T1/ptm/m/n/10 it is one of \T1/fi4/m/n/10 "AvantGarde"\T1/ptm/m/n/10 , \T1/fi4 /m/n/10 "Bookman"\T1/ptm/m/n/10 , \T1/fi4/m/n/10 "Courier"\T1/ptm/m/n/10 , \T1/ fi4/m/n/10 "Helvetica"\T1/ptm/m/n/10 , \T1/fi4/m/n/10 "Helvetica-Narrow"\T1/ptm /m/n/10 , Underfull \hbox (badness 2443) in paragraph at lines 4534--4543 \T1/ptm/m/n/10 PostScript de-vice is us-ing URW fonts, you will ob-tain ac-cess to more char-ac-ters and Underfull \hbox (badness 2653) in paragraph at lines 4534--4543 \T1/ptm/m/n/10 more ap-pro-pri-ate met-rics by us-ing these names. To make thes e eas-ier to re-mem-ber, [752] Underfull \hbox (badness 1755) in paragraph at lines 4544--4546 []\T1/ptm/m/n/10 Another type of fam-ily makes use of CID-keyed fonts for East Asian lan-guages -- see [753] Underfull \hbox (badness 1057) in paragraph at lines 4655--4660 []\T1/ptm/m/n/10 Color mod-els pro-vided for back-wards com-pat-i-bil-ity are \ T1/fi4/m/n/10 "rgb"\T1/ptm/m/n/10 ) (which is RGB+gray) and [754] Underfull \hbox (badness 7344) in paragraph at lines 4715--4717 []\T1/ptm/m/n/10 Support for Com-puter Mod-ern fonts is based on a con-tri-bu-t ion by Brian D'Urso [755] [756] Underfull \hbox (badness 2035) in paragraph at lines 4839--4848 []\T1/ptm/m/n/10 Mappings for a num-ber of stan-dard Adobe fonts (and URW equiv -a-lents) are also pro- Underfull \hbox (badness 10000) in paragraph at lines 4839--4848 \T1/ptm/m/n/10 vided: \T1/fi4/m/n/10 "AvantGarde"\T1/ptm/m/n/10 , \T1/fi4/m/n/1 0 "Bookman"\T1/ptm/m/n/10 , \T1/fi4/m/n/10 "Courier"\T1/ptm/m/n/10 , \T1/fi4/m/ n/10 "Helvetica"\T1/ptm/m/n/10 , \T1/fi4/m/n/10 "Helvetica-Narrow"\T1/ptm/m/n/1 0 , Underfull \hbox (badness 10000) in paragraph at lines 4839--4848 \T1/fi4/m/n/10 "NewCenturySchoolbook"\T1/ptm/m/n/10 , \T1/fi4/m/n/10 "Palatino" \T1/ptm/m/n/10 and \T1/fi4/m/n/10 "Times"\T1/ptm/m/n/10 ; \T1/fi4/m/n/10 "URWG othic"\T1/ptm/m/n/10 , \T1/fi4/m/n/10 "URWBookman"\T1/ptm/m/n/10 , [757] Overfull \vbox (3.1714pt too high) has occurred while \output is active [758] Underfull \hbox (badness 6775) in paragraph at lines 4906--4914 \T1/ptm/m/n/10 can be found at [][]$\T1/fi4/m/n/10 ftp : / / ftp . gnu . org / pub / non-[]gnu / chinese-[]fonts-[]truetype/$[][]\T1/ptm/m/n/10 . Ken Underfull \hbox (badness 3000) in paragraph at lines 4906--4914 \T1/ptm/m/n/10 Lunde's CJKV re-sources are at [][]$\T1/fi4/m/n/10 ftp : / / ftp . oreilly . com / pub / examples / nutshell / cjkv / Underfull \hbox (badness 7344) in paragraph at lines 4925--4927 []\T1/ptm/m/n/10 Support for Com-puter Mod-ern fonts is based on a con-tri-bu-t ion by Brian D'Urso [759] [760] Underfull \hbox (badness 1546) in paragraph at lines 5045--5053 []\T1/ptm/m/n/10 arguments \T1/fi4/m/n/10 onefile\T1/ptm/m/n/10 , \T1/fi4/m/n/1 0 family\T1/ptm/m/n/10 , \T1/fi4/m/n/10 title\T1/ptm/m/n/10 , \T1/fi4/m/n/10 fo nts\T1/ptm/m/n/10 , \T1/fi4/m/n/10 encoding\T1/ptm/m/n/10 , \T1/fi4/m/n/10 bg\T 1/ptm/m/n/10 , \T1/fi4/m/n/10 fg\T1/ptm/m/n/10 , \T1/fi4/m/n/10 width\T1/ptm/m/ n/10 , [761] Underfull \hbox (badness 1648) in paragraph at lines 5119--5123 []\T1/ptm/m/n/10 title for the Quartz win-dow (ap-plies to on-screen out-put on ly), de-fault [762] [763] [764] [765] [766] [767] Underfull \hbox (badness 10000) in paragraph at lines 5517--5520 []\T1/fi4/m/n/10 rgb2hsv \T1/ptm/m/n/10 trans-forms col-ors from RGB space (red /green/blue) into HSV space [768] [769] Underfull \vbox (badness 3803) has occurred while \output is active [770] [771] [772] [773] [774] Underfull \hbox (badness 1189) in paragraph at lines 5913--5915 []\T1/ptm/m/n/10 for cairo types, the type of anti-aliasing (if any) to be used . One of [775] [776] Underfull \hbox (badness 10000) in paragraph at lines 6011--6013 []\T1/fi4/m/n/10 "-*-mincho-%s-%s-*-*-%d-*-*-*-*-*-*-*" \T1/ptm/m/n/10 for CJK lan-guages and [777] [778] [779] [780] Underfull \hbox (badness 3780) in paragraph at lines 6302--6308 []\T1/ptm/m/n/10 the font fam-ily to be used. This must be one of \T1/fi4/m/n/1 0 "AvantGarde"\T1/ptm/m/n/10 , [781] [782] [783] Underfull \hbox (badness 2680) in paragraph at lines 6497--6499 []\T1/ptm/m/n/10 multiplicities (pos-i-tive in-te-gers); i.e., \T1/fi4/m/n/10 n umber[i] \T1/ptm/m/n/10 is the mul-ti-plic-ity of [784] [785] [786]) (./graphics-pkg.tex Chapter 4. [787] [788] [789] Underfull \hbox (badness 2856) in paragraph at lines 177--180 []\T1/ptm/m/n/10 For each \T1/fi4/m/n/10 i\T1/ptm/m/n/10 , an ar-row is drawn b e-tween the point \T1/fi4/m/n/10 (x0[i], y0[i]) \T1/ptm/m/n/10 and the point [790] [791] [792] [793] Underfull \hbox (badness 4492) in paragraph at lines 465--471 []\T1/ptm/m/n/10 When \T1/fi4/m/n/10 at = NULL\T1/ptm/m/n/10 , pretty tick mark lo-ca-tions are com-puted in-ter-nally (the same way [794] [795] [796] [797] Underfull \hbox (badness 10000) in paragraph at lines 690--697 []\T1/fi4/m/n/10 axTicks() \T1/ptm/m/n/10 can be used an \T1/phv/m/n/10 R \T1/p tm/m/n/10 in-ter-face to the C func-tion \T1/fi4/m/n/10 CreateAtVector() \T1/pt m/m/n/10 in [798] [799] [800] Underfull \hbox (badness 1389) in paragraph at lines 856--859 []\T1/ptm/m/n/10 logical. If \T1/fi4/m/n/10 TRUE\T1/ptm/m/n/10 , the lines whic h di-vide ad-ja-cent (non-stacked!) bars [801] [802] [803] [804] [805] [806] [807] Underfull \hbox (badness 4634) in paragraph at lines 1253--1256 [][][]\T1/fi4/m/n/10 boxplot.default[][][] \T1/ptm/m/n/10 which al-ready works nowa-days with data.frames; [][]\T1/fi4/m/n/10 boxplot.formula[][][]\T1/ptm/m/n /10 , [808] [809] [810] [811] [812] [813] [814] [815] [816] [817] [818] [819] [820] [821] [822] [823] [824] Underfull \hbox (badness 1009) in paragraph at lines 2287--2294 \T1/ptm/m/n/10 be in as-cend-ing or-der. (The rest of this de-scrip-tion does n ot ap-ply to [825] [826] [827] [828] [829] [830] [831] [832] [833] [834] [835] [836] [837] [838] [839] [840] [841] [842] Overfull \hbox (19.78088pt too wide) in paragraph at lines 3397--3397 [] \T1/fi4/m/n/10 adj = c(0, 0.5), text.width = NULL, text.col = par("co l"), text.font = NULL,[] [843] [844] [845] [846] Underfull \vbox (badness 10000) has occurred while \output is active [847] [848] [849] [850] [851] [852] [853] [854] [855] [856] [857] [858] Underfull \hbox (badness 1924) in paragraph at lines 4344--4349 []\T1/ptm/m/n/10 a func-tion which in-di-cates what should hap-pen when the dat a con-tain [859] [860] [861] [862] [863] Underfull \hbox (badness 10000) in paragraph at lines 4699--4705 []\T1/ptm/b/it/10 R.O.\T1/ptm/m/n/10 ; size of de-fault char-ac-ter \T1/fi4/m/n /10 (width, height) \T1/ptm/m/n/10 in user co-or-di-nate units. Underfull \hbox (badness 5908) in paragraph at lines 4699--4705 \T1/fi4/m/n/10 par("cxy") \T1/ptm/m/n/10 is \T1/fi4/m/n/10 par("cin")/par("pin" ) \T1/ptm/m/n/10 scaled to user co-or-di-nates. Note that Underfull \hbox (badness 1072) in paragraph at lines 4699--4705 \T1/fi4/m/n/10 c([][]strwidth[][][](ch), [][]strheight[][][](ch)) \T1/ptm/m/n/1 0 for a given string \T1/fi4/m/n/10 ch \T1/ptm/m/n/10 is usu-ally much more pre - [864] [865] Underfull \hbox (badness 10000) in paragraph at lines 4827--4830 [866 ] Underfull \hbox (badness 10000) in paragraph at lines 4888--4890 [867 ] [868] Underfull \hbox (badness 10000) in paragraph at lines 5068--5070 []\T1/ptm/m/n/10 The five stan-dard dash-dot line types (\T1/fi4/m/n/10 lty = 2 :6\T1/ptm/m/n/10 ) cor-re-spond to [869] [870] [871] Underfull \hbox (badness 4156) in paragraph at lines 5207--5210 []\T1/ptm/m/n/10 a ex-pan-sion fac-tor ap-plied to the \T1/fi4/m/n/10 z \T1/ptm /m/n/10 co-or-di-nates. Of-ten used with [872] [873] [874] [875] [876] [877] [878] [879] [880] [881] [882] [883] [884] [885] [886] [887] [888] [889] [890] [891] Overfull \hbox (31.57222pt too wide) in paragraph at lines 6457--6458 [][] [892 ] [893] [894] [895] [896] [897] [898] [899] [900] [901] [902] Underfull \hbox (badness 1048) in paragraph at lines 7161--7166 \T1/ptm/m/n/10 avoided (see the Warn-ings sec-tion be-low). Split-screen mode i s ex-ited by the com-mand [903] [904] Underfull \hbox (badness 1540) in paragraph at lines 7277--7280 []\T1/ptm/m/n/10 For each \T1/fi4/m/n/10 i\T1/ptm/m/n/10 , a line seg-ment is d rawn be-tween the point \T1/fi4/m/n/10 (x0[i], y0[i]) \T1/ptm/m/n/10 and the po int [905] [906] [907] [908] [909] [910] [911] [912] [913] [914] [915] [916] [917] [918] Underfull \hbox (badness 2050) in paragraph at lines 8091--8095 []\T1/ptm/m/n/10 For \T1/fi4/m/n/10 number[i] == 1\T1/ptm/m/n/10 , a (slightly en-larged) usual plot-ting sym-bol (\T1/fi4/m/n/10 pch\T1/ptm/m/n/10 ) is drawn . For [919] [920] [921] [922] [923] [924] (/usr/share/texlive/texmf-dist/tex/latex/inconsolata/ts1fi4.fd) [925] Underfull \hbox (badness 6691) in paragraph at lines 8490--8493 []\T1/ptm/m/n/10 The main ti-tle (on top) us-ing font and size (char-ac-ter ex- pan-sion) Underfull \hbox (badness 2799) in paragraph at lines 8493--8495 []\T1/ptm/m/n/10 Sub-title (at bot-tom) us-ing font and size \T1/fi4/m/n/10 par ("font.sub") \T1/ptm/m/n/10 and color [926]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.unit s}) has been already used, duplicate ignored \relax l.8575 \HeaderA{units}{Graphical Units}{units} [927] [928] [929] [930] [931]) (./grid-pkg.tex [932] Chapter 5. Underfull \vbox (badness 10000) has occurred while \output is active [933] [934] [935] [936] [937] [938] [939] Underfull \hbox (badness 2680) in paragraph at lines 405--408 []\T1/ptm/m/n/10 Note that \T1/fi4/m/n/10 preDrawDetails \T1/ptm/m/n/10 and \T1 /fi4/m/n/10 postDrawDetails \T1/ptm/m/n/10 are also called in the cal-cu-la-tio n of [940] [941] [942] Overfull \vbox (10.43605pt too high) has occurred while \output is active [943] [944] [945] [946] [947] Underfull \hbox (badness 4279) in paragraph at lines 945--954 [][][]\T1/ptm/m/n/10 Grid[][][], [][]\T1/fi4/m/n/10 pushViewport[][][]\T1/ptm/m /n/10 , [][]\T1/fi4/m/n/10 popViewport[][][]\T1/ptm/m/n/10 , [][]\T1/fi4/m/n/10 downViewport[][][]\T1/ptm/m/n/10 , [][]\T1/fi4/m/n/10 seekViewport[][][]\T1/pt m/m/n/10 , [][]\T1/fi4/m/n/10 upViewport[][][]\T1/ptm/m/n/10 , [][]\T1/fi4/m/n/ 10 unit[][][]\T1/ptm/m/n/10 , [948] Underfull \vbox (badness 3803) has occurred while \output is active [949] [950] [951] Underfull \hbox (badness 2781) in paragraph at lines 1147--1150 []\T1/ptm/m/n/10 Both func-tions cre-ate an ar-rows grob (a graph-i-cal ob-ject de-scrib-ing ar-rows), but only [952] Underfull \vbox (badness 10000) has occurred while \output is active [953] [954] [955] [956] [957] [958] [959] [960] [961] [962] [963] [964] [965] [966] [967] [968] [969] [970] [971] [972] [973] [974] [975] [976] [977] [978] [979] [980] [981] [982] [983] [984] [985] [986] [987] [988] [989] [990] Underfull \vbox (badness 3803) has occurred while \output is active [991] [992] [993] [994] [995] [996] Underfull \hbox (badness 10000) in paragraph at lines 3762--3764 []\T1/ptm/m/n/10 The de-fault value when a de-vice is opened is taken from the set-ting of [997] [998] [999] [1000] [1001] [1002] [1003] Underfull \hbox (badness 1067) in paragraph at lines 4161--4164 []\T1/ptm/m/n/10 Both func-tions cre-ate a seg-ments grob (a graph-i-cal ob-jec t de-scrib-ing seg-ments), but only [1004] [1005] [1006] [1007] [1008] Underfull \hbox (badness 7256) in paragraph at lines 4400--4402 []\T1/ptm/m/n/10 A char-ac-ter or [][]ex-pres-sion[][][] vec-tor. Other ob-ject s are co-erced by [1009] [1010] [1011] [1012] [1013] [1014] [1015] [1016] [1017] [1018] [1019] [1020] [1021] [1022] [1023] [1024] [1025] [1026] Overfull \hbox (57.28088pt too wide) in paragraph at lines 5522--5526 \T1/fi4/m/n/10 unit(rep(1, 3), c("npc", "strwidth", "inches"), data=list (NULL, "my string", NULL))\T1/ptm/m/n/10 . [1027] Underfull \hbox (badness 2096) in paragraph at lines 5531--5537 \T1/ptm/m/n/10 pos-si-ble to add and sub-tract unit ob-jects (e.g., \T1/fi4/m/n /10 unit(1, "npc") - unit(1, "inches")\T1/ptm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 5531--5537 \T1/ptm/m/n/10 and to spec-ify the min-i-mum or max-i-mum of a list of unit ob- jects (e.g., [1028] [1029] [1030] [1031] [1032] [1033] [1034] [1035] Underfull \hbox (badness 7649) in paragraph at lines 5993--5996 []\T1/ptm/m/n/10 This can be use-ful for re-turn-ing to your start-ing point by do-ing some-thing like [1036] [1037] [1038] [1039]) (./methods-pkg.tex [1040] Chapter 6. [1041] [1042] [1043] [1044] [1045] [1046] [1047] [1048] [1049] [1050] [1051] [1052] [1053] [1054] [1055] [1056] Underfull \vbox (badness 2277) has occurred while \output is active [1057] [1058] [1059] [1060] Underfull \hbox (badness 2237) in paragraph at lines 1432--1434 []\T1/ptm/m/n/10 The class \T1/fi4/m/n/10 "className" \T1/ptm/m/n/10 ex-tends \ T1/fi4/m/n/10 "character" \T1/ptm/m/n/10 and has a slot \T1/fi4/m/n/10 "package "\T1/ptm/m/n/10 , also of class [1061] [1062] [1063] [1064] [1065] [1066] [1067] [1068] Underfull \hbox (badness 1590) in paragraph at lines 1979--1986 []\T1/ptm/m/n/10 Two vir-tual classes are sup-plied to test for ref-er-ence ob- jects: \T1/fi4/m/n/10 is(x, "refClass") \T1/ptm/m/n/10 tests [1069] Underfull \hbox (badness 10000) in paragraph at lines 2028--2033 []\T1/ptm/m/n/10 The ar-gu-ment to \T1/fi4/m/n/10 insertSource \T1/ptm/m/n/10 c an be an ob-ject of class Underfull \hbox (badness 1038) in paragraph at lines 2028--2033 \T1/ptm/m/n/10 file name is passed to \T1/fi4/m/n/10 insertSource \T1/ptm/m/n/1 0 it calls \T1/fi4/m/n/10 evalSource \T1/ptm/m/n/10 to ob-tain the [1070] [1071] [1072] [1073] [1074] [1075] [1076] [1077] Underfull \hbox (badness 10000) in paragraph at lines 2628--2631 []\T1/ptm/m/n/10 As you might ex-pect [][]\T1/fi4/m/n/10 setGeneric[][][] \T1/p tm/m/n/10 and [][]\T1/fi4/m/n/10 setGroupGeneric[][][] \T1/ptm/m/n/10 cre-ate o b-jects of class [1078] [1079] Underfull \hbox (badness 1132) in paragraph at lines 2768--2772 []\T1/ptm/m/n/10 In \T1/fi4/m/n/10 getGenerics\T1/ptm/m/n/10 , if \T1/fi4/m/n/1 0 TRUE\T1/ptm/m/n/10 , the \T1/fi4/m/n/10 package \T1/ptm/m/n/10 slot of the re -turned re-sult is in [1080] Underfull \hbox (badness 1033) in paragraph at lines 2800--2805 \T1/ptm/m/n/10 In ad-di-tion, \T1/fi4/m/n/10 removeGeneric \T1/ptm/m/n/10 re-mo ves the func-tion it-self; \T1/fi4/m/n/10 removeMethods \T1/ptm/m/n/10 re-store s the [1081] [1082] [1083] [1084] [1085] [1086] [1087] [1088] [1089] [1090] [1091] [1092] Underfull \hbox (badness 10000) in paragraph at lines 3637--3642 []\T1/ptm/m/n/10 The \T1/fi4/m/n/10 initialize \T1/ptm/m/n/10 method for these classes takes spe-cial ar-gu-ments Underfull \hbox (badness 10000) in paragraph at lines 3645--3654 []\T1/ptm/m/n/10 The [1093] [1094] [1095] [1096] [1097] [1098] Underfull \vbox (badness 10000) has occurred while \output is active [1099] [1100] [1101] [1102] [1103] [1104] Underfull \hbox (badness 1436) in paragraph at lines 4454--4457 []\T1/ptm/m/n/10 The class \T1/fi4/m/n/10 "SealedMethodDefinition" \T1/ptm/m/n/ 10 is cre-ated by a call to [][]\T1/fi4/m/n/10 setMethod[][][] \T1/ptm/m/n/10 w ith ar-gu-ment [1105] Underfull \hbox (badness 1769) in paragraph at lines 4483--4489 []\T1/ptm/m/n/10 class [][]\T1/fi4/m/n/10 MethodsList[][][] \T1/ptm/m/n/10 for the ob-jects defin-ing sets of meth-ods as-so-ci-ated with a par-tic-u-lar Underfull \hbox (badness 1939) in paragraph at lines 4483--4489 \T1/fi4/m/n/10 MethodDefinition\T1/ptm/m/n/10 , or an ex-ten-sion. Class [][]\T 1/fi4/m/n/10 MethodWithNext[][][] \T1/ptm/m/n/10 for an ex-ten-sion used by [1106] [1107] [1108] [1109] [1110] [1111] [1112] Underfull \vbox (badness 10000) has occurred while \output is active [1113] [1114] Underfull \hbox (badness 1092) in paragraph at lines 5155--5162 \T1/ptm/m/n/10 names cor-re-spond-ing to some or all of the for-mal ar-gu-ments . In the pre-vi-ous ex-am-ple, Underfull \hbox (badness 1117) in paragraph at lines 5155--5162 \T1/ptm/m/n/10 if se-lect-ing class \T1/fi4/m/n/10 "track" \T1/ptm/m/n/10 for \ T1/fi4/m/n/10 x\T1/ptm/m/n/10 , find-ing that the se-lec-tion was an-other meth -ods list and Underfull \hbox (badness 4036) in paragraph at lines 5203--5206 []\T1/ptm/m/n/10 Object of class \T1/fi4/m/n/10 "PossibleMethod" \T1/ptm/m/n/10 the method to use in re-sponse to a [1115] [1116] [1117] [1118] [1119] [1120] Underfull \hbox (badness 1087) in paragraph at lines 5523--5528 []\T1/ptm/m/n/10 In ad-di-tion, the cur-rently avail-able gener-ics with meth-o ds for this class are found (us-ing [1121] [1122] [1123] Underfull \hbox (badness 2221) in paragraph at lines 5745--5750 []\T1/ptm/m/n/10 Two op-tional method names are in-ter-preted spe-cially, \T1/f i4/m/n/10 initialize \T1/ptm/m/n/10 and [1124] [1125] [1126] [1127] Underfull \hbox (badness 10000) in paragraph at lines 6106--6122 []\T1/ptm/m/n/10 The de-fault method for \T1/fi4/m/n/10 $initialize() \T1/ptm/m /n/10 is equiv-a-lent to in-vok-ing the method [1128] [1129] [1130] Underfull \vbox (badness 10000) has occurred while \output is active [1131] [1132] [1133]pdfTeX warning (ext4): destination with the same identifier (name{ Rfn.S4}) has been already used, duplicate ignored \relax l.6550 \aliasA{S4}{S3Part}{S4} [1134] [1135] [1136]pdfTeX warning (ext4): desti nation with the same identifier (name{Rfn.Complex}) has been already used, dupl icate ignored \relax l.6826 \aliasA{Complex}{S4groupGeneric}{Complex} pdfTeX warning (ext4): destinat ion with the same identifier (name{Rfn.Logic}) has been already used, duplicate ignored \relax l.6828 \aliasA{Logic}{S4groupGeneric}{Logic} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Math}) has been already used, duplicate igno red \relax l.6829 \aliasA{Math}{S4groupGeneric}{Math} pdfTeX warning (ext4): destination wi th the same identifier (name{Rfn.Ops}) has been already used, duplicate ignored \relax l.6831 \aliasA{Ops}{S4groupGeneric}{Ops} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Summary}) has been already used, duplicate ignor ed \relax l.6832 \aliasA{Summary}{S4groupGeneric}{Summary} [1137] Underfull \hbox (badness 2050) in paragraph at lines 6893--6897 []\T1/ptm/m/n/10 The mem-bers of the group de-fined by a par-tic-u-lar generic can be ob-tained by call-ing [1138] [1139] [1140] Underfull \hbox (badness 1286) in paragraph at lines 7075--7077 []\T1/ptm/m/n/10 for \T1/fi4/m/n/10 .selectSuperClasses() \T1/ptm/m/n/10 only, a [][]\T1/fi4/m/n/10 list[][][] \T1/ptm/m/n/10 of class ex-ten-sions, typ-i-cal ly [1141] [1142] [1143] [1144] [1145] [1146] [1147] [1148] [1149] [1150] [1151] [1152] [1153] [1154] [1155] [1156] [1157] [1158] [1159] [1160] [1161] [1162] [1163] [1164] [1165] [1166] [1167] [1168] [1169] [1170] [1171] [1172] [1173] Underfull \hbox (badness 2894) in paragraph at lines 9382--9386 []\T1/ptm/m/n/10 Chambers, John M. (2009) \T1/ptm/m/it/10 Class In-her-i-tance in R [][]$\T1/fi4/m/n/10 http : / / stat . stanford . edu / ~jmc4 / [1174] Underfull \hbox (badness 1852) in paragraph at lines 9461--9465 []\T1/ptm/m/n/10 Each of the classes ex-tends the cor-re-spond-ing un-traced cl ass, from the data part; e.g., [1175] [1176] [1177] [1178]) (./splines-pkg.tex Chapter 7. Underfull \hbox (badness 10000) in paragraph at lines 22--24 []\T1/ptm/m/n/10 Douglas M. Bates \T1/fi4/m/n/10 \T1/ptm/ m/n/10 and William N. Ven-ables [1179] [1180] [1181] [1182] [1183] [1184] [1185] [1186] [1187] [1188] [1189] [1190] [1191] [1192]) (./stats-pkg.tex Chapter 8. [1193] [1194] [1195] [1196] [1197] [1198] [1199] [1200] [1201] [1202] [1203] [1204] [1205] Underfull \hbox (badness 1412) in paragraph at lines 829--831 []\T1/ptm/m/n/10 A fit-ted model ob-ject, for ex-am-ple from \T1/fi4/m/n/10 lm \T1/ptm/m/n/10 or \T1/fi4/m/n/10 aov\T1/ptm/m/n/10 , or a for-mula for [1206] [1207] [1208] [1209] [1210] [1211] [1212] [1213] Underfull \hbox (badness 2503) in paragraph at lines 1316--1319 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of \T1/fi4/m/n/10 "two.sided"\T1/ptm/m/n/10 , [1214] [1215] [1216] Underfull \hbox (badness 10000) in paragraph at lines 1495--1499 []\T1/ptm/m/n/10 An ob-ject of class \T1/fi4/m/n/10 c("aov", "lm") \T1/ptm/m/n/ 10 or for mul-ti-ple re-sponses of class [1217] [1218] [1219] [1220] [1221] [1222] [1223] [1224] [1225] [1226] Underfull \hbox (badness 3965) in paragraph at lines 2139--2141 []\T1/ptm/m/n/10 the AIC value cor-re-spond-ing to the log-likelihood. Only val id for [1227] [1228] [1229] [1230] [1231] Underfull \hbox (badness 3965) in paragraph at lines 2467--2469 []\T1/ptm/m/n/10 the AIC value cor-re-spond-ing to the log-likelihood. Only val id for [1232] [1233] [1234] [1235] [1236] [1237] [1238] [1239] [1240] [1241] [1242] [1243] [1244] Underfull \hbox (badness 2503) in paragraph at lines 3230--3233 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of \T1/fi4/m/n/10 "two.sided"\T1/ptm/m/n/10 , [1245] [1246] [1247] [1248] [1249] [1250] [1251] [1252] [1253] [1254] [1255] [1256] [1257] [1258] [1259] [1260] [1261] [1262] [1263] [1264] Underfull \hbox (badness 3989) in paragraph at lines 4424--4431 []\T1/ptm/m/n/10 a nu-meric vec-tor of length 2, equal to say $\OT1/cmr/m/n/10 (\OML/cmm/m/it/10 g[]; g[]\OT1/cmr/m/n/10 )$\T1/ptm/m/n/10 , where $\OML/cmm/m/ it/10 g[] \OT1/cmr/m/n/10 = [1265] [1266] [1267] [1268] [1269] [1270] [1271] [1272] [1273] Underfull \hbox (badness 2932) in paragraph at lines 5037--5039 []\T1/ptm/m/n/10 Note that the usual def-i-ni-tion of con-vo-lu-tion of two se- quences \T1/fi4/m/n/10 x \T1/ptm/m/n/10 and \T1/fi4/m/n/10 y \T1/ptm/m/n/10 is given by [1274] [1275] [1276] Underfull \hbox (badness 1603) in paragraph at lines 5244--5249 []\T1/fi4/m/n/10 var \T1/ptm/m/n/10 is just an-other in-ter-face to \T1/fi4/m/n /10 cov\T1/ptm/m/n/10 , where \T1/fi4/m/n/10 na.rm \T1/ptm/m/n/10 is used to de -ter-mine the de-fault for Underfull \hbox (badness 1472) in paragraph at lines 5244--5249 \T1/fi4/m/n/10 use \T1/ptm/m/n/10 when that is un-spec-i-fied. If \T1/fi4/m/n/1 0 na.rm \T1/ptm/m/n/10 is \T1/fi4/m/n/10 TRUE \T1/ptm/m/n/10 then the com-plete ob-ser-va-tions (rows) Underfull \hbox (badness 3108) in paragraph at lines 5244--5249 \T1/ptm/m/n/10 are used (\T1/fi4/m/n/10 use = "na.or.complete"\T1/ptm/m/n/10 ) to com-pute the vari-ance. Oth-er-wise, by de-fault [1277] Underfull \hbox (badness 2913) in paragraph at lines 5278--5290 \T1/ptm/m/n/10 For \T1/fi4/m/n/10 cov()\T1/ptm/m/n/10 , a non-Pearson method is un-usual but avail-able for the sake of com-plete- [1278] [1279] Underfull \hbox (badness 2503) in paragraph at lines 5393--5397 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of \T1/fi4/m/n/10 "two.sided"\T1/ptm/m/n/10 , [1280] Underfull \hbox (badness 1168) in paragraph at lines 5454--5459 []\T1/ptm/m/n/10 For Spear-man's test, p-values are com-puted us-ing al-go-rith m AS 89 for $\OML/cmm/m/it/10 n < \OT1/cmr/m/n/10 1290$ \T1/ptm/m/n/10 and [1281] [1282] [1283] [1284] [1285] [1286] [1287] Underfull \hbox (badness 8132) in paragraph at lines 5892--5897 \T1/ptm/m/n/10 then \T1/fi4/m/n/10 y \T1/ptm/m/n/10 is a den-dro-gram of the sa me graph struc-ture as \T1/fi4/m/n/10 x \T1/ptm/m/n/10 and for each node, [1288] [1289] [1290] [1291] Underfull \hbox (badness 7081) in paragraph at lines 6147--6150 []\T1/ptm/m/n/10 Objects of class \T1/fi4/m/n/10 "hclust" \T1/ptm/m/n/10 can be con-verted to class \T1/fi4/m/n/10 "dendrogram" \T1/ptm/m/n/10 us-ing method Underfull \hbox (badness 10000) in paragraph at lines 6151--6153 []\T1/fi4/m/n/10 rev.dendrogram \T1/ptm/m/n/10 sim-ply re-turns the den-dro-gra m \T1/fi4/m/n/10 x \T1/ptm/m/n/10 with re-versed nodes, see also [1292] [1293] [1294] [1295] [1296] Underfull \vbox (badness 10000) has occurred while \output is active [1297] [1298] [1299] [1300] [1301] [1302] [1303] [1304] Underfull \hbox (badness 10000) in paragraph at lines 6950--6953 []\T1/ptm/m/n/10 optionally, the dis-tance method used; re-sult-ing from [][]\T 1/fi4/m/n/10 dist[][][]()\T1/ptm/m/n/10 , the [1305] [1306] Underfull \hbox (badness 10000) in paragraph at lines 7087--7090 []\T1/ptm/m/n/10 The CRAN task view on dis-tri-bu-tions, [][]$\T1/fi4/m/n/10 ht tp : / / cran . r-[]project . org / web / views / [1307] [1308] [1309] [1310] [1311] [1312] [1313] [1314] [1315] [1316] [1317] [1318] [1319] [1320] [1321] [1322] [1323] [1324] [1325] Underfull \vbox (badness 3803) has occurred while \output is active [1326] [1327] [1328] [1329] Underfull \hbox (badness 2626) in paragraph at lines 8508--8511 []\T1/ptm/m/n/10 Either \T1/fi4/m/n/10 "convolution" \T1/ptm/m/n/10 or \T1/fi4/ m/n/10 "recursive" \T1/ptm/m/n/10 (and can be ab-bre-vi-ated). If [1330] [1331] Underfull \hbox (badness 2503) in paragraph at lines 8608--8612 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of \T1/fi4/m/n/10 "two.sided"\T1/ptm/m/n/10 , [1332] [1333] [1334] [1335] [1336] Overfull \hbox (11.88992pt too wide) in paragraph at lines 8942--8944 []\T1/ptm/m/n/10 the char-ac-ter string \T1/fi4/m/n/10 "Fligner-Killeen test of homogeneity of variances"\T1/ptm/m/n/10 . [1337] [1338] [1339] [1340] [1341] [1342] [1343] [1344] [1345] Overfull \hbox (15.6622pt too wide) in paragraph at lines 9555--9557 []\T1/ptm/m/n/10 The cu-mu-la-tive haz-ard $\OML/cmm/m/it/10 H\OT1/cmr/m/n/10 ( \OML/cmm/m/it/10 t\OT1/cmr/m/n/10 ) = \OMS/cmsy/m/n/10 ^^@ []\OT1/cmr/m/n/10 (1 \OMS/cmsy/m/n/10 ^^@ \OML/cmm/m/it/10 F\OT1/cmr/m/n/10 (\OML/cmm/m/it/10 t\OT1 /cmr/m/n/10 ))$ \T1/ptm/m/n/10 is \T1/fi4/m/n/10 -pgamma(t, ..., lower = FALSE, log = TRUE)\T1/ptm/m/n/10 . [1346] [1347] [1348] [1349] [1350] Underfull \hbox (badness 4518) in paragraph at lines 9839--9844 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1351] [1352] [1353] [1354] [1355] Underfull \hbox (badness 2142) in paragraph at lines 10180--10183 []\T1/ptm/m/n/10 positive con-ver-gence tol-er-ance $\OML/cmm/m/it/10 ^^O$\T1/p tm/m/n/10 ; the it-er-a-tions con-verge when $\OMS/cmsy/m/n/10 j\OML/cmm/m/it/1 0 dev \OMS/cmsy/m/n/10 ^^@ Underfull \hbox (badness 1253) in paragraph at lines 10199--10202 []\T1/ptm/m/n/10 When \T1/fi4/m/n/10 trace \T1/ptm/m/n/10 is true, calls to [][ ]\T1/fi4/m/n/10 cat[][][] \T1/ptm/m/n/10 pro-duce the out-put for each IWLS it- er-a-tion. Hence, [1356] Underfull \hbox (badness 1708) in paragraph at lines 10261--10264 []\T1/ptm/m/n/10 the type of resid-u-als which should be re-turned. The al-ter- na-tives are: [1357] [1358] [1359] [1360] [1361] Underfull \hbox (badness 1694) in paragraph at lines 10625--10628 []\T1/ptm/m/n/10 character vec-tors with row and col-umn la-bels to use; these de-fault to [1362] Underfull \hbox (badness 1867) in paragraph at lines 10644--10653 \T1/ptm/m/n/10 in the row case. If ei-ther is miss-ing, as by de-fault, then th e or-der-ing of the cor-re- [1363] [1364] [1365] [1366] [1367] [1368] [1369]pdfTeX warning (ext4): destinat ion with the same identifier (name{Rfn.hat}) has been already used, duplicate i gnored \relax l.11083 \aliasA{hat}{influence.measures}{hat} [1370] [1371] Underfull \hbox (badness 1484) in paragraph at lines 11207--11209 []\T1/ptm/m/n/10 The func-tion \T1/fi4/m/n/10 hat() \T1/ptm/m/n/10 ex-ists main ly for S (ver-sion 2) com-pat-i-bil-ity; we rec-om-mend us-ing [1372] [1373] [1374] [1375] [1376] [1377] [1378] [1379] [1380] Underfull \hbox (badness 4441) in paragraph at lines 11753--11755 []\T1/ptm/m/n/10 vector of dif-fer-enc-ing co-ef-fi-cients, so an ARMA model is fit-ted to [1381] [1382] [1383] [1384] [1385] [1386] [1387] [1388] [1389] [1390] [1391] [1392] [1393] [1394] [1395] [1396] Underfull \hbox (badness 4518) in paragraph at lines 12700--12705 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1397] [1398] [1399] [1400] [1401] [1402] [1403] [1404] [1405] [1406] Underfull \hbox (badness 4518) in paragraph at lines 13318--13323 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1407] [1408] [1409] [1410] [1411] [1412] [1413] [1414] Overfull \hbox (5.6622pt too wide) in paragraph at lines 13863--13865 []\T1/ptm/m/n/10 The cu-mu-la-tive haz-ard $\OML/cmm/m/it/10 H\OT1/cmr/m/n/10 ( \OML/cmm/m/it/10 t\OT1/cmr/m/n/10 ) = \OMS/cmsy/m/n/10 ^^@ []\OT1/cmr/m/n/10 (1 \OMS/cmsy/m/n/10 ^^@ \OML/cmm/m/it/10 F\OT1/cmr/m/n/10 (\OML/cmm/m/it/10 t\OT1 /cmr/m/n/10 ))$ \T1/ptm/m/n/10 is \T1/fi4/m/n/10 -plnorm(t, r, lower = FALSE, l og = TRUE)\T1/ptm/m/n/10 . [1415] [1416] [1417] [1418] [1419] [1420] [1421] [1422] [1423] [1424] [1425] Underfull \hbox (badness 2503) in paragraph at lines 14478--14482 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of \T1/fi4/m/n/10 "two.sided"\T1/ptm/m/n/10 , [1426] [1427] Underfull \vbox (badness 10000) has occurred while \output is active [1428] [1429] [1430] [1431] [1432] [1433] [1434] Underfull \hbox (badness 3009) in paragraph at lines 14985--14991 []\T1/fi4/m/n/10 model.offset \T1/ptm/m/n/10 and \T1/fi4/m/n/10 model.response \T1/ptm/m/n/10 are equiv-a-lent to \T1/fi4/m/n/10 model.extract(, "offset") \T1 /ptm/m/n/10 and [1435] [1436] [1437] [1438] [1439] [1440] [1441] [1442] [1443] [1444] [1445] [1446] [1447] [1448] [1449] [1450] [1451] [1452] [1453] [1454] [1455] [1456] [1457] [1458] [1459] [1460] [1461] Underfull \vbox (badness 10000) has occurred while \output is active [1462] Underfull \vbox (badness 10000) has occurred while \output is active [1463] [1464] [1465] [1466] [1467] [1468] [1469] [1470] [1471] [1472] [1473] [1474] [1475] Underfull \hbox (badness 1377) in paragraph at lines 17468--17473 []\T1/ptm/m/n/10 A vec-tor of scal-ing val-ues for the pa-ram-e-ters. Op-ti-miz a-tion is per-formed on Underfull \hbox (badness 1735) in paragraph at lines 17473--17476 []\T1/ptm/m/n/10 A vec-tor of step sizes for the finite-difference ap-prox-i-ma -tion to the gra-di-ent, on Underfull \hbox (badness 2343) in paragraph at lines 17486--17490 []\T1/ptm/m/n/10 Relative con-ver-gence tol-er-ance. The al-go-rithm stops if i t is un-able to re-duce Underfull \hbox (badness 2080) in paragraph at lines 17486--17490 \T1/ptm/m/n/10 the value by a fac-tor of \T1/fi4/m/n/10 reltol * (abs(val) + re ltol) \T1/ptm/m/n/10 at a step. De-faults to Underfull \hbox (badness 2662) in paragraph at lines 17494--17498 []\T1/ptm/m/n/10 The fre-quency of re-ports for the \T1/fi4/m/n/10 "BFGS"\T1/pt m/m/n/10 , \T1/fi4/m/n/10 "L-BFGS-B" \T1/ptm/m/n/10 and \T1/fi4/m/n/10 "SANN" \ T1/ptm/m/n/10 meth-ods if [1476] [1477] [1478] [1479] [1480] [1481] [1482] [1483] [1484] [1485] Underfull \hbox (badness 1337) in paragraph at lines 18103--18106 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1486] [1487] [1488] [1489] [1490] [1491] [1492] [1493] [1494] [1495] [1496] [1497] [1498] Underfull \hbox (badness 5563) in paragraph at lines 18830--18832 []\T1/ptm/m/n/10 logical. If \T1/fi4/m/n/10 TRUE\T1/ptm/m/n/10 , add to al-read y ex-ist-ing plot. Only valid for Underfull \hbox (badness 1194) in paragraph at lines 18833--18836 []\T1/ptm/m/n/10 coverage prob-a-bil-ity for con-fi-dence in-ter-val. Plot-ting of the con-fi-dence [1499] [1500] [1501] [1502] [1503] Underfull \hbox (badness 1675) in paragraph at lines 19120--19123 []\T1/ptm/m/n/10 Setting \T1/fi4/m/n/10 lower.tail = FALSE \T1/ptm/m/n/10 al-lo ws to get much more pre-cise re-sults when the de-fault, [1504] Underfull \hbox (badness 2503) in paragraph at lines 19197--19200 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of \T1/fi4/m/n/10 "two.sided"\T1/ptm/m/n/10 , [1505] Underfull \hbox (badness 10000) in paragraph at lines 19224--19226 []\T1/ptm/m/n/10 the char-ac-ter string \T1/fi4/m/n/10 "Exact Poisson test" \T1 /ptm/m/n/10 or [1506] [1507] [1508] [1509] [1510] [1511] [1512] [1513] [1514] [1515] [1516] [1517] [1518] [1519] [1520] Underfull \hbox (badness 10000) in paragraph at lines 20189--20195 []\T1/ptm/m/n/10 For time-series pre-dic-tion, [][]\T1/fi4/m/n/10 predict.ar[][ ][]\T1/ptm/m/n/10 , [][]\T1/fi4/m/n/10 predict.Arima[][][]\T1/ptm/m/n/10 , [][] \T1/fi4/m/n/10 predict.arima0[][][]\T1/ptm/m/n/10 , [1521] [1522] [1523] [1524] [1525] [1526] [1527] [1528] [1529] [1530] [1531] [1532] [1533] [1534] [1535] [1536] [1537] Underfull \hbox (badness 2111) in paragraph at lines 21140--21145 []\T1/ptm/m/n/10 Utility func-tion to be used in higher-level [][]\T1/fi4/m/n/1 0 print[][][] \T1/ptm/m/n/10 meth-ods, such as [][]\T1/fi4/m/n/10 print.summary .lm[][][]\T1/ptm/m/n/10 , [1538] [1539] [1540] [1541] [1542] Underfull \hbox (badness 1337) in paragraph at lines 21478--21484 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1543] [1544] [1545] [1546] [1547] [1548] [1549] [1550] [1551] [1552] [1553] [1554] Underfull \hbox (badness 10000) in paragraph at lines 22222--22225 []\T1/ptm/m/n/10 Optional vec-tor with clus-ter mem-ber-ships as re-turned by Underfull \hbox (badness 1675) in paragraph at lines 22222--22225 \T1/fi4/m/n/10 cutree(hclust.obj, k = k)\T1/ptm/m/n/10 , can be spec-i-fied for ef-fi-ciency if al-ready [1555] [1556] [1557] [1558] [1559] [1560] [1561] [1562] [1563] [1564] Underfull \hbox (badness 10000) in paragraph at lines 22797--22800 []\T1/ptm/m/n/10 Apart from the end val-ues, the re-sult \T1/fi4/m/n/10 y = run med(x, k) \T1/ptm/m/n/10 sim-ply has Underfull \hbox (badness 3690) in paragraph at lines 22846--22850 [][][]\T1/fi4/m/n/10 smoothEnds[][][] \T1/ptm/m/n/10 which im-ple-ments Tukey's end point rule and is called by de-fault from Underfull \hbox (badness 1062) in paragraph at lines 22846--22850 \T1/fi4/m/n/10 runmed(*, endrule = "median")\T1/ptm/m/n/10 . [][]\T1/fi4/m/n/10 smooth[][][] \T1/ptm/m/n/10 uses run-ning me-di-ans of 3 for its com-pound [1565] [1566] [1567] [1568] [1569] [1570] [1571] [1572] [1573] [1574] [1575] [1576] [1577] [1578] [1579] [1580] [1581] [1582] [1583] [1584] [1585] [1586] [1587] [1588] [1589] [1590] [1591] [1592] [1593] [1594] [1595] [1596] Underfull \hbox (badness 3514) in paragraph at lines 24785--24790 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/fi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1597] Underfull \hbox (badness 3514) in paragraph at lines 24847--24852 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/fi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1598] Underfull \hbox (badness 3514) in paragraph at lines 24904--24909 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/fi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1599] Underfull \hbox (badness 3514) in paragraph at lines 24965--24971 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/fi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1600] [1601] [1602] Underfull \hbox (badness 2376) in paragraph at lines 25097--25100 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/fi4/m/n/10 input\ T1/ptm/m/n/10 , which is the value of the ex-pres-sion Overfull \hbox (62.28088pt too wide) in paragraph at lines 25097--25100 \T1/fi4/m/n/10 Dose * exp(lKe+lKa-lCl) * (exp(-exp(lKe)*input)-exp(-exp(lKa)*in put)) / (exp(lKa)-exp(lKe))\T1/ptm/m/n/10 . [1603] Underfull \hbox (badness 3514) in paragraph at lines 25157--25162 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/fi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1604] Underfull \hbox (badness 3514) in paragraph at lines 25213--25218 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/fi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1605] Underfull \hbox (badness 3514) in paragraph at lines 25270--25275 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/fi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1606] Underfull \hbox (badness 3514) in paragraph at lines 25325--25330 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/fi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1607] Underfull \hbox (badness 6691) in paragraph at lines 25394--25399 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/fi4/m/n/10 x\T1/p tm/m/n/10 . It is the value of the ex-pres-sion [1608] [1609] [1610] [1611] [1612] [1613] [1614] Underfull \hbox (badness 10000) in paragraph at lines 25864--25867 []\T1/ptm/m/n/10 the span (in lags) of the loess win-dow for trend ex- Underfull \hbox (badness 10000) in paragraph at lines 25864--25867 \T1/ptm/m/n/10 trac-tion, which should be odd. If \T1/fi4/m/n/10 NULL\T1/ptm/m/ n/10 , the de-fault, [1615] [1616] [1617] [1618] [1619] [1620] [1621] [1622] [1623] [1624] [1625] Underfull \hbox (badness 5431) in paragraph at lines 26463--26465 []\T1/ptm/m/n/10 the cor-re-la-tion ma-trix cor-re-spond-ing to the above \T1/f i4/m/n/10 cov.unscaled\T1/ptm/m/n/10 , if [1626] [1627] [1628] Underfull \hbox (badness 5431) in paragraph at lines 26666--26669 []\T1/ptm/m/n/10 the cor-re-la-tion ma-trix cor-re-spond-ing to the above \T1/f i4/m/n/10 cov.unscaled\T1/ptm/m/n/10 , if [1629] [1630] [1631] [1632] [1633] [1634] Underfull \hbox (badness 1337) in paragraph at lines 26977--26981 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1635] [1636] Underfull \hbox (badness 10000) in paragraph at lines 27094--27097 []\T1/ptm/m/n/10 non-centrality pa-ram-e-ter $\OML/cmm/m/it/10 ^^N$\T1/ptm/m/n/ 10 ; cur-rently ex-cept for \T1/fi4/m/n/10 rt()\T1/ptm/m/n/10 , only for [1637] [1638] Underfull \hbox (badness 1616) in paragraph at lines 27267--27270 []\T1/ptm/m/n/10 color, plot-ting char-ac-ter ex-pan-sion and type for par-tial resid-u-als, when [1639] Underfull \hbox (badness 4518) in paragraph at lines 27291--27294 []\T1/ptm/m/n/10 For the \T1/fi4/m/n/10 partial.resid=TRUE \T1/ptm/m/n/10 op-ti on it must have a [][]\T1/fi4/m/n/10 residuals[][][] \T1/ptm/m/n/10 method that ac-cepts [1640] [1641] [1642] [1643] [1644] [1645] [1646] [1647] [1648] [1649] [1650] [1651] [1652] [1653] [1654] [1655] [1656] [1657] [1658] [1659] [1660] Underfull \hbox (badness 1337) in paragraph at lines 28590--28594 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1661] [1662] [1663] [1664] Overfull \hbox (28.1622pt too wide) in paragraph at lines 28838--28841 []\T1/ptm/m/n/10 The cu-mu-la-tive haz-ard $\OML/cmm/m/it/10 H\OT1/cmr/m/n/10 ( \OML/cmm/m/it/10 t\OT1/cmr/m/n/10 ) = \OMS/cmsy/m/n/10 ^^@ []\OT1/cmr/m/n/10 (1 \OMS/cmsy/m/n/10 ^^@ \OML/cmm/m/it/10 F\OT1/cmr/m/n/10 (\OML/cmm/m/it/10 t\OT1 /cmr/m/n/10 ))$ \T1/ptm/m/n/10 is \T1/fi4/m/n/10 -pweibull(t, a, b, lower = FAL SE, log = TRUE) [1665] [1666] [1667] [1668] Underfull \hbox (badness 1337) in paragraph at lines 29061--29065 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1669] [1670] Underfull \hbox (badness 5161) in paragraph at lines 29154--29156 []\T1/ptm/m/n/10 an es-ti-mate of the lo-ca-tion pa-ram-e-ter. (Only present if ar-gu-ment [1671] [1672] [1673] [1674] [1675] Underfull \hbox (badness 10000) in paragraph at lines 29510--29515 []\T1/ptm/m/n/10 There is a \T1/fi4/m/n/10 summary \T1/ptm/m/n/10 method for co n-tin-gency ta-ble ob-jects cre-ated by \T1/fi4/m/n/10 table \T1/ptm/m/n/10 or Underfull \hbox (badness 1303) in paragraph at lines 29510--29515 \T1/fi4/m/n/10 xtabs(*, sparse=FALSE)\T1/ptm/m/n/10 , which gives ba-sic in-for -ma-tion and per-forms a chi-squared test Underfull \hbox (badness 1308) in paragraph at lines 29522--29525 []\T1/ptm/m/n/10 By de-fault, when \T1/fi4/m/n/10 sparse=FALSE\T1/ptm/m/n/10 , a con-tin-gency ta-ble in ar-ray rep-re-sen-ta-tion of S3 class [1676] [1677] [1678]) (./stats4-pkg.tex Chapter 9. [1679] [1680] [1681] [1682] [1683] [1684]pdfTeX warning (ext4): destination wit h the same identifier (name{Rfn.show.Rdash.methods}) has been already used, dup licate ignored \relax l.407 ...Package \pkg{stats4}}{show.Rdash.methods} [1685] [1686] [1687] [1688]) (./tcltk-pkg.tex Chapter 10. [1689] [1690] [1691] [1692] [1693] [1694] [1695] Underfull \vbox (badness 10000) has occurred while \output is active [1696] Underfull \vbox (badness 10000) has occurred while \output is active [1697] Underfull \hbox (badness 1546) in paragraph at lines 644--651 []\T1/fi4/m/n/10 tcl \T1/ptm/m/n/10 pro-vides a generic in-ter-face to call-ing any Tk or Tcl com-mand by sim-ply run-ning [1698] [1699] [1700] [1701] Underfull \vbox (badness 10000) has occurred while \output is active [1702] [1703] [1704] [1705] [1706] [1707] [1708] [1709]) (./tools-pkg.tex [1710] Chapter 11. LaTeX Font Warning: Font shape `T1/fi4/m/it' undefined (Font) using `T1/fi4/m/n' instead on input line 26. [1711] Underfull \hbox (badness 10000) in paragraph at lines 120--135 \T1/fi4/m/n/10 formatIncollection\T1/ptm/m/n/10 , \T1/fi4/m/n/10 formatInProcee dings\T1/ptm/m/n/10 , \T1/fi4/m/n/10 formatManual\T1/ptm/m/n/10 , \T1/fi4/m/n/1 0 formatMastersthesis\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 120--135 \T1/fi4/m/n/10 formatMisc\T1/ptm/m/n/10 , \T1/fi4/m/n/10 formatPhdthesis\T1/ptm /m/n/10 , \T1/fi4/m/n/10 formatProceedings\T1/ptm/m/n/10 , \T1/fi4/m/n/10 forma tTechreport \T1/ptm/m/n/10 and [1712] [1713] [1714] Underfull \hbox (badness 2080) in paragraph at lines 251--256 \T1/ptm/m/n/10 ac-ters. It is sorted by Uni-code point and within a point al-ph a-bet-i-cally on the glyph Underfull \hbox (badness 2644) in paragraph at lines 251--256 \T1/ptm/m/n/10 (there can be more than one name for a Uni-code point). The data are in the file [1715] [1716] [1717] Underfull \vbox (badness 10000) has occurred while \output is active [1718] [1719] [1720] [1721] Underfull \hbox (badness 1635) in paragraph at lines 666--668 []\T1/ptm/m/n/10 Delete files in the tem-po-rary di-rec-tory? This op-tion is i g-nored when [1722] [1723] Underfull \hbox (badness 10000) in paragraph at lines 814--816 []\T1/ptm/m/n/10 Re-save PDF files (es-pe-cially vi-gnettes) more com-pactly. S up-port func-tion for [1724] [1725] [1726] Underfull \hbox (badness 7981) in paragraph at lines 980--984 []\T1/ptm/m/n/10 a char-ac-ter vec-tor list-ing the types of de-pen-den-cies, a sub-set of Overfull \hbox (9.55087pt too wide) in paragraph at lines 980--984 \T1/fi4/m/n/10 c("Depends", "Imports", "LinkingTo", "Suggests", "Enhances" )\T1/ptm/m/n/10 . Underfull \hbox (badness 1082) in paragraph at lines 986--988 []\T1/ptm/m/n/10 a char-ac-ter vec-tor of \T1/phv/m/n/10 R \T1/ptm/m/n/10 li-br ary trees, or \T1/fi4/m/n/10 NULL \T1/ptm/m/n/10 for all known trees (see [1727] [1728] [1729] [1730] [1731] Underfull \hbox (badness 5726) in paragraph at lines 1249--1254 []\T1/ptm/m/n/10 If \T1/fi4/m/n/10 reduce \T1/ptm/m/n/10 is \T1/fi4/m/n/10 TRUE \T1/ptm/m/n/10 , the sys-tem will col-lapse the fields in the \T1/fi4/m/n/10 De pendsList \T1/ptm/m/n/10 ob-ject Underfull \hbox (badness 7221) in paragraph at lines 1249--1254 \T1/ptm/m/n/10 such that a min-i-mal set of de-pen-den-cies are spec-i-fied (fo r in-stance if there was [1732] [1733] [1734] [1735] [1736] Underfull \hbox (badness 7981) in paragraph at lines 1531--1536 []\T1/ptm/m/n/10 a char-ac-ter vec-tor list-ing the types of de-pen-den-cies, a sub-set of Overfull \hbox (9.55087pt too wide) in paragraph at lines 1531--1536 \T1/fi4/m/n/10 c("Depends", "Imports", "LinkingTo", "Suggests", "Enhances" )\T1/ptm/m/n/10 . [1737] [1738] [1739] [1740] LaTeX Font Warning: Font shape `T1/fi4/m/sl' undefined (Font) using `T1/fi4/m/n' instead on input line 1782. [1741] [1742] [1743] [1744] Underfull \hbox (badness 1424) in paragraph at lines 2018--2020 []\T1/fi4/m/sl/10 NULL \T1/ptm/m/n/10 or a named (by top-ics) char-ac-ter vec-t or of links, as re-turned by [1745] [1746] [1747] [1748] [1749] [1750] [1751] [1752] Underfull \hbox (badness 1675) in paragraph at lines 2529--2531 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing how the news en-tries shoul d be \T1/ptm/m/it/10 chopped\T1/ptm/m/n/10 ; [1753] [1754] [1755] [1756] [1757] [1758] [1759] [1760] [1761] Underfull \hbox (badness 5726) in paragraph at lines 3093--3098 []\T1/ptm/m/n/10 If \T1/fi4/m/sl/10 reduce \T1/ptm/m/n/10 is \T1/fi4/m/sl/10 TR UE\T1/ptm/m/n/10 , the sys-tem will col-lapse the fields in the \T1/fi4/m/sl/10 DependsList \T1/ptm/m/n/10 ob-ject Underfull \hbox (badness 7221) in paragraph at lines 3093--3098 \T1/ptm/m/n/10 such that a min-i-mal set of de-pen-den-cies are spec-i-fied (fo r in-stance if there was [1762] Underfull \hbox (badness 1688) in paragraph at lines 3144--3156 []\T1/ptm/m/n/10 a char-ac-ter vec-tor giv-ing the fields to be used in the `\T 1/fi4/m/sl/10 PACKAGES\T1/ptm/m/n/10 ' and [1763] [1764] [1765] [1766]) (./utils-pkg.tex Chapter 12. [1767] Underfull \hbox (badness 2556) in paragraph at lines 47--52 []\T1/ptm/m/n/10 a nu-meric vec-tor or list with names par-tially match-ing `\T 1/fi4/m/sl/10 insertions\T1/ptm/m/n/10 ', [1768] [1769] Underfull \hbox (badness 1454) in paragraph at lines 198--201 []\T1/ptm/m/n/10 logical in-di-cat-ing if the search should be case-insensitive , \T1/fi4/m/sl/10 TRUE \T1/ptm/m/n/10 by de- Underfull \hbox (badness 1540) in paragraph at lines 214--217 []\T1/fi4/m/sl/10 find \T1/ptm/m/n/10 is a dif-fer-ent user in-ter-face for the same task as \T1/fi4/m/sl/10 apropos\T1/ptm/m/n/10 . How-ever, by de-fault [1770] [1771] [1772] [1773] [1774] [1775] Underfull \hbox (badness 5847) in paragraph at lines 584--590 []\T1/ptm/m/n/10 Argument \T1/fi4/m/sl/10 filters \T1/ptm/m/n/10 can be used to se-lect which of the pack-ages on the repos-i-to- Underfull \hbox (badness 4229) in paragraph at lines 584--590 \T1/ptm/m/n/10 ries are re-ported. It is called with its de-fault value (\T1/fi 4/m/sl/10 NULL\T1/ptm/m/n/10 ) by func-tions such as [1776] [1777] [1778] [1779] [1780] Underfull \vbox (badness 3803) has occurred while \output is active [1781] [1782] [1783] [1784] [1785] Underfull \hbox (badness 1371) in paragraph at lines 1201--1203 []\T1/ptm/m/n/10 additional named ar-gu-ments such as \T1/fi4/m/sl/10 method \T 1/ptm/m/n/10 and \T1/fi4/m/sl/10 ccaddress \T1/ptm/m/n/10 to pass to [1786] [1787] [1788] [1789] Underfull \hbox (badness 2057) in paragraph at lines 1469--1471 []\T1/ptm/m/n/10 None for \T1/fi4/m/sl/10 chooseCRANmirror()\T1/ptm/m/n/10 , th is func-tion is in-voked for its side ef-fect of up-dat-ing [1790] [1791] [1792] [1793] Underfull \hbox (badness 1661) in paragraph at lines 1704--1711 []\T1/ptm/m/n/10 logical in-di-cat-ing if the re-sult should be sim-pli-fied to an [][]\T1/fi4/m/sl/10 array[][][] \T1/ptm/m/n/10 (typ-i- Underfull \hbox (badness 1990) in paragraph at lines 1716--1719 []\T1/ptm/m/n/10 a [][]\T1/fi4/m/sl/10 list[][][] \T1/ptm/m/n/10 or [][]\T1/fi4 /m/sl/10 array[][][]\T1/ptm/m/n/10 , see the \T1/fi4/m/sl/10 simplify \T1/ptm/m /n/10 ar-gu-ment above. In the lat-ter case, the iden-tity [1794] [1795] [1796] [1797] [1798] [1799] Overfull \hbox (6.10922pt too wide) in paragraph at lines 2100--2103 []\T1/ptm/m/n/10 files end-ing `\T1/fi4/m/sl/10 .csv\T1/ptm/m/n/10 ' or `\T1/fi 4/m/sl/10 .CSV\T1/ptm/m/n/10 ' are read us-ing [][]\T1/fi4/m/sl/10 read.table[] [][](..., header = TRUE, sep = ";")\T1/ptm/m/n/10 , [1800] [1801] [1802] [1803] [1804] [1805] [1806] [1807] Underfull \hbox (badness 1430) in paragraph at lines 2629--2635 []\T1/ptm/m/n/10 The level of de-tail pro-vided dur-ing trans-fer can be set by the \T1/fi4/m/sl/10 quiet \T1/ptm/m/n/10 ar-gu-ment and the Underfull \hbox (badness 2837) in paragraph at lines 2629--2635 \T1/fi4/m/sl/10 internet.info \T1/ptm/m/n/10 op-tion. The de-tails de-pend on t he plat-form and scheme, but set-ting [1808] Underfull \hbox (badness 1231) in paragraph at lines 2673--2679 []\T1/ptm/m/n/10 Usernames and pass-words can be set for HTTP proxy trans-fers via en-vi-ron-ment vari-able [1809] [1810] [1811] [1812] [1813] Underfull \hbox (badness 1210) in paragraph at lines 3044--3051 []\T1/ptm/m/n/10 logical or ex-pres-sion; if not \T1/fi4/m/sl/10 FALSE\T1/ptm/m /n/10 , the ran-dom num-ber gen-er-a-tor state [1814] [1815] [1816] [1817] [1818] [1819] [1820]pdfTeX warning (ext4): destinat ion with the same identifier (name{Rfn.format}) has been already used, duplicat e ignored \relax l.3428 ...mat Unordered and Ordered Lists}{format} pdfTeX warning (ext4): destin ation with the same identifier (name{Rfn.format.1}) has been already used, dupl icate ignored \relax l.3428 ...mat Unordered and Ordered Lists}{format} [1821] [1822] [1823] [1824] [1825] [1826] [1827] [1828] [1829] [1830] [1831] [1832] Underfull \hbox (badness 1371) in paragraph at lines 4199--4201 []\T1/ptm/m/n/10 additional named ar-gu-ments such as \T1/fi4/m/sl/10 method \T 1/ptm/m/n/10 and \T1/fi4/m/sl/10 ccaddress \T1/ptm/m/n/10 to pass to [1833] [1834] Underfull \hbox (badness 1502) in paragraph at lines 4288--4293 []\T1/ptm/m/n/10 a char-ac-ter string to be matched in the help page `key-words '. `Key- Underfull \hbox (badness 2103) in paragraph at lines 4288--4293 \T1/ptm/m/n/10 words' are re-ally cat-e-gories: the stan-dard cat-e-gories are listed in file [1835] [1836] Underfull \hbox (badness 10000) in paragraph at lines 4452--4461 []\T1/ptm/m/n/10 One of the links on the in-dex page is the HTML pack-age in-de x, [1837] [1838] Underfull \hbox (badness 3118) in paragraph at lines 4568--4570 []\T1/ptm/m/n/10 For de-tails of the lock-ing which is done, see the sec-tion ` Lock-ing' in the help for [1839] Underfull \hbox (badness 2057) in paragraph at lines 4648--4654 \T1/ptm/m/n/10 can be source archives or bi-nary pack-age archive files (as cre -ated by [1840] Underfull \hbox (badness 1348) in paragraph at lines 4694--4699 []\T1/ptm/m/n/10 logical in-di-cat-ing to also in-stall unin-stalled pack-ages which these pack- Underfull \hbox (badness 3884) in paragraph at lines 4694--4699 \T1/ptm/m/n/10 ages de-pend on/link to/import/suggest (and so on re-cur-sively) . Not Underfull \hbox (badness 3657) in paragraph at lines 4694--4699 \T1/ptm/m/n/10 used if \T1/fi4/m/sl/10 repos = NULL\T1/ptm/m/n/10 . Can also be a char-ac-ter vec-tor, a sub-set of Underfull \hbox (badness 10000) in paragraph at lines 4707--4714 []\T1/fi4/m/sl/10 TRUE \T1/ptm/m/n/10 means (as from \T1/phv/m/n/10 R \T1/ptm/m /n/10 2.15.0) to use Underfull \hbox (badness 10000) in paragraph at lines 4707--4714 \T1/fi4/m/sl/10 c("Depends", "Imports", "LinkingTo", "Suggests") \T1/ptm/m/n/10 for \T1/fi4/m/sl/10 pkgs \T1/ptm/m/n/10 and Underfull \hbox (badness 2103) in paragraph at lines 4707--4714 \T1/fi4/m/sl/10 c("Depends", "Imports", "LinkingTo") \T1/ptm/m/n/10 for added d e-pen-den-cies: this Underfull \hbox (badness 10000) in paragraph at lines 4748--4751 []\T1/ptm/m/n/10 (not used on Win-dows) anal-o-gous to \T1/fi4/m/sl/10 configur e.args \T1/ptm/m/n/10 for flag [1841] Underfull \hbox (badness 10000) in paragraph at lines 4772--4775 []\T1/ptm/m/n/10 an op-tional char-ac-ter vec-tor of ad-di-tional op-tion(s) to be Underfull \hbox (badness 10000) in paragraph at lines 4772--4775 \T1/ptm/m/n/10 passed to \T1/fi4/m/sl/10 R CMD INSTALL \T1/ptm/m/n/10 for a sou rce pack-age in-stall. 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[1842] Underfull \hbox (badness 10000) in paragraph at lines 4883--4888 [][][]\T1/fi4/m/sl/10 update.packages[][][]\T1/ptm/m/n/10 , [][]\T1/fi4/m/sl/10 available.packages[][][]\T1/ptm/m/n/10 , [][]\T1/fi4/m/sl/10 download.packages [][][]\T1/ptm/m/n/10 , [][]\T1/fi4/m/sl/10 installed.packages[][][]\T1/ptm/m/n/ 10 , [1843] [1844] [1845] [1846] [1847] [1848] [1849] [1850] [1851] [1852] [1853] [1854] [1855] [1856] [1857] [1858] [1859] [1860] Underfull \hbox (badness 10000) in paragraph at lines 6009--6011 []\T1/fi4/m/sl/10 packageVersion() \T1/ptm/m/n/10 is a con-ve-nience short-cut, al-low-ing things like Underfull \hbox (badness 2310) in paragraph at lines 6014--6019 []\T1/ptm/m/n/10 If a `\T1/fi4/m/sl/10 DESCRIPTION\T1/ptm/m/n/10 ' file for the given pack-age is found and can suc-cess-fully be read, [1861] [1862] Underfull \hbox (badness 10000) in paragraph at lines 6120--6123 []\T1/ptm/m/n/10 a data frame with columns as the \T1/ptm/m/it/10 ma-trix \T1/p tm/m/n/10 re-turned by Underfull \hbox (badness 10000) in paragraph at lines 6120--6123 [][]\T1/fi4/m/sl/10 available.packages[][][] \T1/ptm/m/n/10 plus \T1/fi4/m/sl/1 0 "Status"\T1/ptm/m/n/10 , a fac-tor with lev-els [1863] [1864] [1865] [1866] [1867] [1868] [1869] [1870] [1871] [1872] [1873] [1874] [1875] [1876] [1877] Underfull \hbox (badness 1163) in paragraph at lines 7106--7109 []\T1/ptm/m/n/10 the to-ken that was (or, is to be) com-pleted, as set by the l ast call to [1878] [1879] Underfull \hbox (badness 1097) in paragraph at lines 7257--7260 []\T1/ptm/m/n/10 The name \T1/fi4/m/sl/10 "clipboard" \T1/ptm/m/n/10 may also b e used on Win-dows, in which case [1880] [1881] Underfull \hbox (badness 3000) in paragraph at lines 7385--7390 [][][]\T1/fi4/m/sl/10 scan[][][]\T1/ptm/m/n/10 , [][]\T1/fi4/m/sl/10 type.conve rt[][][]\T1/ptm/m/n/10 , [][]\T1/fi4/m/sl/10 read.fwf[][][] \T1/ptm/m/n/10 for read-ing \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ixed \T1/ptm/m/it/10 w\T1/ptm/m/n/10 i dth \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ormatted in-put; [][]\T1/fi4/m/sl/10 read.t able[][][]\T1/ptm/m/n/10 ; [1882] [1883] [1884] [1885] [1886] [1887] [1888] [1889] [1890] Underfull \hbox (badness 2134) in paragraph at lines 7944--7949 [][][]\T1/fi4/m/sl/10 scan[][][]\T1/ptm/m/n/10 , [][]\T1/fi4/m/sl/10 type.conve rt[][][]\T1/ptm/m/n/10 , [][]\T1/fi4/m/sl/10 read.fwf[][][] \T1/ptm/m/n/10 for read-ing \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ixed \T1/ptm/m/it/10 w\T1/ptm/m/n/10 i dth \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ormatted in-put; [][]\T1/fi4/m/sl/10 write. table[][][]\T1/ptm/m/n/10 ; [1891] [1892] [1893] [1894] [1895] [1896] [1897] [1898] [1899] [1900] [1901] [1902] [1903] [1904] [1905] Underfull \hbox (badness 10000) in paragraph at lines 8862--8864 [][][]$\T1/fi4/m/sl/10 http : / / en . wikipedia . org / wiki / Ctags$[][]\T1/p tm/m/n/10 , [][]$\T1/fi4/m/sl/10 http : / / www . gnu . org / software / emacs / [1906] [1907] [1908] Underfull \hbox (badness 10000) in paragraph at lines 9040--9044 []\T1/ptm/m/n/10 The de-fault for \T1/fi4/m/sl/10 stylepath \T1/ptm/m/n/10 is n ow taken from the en-vi-ron-ment vari-able Underfull \hbox (badness 10000) in paragraph at lines 9071--9077 []\T1/ptm/m/n/10 If you wish to over-ride this de-fault be-hav-ior en-tirely, y ou can add a [1909] [1910] Underfull \hbox (badness 2096) in paragraph at lines 9185--9188 []\T1/ptm/m/n/10 logical (\T1/fi4/m/sl/10 FALSE\T1/ptm/m/n/10 ), in-di-cat-ing whether PNG fig-ures should be gen-er-ated. 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Ob- [1927] [1928] [1929] Underfull \hbox (badness 10000) in paragraph at lines 10434--10437 [][][]$\T1/fi4/m/sl/10 http : / / en . wikipedia . org / wiki / Tar _ (file _ f ormat)$[][]\T1/ptm/m/n/10 , [][]$\T1/fi4/m/sl/10 http : / / pubs . opengroup . org / Underfull \hbox (badness 2245) in paragraph at lines 10434--10437 \T1/fi4/m/sl/10 onlinepubs / 9699919799 / utilities / pax . html # tag _ 20 _ 9 2 _ 13 _ 06$[][] \T1/ptm/m/n/10 for the way the POSIX [1930] [1931] [1932] [1933] [1934] [1935] [1936] [1937] Underfull \hbox (badness 10000) in paragraph at lines 10928--10930 []\T1/ptm/m/n/10 Arguments such as \T1/fi4/m/sl/10 destdir \T1/ptm/m/n/10 and \ T1/fi4/m/sl/10 dependencies \T1/ptm/m/n/10 to be passed to Underfull \hbox (badness 1052) in paragraph at lines 10931--10933 []\T1/ptm/m/n/10 character, in-di-cat-ing the type of pack-age to down-load and in-stall. See [1938] Underfull \hbox (badness 10000) in paragraph at lines 10961--10966 []\T1/ptm/m/n/10 For how the list of suit-able avail-able pack-ages is de-ter-m ined Underfull \hbox (badness 10000) in paragraph at lines 10961--10966 \T1/ptm/m/n/10 see [][]\T1/fi4/m/sl/10 available.packages[][][]\T1/ptm/m/n/10 . \T1/fi4/m/sl/10 available = NULL \T1/ptm/m/n/10 make a call to Underfull \hbox (badness 6961) in paragraph at lines 10961--10966 \T1/fi4/m/sl/10 available.packages(contriburl = contriburl, method = method) \T 1/ptm/m/n/10 and hence by de- Underfull \hbox (badness 10000) in paragraph at lines 10990--10993 [][][]\T1/fi4/m/sl/10 install.packages[][][]\T1/ptm/m/n/10 , [][]\T1/fi4/m/sl/1 0 available.packages[][][]\T1/ptm/m/n/10 , [][]\T1/fi4/m/sl/10 download.package s[][][]\T1/ptm/m/n/10 , [][]\T1/fi4/m/sl/10 installed.packages[][][]\T1/ptm/m/n /10 , [1939] [1940] Underfull \hbox (badness 10000) in paragraph at lines 11083--11088 []\T1/ptm/m/n/10 Characters in a URL other than the En-glish al-phanu-meric cha r-ac-ters and [1941] [1942] [1943] [1944] [1945] Underfull \hbox (badness 10000) in paragraph at lines 11401--11403 []\T1/ptm/m/n/10 To write a Unix-style file on Win-dows, use a bi-nary con-nec- tion e.g. [1946] [1947] [1948]) No file refman.ind. 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LaTeX Font Warning: Some font shapes were not available, defaults substituted. ) (see the transcript file for additional information)pdfTeX warning (dest): name {Rfn.write.matrix} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.dgTMatrix} has been referenced but does not exi st, replaced by a fixed one pdfTeX warning (dest): name{Rfn.sparseMatrix} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.glht} has been referenced but does not exist, r eplaced by a fixed one pdfTeX warning (dest): name{Rfn.survreg} has been referenced but does not exist , replaced by a fixed one pdfTeX warning (dest): name{Rfn.coxph} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.stepAIC} has been referenced but does not exist , replaced by a fixed one pdfTeX warning (dest): name{Rfn.rinvGauss} has been referenced but does not exi st, replaced by a fixed one pdfTeX 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Transcript written on refman.log. This is makeindex, version 2.15 [TeX Live 2012] (kpathsea + Thai support). Scanning input file refman.idx................done (12042 entries accepted, 31 rejected). Sorting entries.............................................................................................................................done (181890 comparisons). Generating output file refman.ind...............done (12034 lines written, 49 warnings). Output written in refman.ind. Transcript written in refman.ilg. This is pdfTeX, Version 3.1415926-2.4-1.40.13 (TeX Live 2012/Debian) restricted \write18 enabled. entering extended mode (./refman.tex LaTeX2e <2011/06/27> Babel and hyphenation patterns for english, dumylang, nohyphenation, lo aded. 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[1] [2] [3] [4] [5] [6] [7] [8] [9] [10] [11] [12] [13] [14] [15] [16] [17] [18] [19] [20] [21] [22] [23] [24] [25] [26] [27]) [28] (./base-pkg.tex Chapter 1. [1] Underfull \hbox (badness 10000) in paragraph at lines 77--85 []\T1/ptm/m/n/10 a small pos-i-tive floating-point num-ber \T1/fi4/bx/n/10 x \T 1/ptm/m/n/10 such that \T1/fi4/bx/n/10 1 - x != 1\T1/ptm/m/n/10 . Underfull \hbox (badness 10000) in paragraph at lines 77--85 \T1/ptm/m/n/10 It equals \T1/fi4/bx/n/10 double.base ^ double.neg.ulp.digits \T 1/ptm/m/n/10 if Underfull \hbox (badness 10000) in paragraph at lines 77--85 \T1/fi4/bx/n/10 double.base \T1/ptm/m/n/10 is 2 or \T1/fi4/bx/n/10 double.round ing \T1/ptm/m/n/10 is 0; oth-er-wise, it is Underfull \hbox (badness 1668) in paragraph at lines 88--95 []\T1/ptm/m/n/10 the largest nor-mal-ized floating-point num-ber. Typ-i-cally, it is equal to [2] [3] Underfull \hbox (badness 1178) in paragraph at lines 224--228 []\T1/ptm/m/n/10 character string, the pre-ferred set-ting for [][]\T1/fi4/bx/n /10 options[][][]("pkgType")\T1/ptm/m/n/10 . Val-ues [4] [5] [6] [7] Underfull \hbox (badness 2556) in paragraph at lines 431--437 []\T1/ptm/m/n/10 a nu-meric vec-tor or list with names par-tially match-ing `\T 1/fi4/bx/n/10 insertions\T1/ptm/m/n/10 ', [8] [9] [10] [11] [12] [13] [14] [15] [16] Underfull \hbox (badness 2671) in paragraph at lines 982--985 []\T1/ptm/m/n/10 If the calls to \T1/fi4/bx/n/10 FUN \T1/ptm/m/n/10 re-turn vec -tors of dif-fer-ent lengths, \T1/fi4/bx/n/10 apply \T1/ptm/m/n/10 re-turns a l ist of length [17] [18] [19] Underfull \hbox (badness 10000) in paragraph at lines 1183--1189 []\T1/fi4/bx/n/10 %% \T1/ptm/m/n/10 in-di-cates \T1/fi4/bx/n/10 x mod y \T1/ptm /m/n/10 and \T1/fi4/bx/n/10 %/% \T1/ptm/m/n/10 in-di-cates in-te-ger di-vi-sion . It is guar-an-teed that Underfull \hbox (badness 3323) in paragraph at lines 1183--1189 \T1/fi4/bx/n/10 x == (x %% y) + y * ( x %/% y ) \T1/ptm/m/n/10 (up to round-i ng er-ror) un-less \T1/fi4/bx/n/10 y == 0 \T1/ptm/m/n/10 where the [20] [21] [22] [23] [24] [25] [26] [27] [28] [29] Underfull \hbox (badness 10000) in paragraph at lines 1851--1853 []\T1/ptm/m/n/10 a date-time ob-ject, or some-thing which can be co-erced by [30] [31] [32] [33] [34] [35] [36] [37] [38] [39] [40] [41] Underfull \hbox (badness 10000) in paragraph at lines 2584--2587 [42] [43] [44] [45] Underfull \vbox (badness 10000) has occurred while \output is active [46] [47] [48] [49] [50] [51] Underfull \hbox (badness 10000) in paragraph at lines 3167--3169 []\T1/ptm/m/n/10 The num-ber of lines printed for the de-parsed call can be lim -ited by set-ting [52] [53] [54] [55] [56] [57] [58] [59] Underfull \hbox (badness 2173) in paragraph at lines 3714--3719 []\T1/ptm/m/n/10 Are the \T1/fi4/bx/n/10 R.app \T1/ptm/m/n/10 GUI com-po-nents and the [][]\T1/fi4/bx/n/10 quartz[][][] \T1/ptm/m/n/10 func-tion op-er-a-tiona l? Underfull \hbox (badness 3281) in paragraph at lines 3714--3719 \T1/ptm/m/n/10 Only on some Mac OS X builds. Note that this is dis-tinct from [60] Underfull \hbox (badness 2970) in paragraph at lines 3739--3745 []\T1/ptm/m/n/10 is there sup-port the [][]\T1/fi4/bx/n/10 svg[][][]\T1/ptm/m/n /10 , [][]\T1/fi4/bx/n/10 cairo_pdf[][][] \T1/ptm/m/n/10 and [][]\T1/fi4/bx/n/1 0 cairo_ps[][][] \T1/ptm/m/n/10 de-vices, and for [61] [62] [63] Underfull \hbox (badness 10000) in paragraph at lines 3911--3916 \T1/fi4/bx/n/10 deparse.level = 0 \T1/ptm/m/n/10 con-structs no la-bels; the de -fault, Underfull \hbox (badness 4391) in paragraph at lines 3911--3916 \T1/fi4/bx/n/10 deparse.level = 1 or 2 \T1/ptm/m/n/10 con-structs la-bels from the ar-gu-ment names, [64] [65] [66] [67] [68] Underfull \hbox (badness 2521) in paragraph at lines 4295--4297 []\T1/ptm/m/n/10 a char-ac-ter vec-tor, or an ob-ject that can be co-erced to c har-ac-ter by [69] [70] [71] [72] [73] [74] [75] [76] [77] [78] [79] [80] [81] [82] [83] [84] [85] [86] [87] [88] [89] [90] [91] Underfull \hbox (badness 10000) in paragraph at lines 5797--5800 []\T1/ptm/m/n/10 A note on `\T1/fi4/bx/n/10 file://\T1/ptm/m/n/10 ' URLs. The m ost gen-eral form (from RFC1738) is [92] [93] [94] Underfull \hbox (badness 2790) in paragraph at lines 6005--6012 []\T1/fi4/bx/n/10 file \T1/ptm/m/n/10 can be used with \T1/fi4/bx/n/10 descript ion = "clipboard" \T1/ptm/m/n/10 in mode \T1/fi4/bx/n/10 "r" \T1/ptm/m/n/10 onl y. This reads Underfull \hbox (badness 3471) in paragraph at lines 6005--6012 \T1/ptm/m/n/10 the X11 pri-mary se-lec-tion (see [][]$\T1/fi4/bx/n/10 http : / / standards . freedesktop . org / clipboards-[]spec / [95] [96] Underfull \vbox (badness 10000) has occurred while \output is active [97] [98] [99] [100] [101] [102] [103] [104] [105] Underfull \hbox (badness 4595) in paragraph at lines 6719--6722 []\T1/ptm/m/n/10 logical, in-di-cat-ing if an `x[i]' equal to the low-est (or h igh-est, for [106] Underfull \hbox (badness 2351) in paragraph at lines 6769--6772 [][][]\T1/fi4/bx/n/10 split[][][] \T1/ptm/m/n/10 for split-ting a vari-able ac- cord-ing to a group fac-tor; [][]\T1/fi4/bx/n/10 factor[][][]\T1/ptm/m/n/10 , [ ][]\T1/fi4/bx/n/10 tabulate[][][]\T1/ptm/m/n/10 , [][]\T1/fi4/bx/n/10 table[][] []\T1/ptm/m/n/10 , [107] [108] [109] [110] Underfull \hbox (badness 10000) in paragraph at lines 7002--7013 []\T1/fi4/bx/n/10 data.frame \T1/ptm/m/n/10 con-verts each of its ar-gu-ments t o a data frame by call-ing [111] Underfull \hbox (badness 4479) in paragraph at lines 7073--7082 [][][]\T1/fi4/bx/n/10 I[][][]\T1/ptm/m/n/10 , [][]\T1/fi4/bx/n/10 plot.data.fra me[][][]\T1/ptm/m/n/10 , [][]\T1/fi4/bx/n/10 print.data.frame[][][]\T1/ptm/m/n/ 10 , [][]\T1/fi4/bx/n/10 row.names[][][]\T1/ptm/m/n/10 , [][]\T1/fi4/bx/n/10 na mes[][][] \T1/ptm/m/n/10 (for the col-umn names), Underfull \hbox (badness 2469) in paragraph at lines 7073--7082 [][]\T1/fi4/bx/n/10 [.data.frame[][][] \T1/ptm/m/n/10 for sub-set-ting meth-ods , [][]\T1/fi4/bx/n/10 Math.data.frame[][][] \T1/ptm/m/n/10 etc, about \T1/ptm/m /it/10 Group \T1/ptm/m/n/10 meth-ods for [112] [113] [114] [115] [116] [117] Underfull \hbox (badness 10000) in paragraph at lines 7482--7494 \T1/fi4/bx/n/10 23:59:59", format = "%Y-%m-%d %H:%M:%S", tz = "UTC") \T1/ptm/m/ n/10 may give \T1/fi4/bx/n/10 NA\T1/ptm/m/n/10 , and hence Underfull \hbox (badness 6220) in paragraph at lines 7482--7494 \T1/fi4/bx/n/10 as.POSIXct("1969-12-31 23:59:59", tz = "UTC") \T1/ptm/m/n/10 w ill give \T1/fi4/bx/n/10 "1969-12-31 23:59:00"\T1/ptm/m/n/10 . [118] [119] [120] [121] [122] [123] [124] [125] [126] [127] [128] [129] [130] [131] [132] [133] [134] Underfull \hbox (badness 1394) in paragraph at lines 8594--8599 []\T1/ptm/m/n/10 Subtraction of date-time ob-jects gives an ob-ject of this cla ss, by call-ing \T1/fi4/bx/n/10 difftime \T1/ptm/m/n/10 with [135] [136] [137] [138] [139] [140] [141] Underfull \hbox (badness 10000) in paragraph at lines 9006--9010 [][][]$\T1/fi4/bx/n/10 http : / / en . wikipedia . org / wiki / IEEE _ 754-[]19 85$[][]\T1/ptm/m/n/10 , [][]$\T1/fi4/bx/n/10 http : / / en . wikipedia . org / wiki / IEEE _ [142] [143] [144] [145] [146] [147] Underfull \hbox (badness 2150) in paragraph at lines 9389--9392 []\T1/ptm/m/n/10 logical in-di-cat-ing if du-pli-ca-tion should be con-sid-ered from the re-verse Underfull \hbox (badness 6396) in paragraph at lines 9402--9410 []\T1/ptm/m/n/10 For the de-fault meth-ods, and when-ever there are equiv-a-len t method def-i-ni-tions for [148] [149] [150] [151] [152] [153] [154] [155] [156] [157] [158] [159] [160] [161] [162] [163] Underfull \hbox (badness 4569) in paragraph at lines 10467--10471 []\T1/ptm/m/n/10 When eval-u-at-ing ex-pres-sions in a data frame that has been passed as an ar-gu-ment Underfull \hbox (badness 2401) in paragraph at lines 10467--10471 \T1/ptm/m/n/10 to a func-tion, the rel-e-vant en-clo-sure is of-ten the caller' s en-vi-ron-ment, i.e., one needs [164] [165] [166] [167] [168] [169] [170] [171] Underfull \hbox (badness 2698) in paragraph at lines 11007--11016 []\T1/ptm/m/n/10 Both \T1/fi4/bx/n/10 $ \T1/ptm/m/n/10 and \T1/fi4/bx/n/10 [[ \ T1/ptm/m/n/10 can be ap-plied to en-vi-ron-ments. Only char-ac-ter in-dices are al-lowed Underfull \hbox (badness 4341) in paragraph at lines 11007--11016 \T1/ptm/m/n/10 and no par-tial match-ing is done. The se-man-tics of these op-e r-a-tions are those of [172] [173] [174] [175] [176] [177] [178] [179] [180] [181] [182] [183] [184] [185] Underfull \hbox (badness 2253) in paragraph at lines 11938--11940 []\T1/ptm/m/n/10 character vec-tors con-tain-ing file paths. Tilde-expansion is done: see [186] Underfull \hbox (badness 1565) in paragraph at lines 11999--12003 [][][]\T1/fi4/bx/n/10 Sys.readlink[][][] \T1/ptm/m/n/10 to find out about sym-b olic links, [][]\T1/fi4/bx/n/10 files[][][]\T1/ptm/m/n/10 , [][]\T1/fi4/bx/n/10 file.access[][][]\T1/ptm/m/n/10 , [][]\T1/fi4/bx/n/10 list.files[][][]\T1/ptm/ m/n/10 , and [187] Underfull \hbox (badness 10000) in paragraph at lines 12042--12044 []\T1/ptm/m/n/10 It can also be used for en-vi-ron-ment paths such as \T1/fi4/b x/n/10 PATH \T1/ptm/m/n/10 and \T1/fi4/bx/n/10 R_LIBS \T1/ptm/m/n/10 with [188] Underfull \hbox (badness 1292) in paragraph at lines 12105--12113 \T1/ptm/m/n/10 ing spe-cial pager names be-ing in-ter-cepted by lower-level cod e (such as \T1/fi4/bx/n/10 "internal" \T1/ptm/m/n/10 and [189] Underfull \hbox (badness 1466) in paragraph at lines 12173--12176 []\T1/ptm/m/n/10 character vec-tors, con-tain-ing file names or paths. For \T1/ fi4/bx/n/10 file.copy \T1/ptm/m/n/10 and [190] Underfull \hbox (badness 10000) in paragraph at lines 12272--12276 [][][]\T1/fi4/bx/n/10 file.info[][][]\T1/ptm/m/n/10 , [][]\T1/fi4/bx/n/10 file. access[][][]\T1/ptm/m/n/10 , [][]\T1/fi4/bx/n/10 file.path[][][]\T1/ptm/m/n/10 , [][]\T1/fi4/bx/n/10 file.show[][][]\T1/ptm/m/n/10 , [][]\T1/fi4/bx/n/10 list. files[][][]\T1/ptm/m/n/10 , [][]\T1/fi4/bx/n/10 unlink[][][]\T1/ptm/m/n/10 , [] []\T1/fi4/bx/n/10 basename[][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 12283--12286 [][][]$\T1/fi4/bx/n/10 http : / / en . wikipedia . org / wiki / Hard _ link$[][ ] \T1/ptm/m/n/10 and [][]$\T1/fi4/bx/n/10 http : / / en . wikipedia . org / wik i / [191] [192] [193] [194] Underfull \hbox (badness 3108) in paragraph at lines 12500--12507 []\T1/ptm/m/n/10 Find the in-dices of \T1/fi4/bx/n/10 x \T1/ptm/m/n/10 in \T1/f i4/bx/n/10 vec\T1/ptm/m/n/10 , where \T1/fi4/bx/n/10 vec \T1/ptm/m/n/10 must be sorted (non-decreasingly); i.e., if Underfull \hbox (badness 3965) in paragraph at lines 12537--12541 []\T1/ptm/m/n/10 This is the same com-pu-ta-tion as for the em-pir-i-cal dis-tr i-bu-tion func-tion, and in-deed, [195] [196] [197] [198] [199] [200] [201] [202] [203] [204] [205] Underfull \hbox (badness 4429) in paragraph at lines 13229--13232 []\T1/ptm/m/n/10 an atomic nu-mer-i-cal or char-ac-ter ob-ject, pos-si-bly [][] \T1/fi4/bx/n/10 complex[][][] \T1/ptm/m/n/10 only for [206] Underfull \hbox (badness 10000) in paragraph at lines 13315--13317 []\T1/ptm/m/n/10 If you set \T1/fi4/bx/n/10 format \T1/ptm/m/n/10 it over-rides the set-ting of \T1/fi4/bx/n/10 mode\T1/ptm/m/n/10 , so Underfull \hbox (badness 10000) in paragraph at lines 13321--13325 []\T1/fi4/bx/n/10 formatC \T1/ptm/m/n/10 does not nec-es-sar-ily align the num- bers on the dec-i-mal point, so [207] [208] [209] [210] [211] [212] [213] [214] [215] [216] [217] [218] [219] Underfull \hbox (badness 1092) in paragraph at lines 14074--14079 [][]\T1/fi4/bx/n/10 library.dynam[][][]\T1/ptm/m/n/10 , or can be found af-ter the DLL has been loaded us-ing [220] [221] [222] Underfull \hbox (badness 6741) in paragraph at lines 14320--14324 \T1/ptm/m/n/10 Additionally, the list will have an ad-di-tional class, be-ing \ T1/fi4/bx/n/10 CRoutine\T1/ptm/m/n/10 , \T1/fi4/bx/n/10 CallRoutine\T1/ptm/m/n/ 10 , [223] [224] [225] [226] [227] Underfull \hbox (badness 1867) in paragraph at lines 14627--14634 []\T1/ptm/m/n/10 character string con-tain-ing a [][]reg-u-lar ex-pres-sion[][] [] (or char-ac-ter string for [228] [229] [230] [231] Underfull \vbox (badness 10000) has occurred while \output is active [232] [233] Underfull \hbox (badness 3679) in paragraph at lines 14999--15001 []\T1/ptm/m/n/10 The TRE li-brary of Ville Lau-rikari ([][]$\T1/fi4/bx/n/10 htt p : / / laurikari . net / tre/$[][]\T1/ptm/m/n/10 ) is used ex-cept for [234] [235] [236] [237] [238] [239] [240] Underfull \hbox (badness 1478) in paragraph at lines 15467--15470 []\T1/ptm/m/n/10 A char-ac-ter vec-tor, or an ob-ject to be con-verted to a cha r-ac-ter vec-tor [241] [242] [243] [244] [245] [246] [247] Overfull \hbox (17.37834pt too wide) in paragraph at lines 15902--15905 []\T1/ptm/m/n/10 Sometimes it is bet-ter to use a con-struc-tion such as \T1/fi 4/bx/n/10 (tmp <- yes; tmp[!test] <- no[!test]; tmp)\T1/ptm/m/n/10 , [248] [249] [250] Underfull \hbox (badness 1442) in paragraph at lines 16138--16140 []\T1/ptm/m/n/10 the choice of de-fault graph-ics de-vice launched when needed and by [][]\T1/fi4/bx/n/10 dev.new[][][]\T1/ptm/m/n/10 : see [251] Underfull \hbox (badness 2452) in paragraph at lines 16230--16246 [][][]\T1/fi4/bx/n/10 as.character[][][]\T1/ptm/m/n/10 , [][]\T1/fi4/bx/n/10 as .complex[][][]\T1/ptm/m/n/10 , [][]\T1/fi4/bx/n/10 as.double[][][]\T1/ptm/m/n/1 0 , [][]\T1/fi4/bx/n/10 as.integer[][][]\T1/ptm/m/n/10 , [][]\T1/fi4/bx/n/10 as .logical[][][]\T1/ptm/m/n/10 , [][]\T1/fi4/bx/n/10 as.raw[][][]\T1/ptm/m/n/10 , [][]\T1/fi4/bx/n/10 as.vector[][][]\T1/ptm/m/n/10 , [252] [253] [254] [255] [256] [257] [258] [259] [260] [261] [262] Underfull \hbox (badness 4739) in paragraph at lines 16873--16875 []\T1/ptm/m/n/10 numeric scalar >= 0. Smaller dif-fer-ences are not con-sid-ere d, see [263] [264] [265] [266] [267] [268] Underfull \hbox (badness 1642) in paragraph at lines 17254--17259 []\T1/fi4/bx/n/10 sapply \T1/ptm/m/n/10 is a user-friendly ver-sion and wrap-pe r of \T1/fi4/bx/n/10 lapply \T1/ptm/m/n/10 by de-fault re-turn-ing a vec-tor, [269] [270] [271] [272] [273] [274] [275] Underfull \hbox (badness 10000) in paragraph at lines 17728--17732 []\T1/ptm/m/n/10 By de-fault \T1/fi4/bx/n/10 R_LIBS \T1/ptm/m/n/10 is un-set, a nd \T1/fi4/bx/n/10 R_LIBS_USER \T1/ptm/m/n/10 is set to di-rec-tory Underfull \hbox (badness 2460) in paragraph at lines 17728--17732 \T1/ptm/m/n/10 `\T1/fi4/bx/n/10 R/\T1/ptm/m/sl/10 R.version$platform\T1/fi4/bx/ n/10 -library/\T1/ptm/m/sl/10 x.y\T1/ptm/m/n/10 ' of the home di-rec-tory (or ` \T1/fi4/bx/n/10 Library/R/\T1/ptm/m/sl/10 x.y\T1/fi4/bx/n/10 /library\T1/ptm/m/ n/10 ' [276] [277] [278] Underfull \hbox (badness 1014) in paragraph at lines 17893--17898 []\T1/ptm/m/n/10 Normally \T1/fi4/bx/n/10 library \T1/ptm/m/n/10 re-turns (in-v is-i-bly) the list of at-tached pack-ages, but \T1/fi4/bx/n/10 TRUE \T1/ptm/m/n /10 or \T1/fi4/bx/n/10 FALSE \T1/ptm/m/n/10 if [279] [280] [281] [282] [283] [284] [285] [286] [287] [288] [289] Underfull \hbox (badness 1264) in paragraph at lines 18584--18589 []\T1/ptm/m/n/10 character string. The fol-low-ing cat-e-gories should al-ways be sup-ported: [290] [291] [292] [293] [294] [295] Underfull \hbox (badness 4954) in paragraph at lines 18996--19002 []\T1/fi4/bx/n/10 as.logical \T1/ptm/m/n/10 at-tempts to co-erce its ar-gu-ment to be of log-i-cal type. For [][]\T1/fi4/bx/n/10 factor[][][]\T1/ptm/m/n/10 s, Underfull \hbox (badness 10000) in paragraph at lines 18996--19002 \T1/ptm/m/n/10 this uses the [][]\T1/fi4/bx/n/10 levels[][][] \T1/ptm/m/n/10 (l a-bels). Like [][]\T1/fi4/bx/n/10 as.vector[][][] \T1/ptm/m/n/10 it strips at-t ributes in-clud-ing Underfull \hbox (badness 10000) in paragraph at lines 18996--19002 \T1/ptm/m/n/10 names. Char-ac-ter strings \T1/fi4/bx/n/10 c("T", "TRUE", "True" , "true") \T1/ptm/m/n/10 are re-garded as true, [296] [297] [298] [299] Underfull \hbox (badness 10000) in paragraph at lines 19241--19243 []\T1/ptm/m/n/10 The al-go-rithm used by \T1/fi4/bx/n/10 make.unique \T1/ptm/m/ n/10 has the prop-erty that [300] [301] [302] [303] [304] [305] [306] [307] [308] [309] [310] [311] [312] [313] [314] [315] Underfull \hbox (badness 1655) in paragraph at lines 20219--20225 [][][]$\T1/fi4/bx/n/10 http : / / en . wikipedia . org / wiki / Data _ compress ion$[][] \T1/ptm/m/n/10 for back-ground on data com-pres-sion, [316] [317] Underfull \hbox (badness 1484) in paragraph at lines 20368--20376 []\T1/ptm/m/n/10 The address-space limit is 2Gb un-der 32-bit Win-dows un-less the OS's de-fault has been [318] [319] [320] [321] Underfull \hbox (badness 2790) in paragraph at lines 20622--20625 []\T1/fi4/bx/n/10 packageStartupMessage \T1/ptm/m/n/10 is a vari-ant whose mes- sages can be sup-pressed sep-a-rately by Underfull \hbox (badness 1571) in paragraph at lines 20622--20625 \T1/fi4/bx/n/10 suppressPackageStartupMessages\T1/ptm/m/n/10 . (They are still mes-sages, so can be sup-pressed by [322] [323] [324] [325] [326] [327] [328] Underfull \hbox (badness 10000) in paragraph at lines 21059--21062 []\T1/ptm/m/n/10 It is pos-si-ble to up-date just part of the names at-tribute via the gen-eral rules: Underfull \hbox (badness 10000) in paragraph at lines 21059--21062 \T1/ptm/m/n/10 see the ex-am-ples. This works be-cause the ex-pres-sion there i s eval-u-ated as [329] [330] [331] [332] [333] [334] [335] [336] [337] [338] [339] [340] [341] [342] [343] [344] Underfull \hbox (badness 1199) in paragraph at lines 22082--22088 []\T1/ptm/m/n/10 The de-fault method for \T1/fi4/bx/n/10 is.numeric \T1/ptm/m/n /10 re-turns \T1/fi4/bx/n/10 TRUE \T1/ptm/m/n/10 if its ar-gu-ment is of [][]mo de[][][] \T1/fi4/bx/n/10 "numeric" Underfull \hbox (badness 2027) in paragraph at lines 22082--22088 \T1/ptm/m/n/10 ([][]type[][][] \T1/fi4/bx/n/10 "double" \T1/ptm/m/n/10 or type \T1/fi4/bx/n/10 "integer"\T1/ptm/m/n/10 ) and not a fac-tor, and \T1/fi4/bx/n/1 0 FALSE \T1/ptm/m/n/10 oth-er-wise. That is, [345] [346] [347] [348] [349] [350] [351] Underfull \hbox (badness 1038) in paragraph at lines 22610--22619 []\T1/ptm/m/n/10 the pack-ages that are at-tached by de-fault when \T1/phv/m/n/ 10 R \T1/ptm/m/n/10 starts up. Ini-tially Underfull \hbox (badness 10000) in paragraph at lines 22610--22619 \T1/fi4/bx/n/10 c("datasets", "utils", "grDevices", "graphics", "stats", "methods")\T1/ptm/m/n/10 . [352] Underfull \hbox (badness 6220) in paragraph at lines 22634--22636 []\T1/ptm/m/n/10 Extra command-line ar-gu-ment(s) for non-default meth-ods: see Underfull \hbox (badness 10000) in paragraph at lines 22696--22705 []\T1/ptm/m/n/10 the com-mand used for dis-play-ing text files by [][]\T1/fi4/b x/n/10 file.show[][][]\T1/ptm/m/n/10 . De-faults to Underfull \hbox (badness 2600) in paragraph at lines 22696--22705 \T1/ptm/m/n/10 `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/fi4/bx/n/10 /bin/pager\T1/p tm/m/n/10 ', which se-lects a pager via the \T1/fi4/bx/n/10 PAGER \T1/ptm/m/n/1 0 en-vi-ron-ment vari-able Underfull \hbox (badness 2142) in paragraph at lines 22706--22712 []\T1/ptm/m/n/10 the de-fault pa-per for-mat used by [][]\T1/fi4/bx/n/10 postsc ript[][][]\T1/ptm/m/n/10 ; set by en-vi-ron-ment vari-able [353] Underfull \hbox (badness 1968) in paragraph at lines 22719--22724 []\T1/ptm/m/n/10 the com-mand used by [][]\T1/fi4/bx/n/10 postscript[][][] \T1/ ptm/m/n/10 for print-ing; set by en-vi-ron-ment vari-able Underfull \hbox (badness 10000) in paragraph at lines 22729--22738 []\T1/ptm/m/n/10 Used for the readline-based ter-mi-nal in-ter-face. De-fault v alue [354] [355] [356] Underfull \hbox (badness 10000) in paragraph at lines 22970--22976 []\T1/ptm/m/n/10 The URL of a Bio-con-duc-tor mir-ror for use by [][]\T1/fi4/bx /n/10 setRepositories[][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 22970--22976 \T1/ptm/m/n/10 e.g. the de-fault `\T1/fi4/bx/n/10 "http://www.bioconductor.org" \T1/ptm/m/n/10 ' or the Eu-ro-pean mir- Underfull \hbox (badness 10000) in paragraph at lines 22970--22976 \T1/ptm/m/n/10 ror `\T1/fi4/bx/n/10 "http://bioconductor.statistik.tu-dortmund. de"\T1/ptm/m/n/10 '. Can be set by Underfull \hbox (badness 10000) in paragraph at lines 22982--22985 []\T1/ptm/m/n/10 default Cc: ad-dress used by [][]\T1/fi4/bx/n/10 create.post[] [][] \T1/ptm/m/n/10 (and hence[][]\T1/fi4/bx/n/10 bug.report[][][] \T1/ptm/m/n/ 10 and Underfull \hbox (badness 2689) in paragraph at lines 23003--23005 []\T1/ptm/m/n/10 optional in-te-ger vec-tor for set-ting ports of the in-ter-na l HTTP server, see Underfull \hbox (badness 7203) in paragraph at lines 23031--23034 []\T1/ptm/m/n/10 default email-ing method used by [][]\T1/fi4/bx/n/10 create.po st[][][] \T1/ptm/m/n/10 and hence [][]\T1/fi4/bx/n/10 bug.report[][][] \T1/ptm/ m/n/10 and Underfull \hbox (badness 2680) in paragraph at lines 23041--23047 \T1/ptm/m/n/10 and \T1/fi4/bx/n/10 "mac.binary.leopard"\T1/ptm/m/n/10 . Win-dow s uses \T1/fi4/bx/n/10 "win.binary"\T1/ptm/m/n/10 . (\T1/fi4/bx/n/10 "mac.binar y" \T1/ptm/m/n/10 and Underfull \hbox (badness 10000) in paragraph at lines 23049--23056 []\T1/ptm/m/n/10 URLs of the repos-i-to-ries for use by [][]\T1/fi4/bx/n/10 upd ate.packages[][][]\T1/ptm/m/n/10 . De-faults to Underfull \hbox (badness 10000) in paragraph at lines 23049--23056 \T1/fi4/bx/n/10 c(CRAN="@CRAN@")\T1/ptm/m/n/10 , a value that causes some util- i-ties to prompt for a Underfull \hbox (badness 6380) in paragraph at lines 23049--23056 \T1/ptm/m/n/10 CRAN mir-ror. To avoid this do set the CRAN mir-ror, by some-thi ng like Underfull \hbox (badness 10000) in paragraph at lines 23049--23056 \T1/fi4/bx/n/10 local({r <- getOption("repos"); r["CRAN"] <- "http://my.local.c ran"; [357] [358] [359] [360] [361] Underfull \hbox (badness 10000) in paragraph at lines 23331--23335 []\T1/ptm/m/n/10 The outer prod-uct of the ar-rays \T1/fi4/bx/n/10 X \T1/ptm/m/ n/10 and \T1/fi4/bx/n/10 Y \T1/ptm/m/n/10 is the ar-ray \T1/fi4/bx/n/10 A \T1/p tm/m/n/10 with di-men- Underfull \hbox (badness 10000) in paragraph at lines 23331--23335 \T1/ptm/m/n/10 sion \T1/fi4/bx/n/10 c(dim(X), dim(Y)) \T1/ptm/m/n/10 where el-e -ment \T1/fi4/bx/n/10 A[c(arrayindex.x, arrayindex.y)] [362] [363] [364] [365] Underfull \hbox (badness 1748) in paragraph at lines 23608--23612 \T1/ptm/m/n/10 seem un-de-sir-able, e.g., when past-ing two char-ac-ter vec-tor s, or very de-sir-able, e.g. in [366] [367] [368] [369] [370] [371] [372] [373] Underfull \hbox (badness 2726) in paragraph at lines 24096--24099 []\T1/ptm/m/n/10 character string (or \T1/fi4/bx/n/10 NULL\T1/ptm/m/n/10 ) in-d i-cat-ing [][]\T1/fi4/bx/n/10 NA[][][] \T1/ptm/m/n/10 val-ues in printed out-pu t, see [374] [375] [376] [377] [378] [379] [380] [381] [382] [383] [384] [385] [386] Underfull \hbox (badness 1052) in paragraph at lines 24872--24877 []\T1/fi4/bx/n/10 qr.X \T1/ptm/m/n/10 re-turns $\OML/cmm/b/it/10 X$\T1/ptm/m/n/ 10 , the orig-i-nal ma-trix from which the qr ob-ject was con-structed, pro-vid ed [387] [388] [389] [390] [391] [392] Underfull \hbox (badness 1097) in paragraph at lines 25248--25256 []\T1/ptm/m/n/10 The seed, \T1/fi4/bx/n/10 .Random.seed[-1] == r[1:3] \T1/ptm/m /n/10 is an in-te-ger vec-tor of length [393] [394] [395] [396] Underfull \hbox (badness 1533) in paragraph at lines 25562--25565 []\T1/ptm/m/n/10 As with all com-piled code, mis-specifying these func-tions ca n crash \T1/phv/m/n/10 R\T1/ptm/m/n/10 . Do in-clude the [397] [398] [399] [400] [401] [402] [403] [404] [405] [406] [407] [408] [409] [410] [411] [412] [413] [414] [415] [416] [417] [418] [419] [420] [421] [422] [423] Underfull \hbox (badness 6188) in paragraph at lines 27239--27241 []\T1/ptm/m/n/10 The POSIX 1003.2 stan-dard at [][]$\T1/fi4/bx/n/10 http : / / pubs . opengroup . org / onlinepubs / 9699919799 / [424] [425] [426] [427] [428] [429] [430] [431] [432] [433] [434] [435] [436] [437] [438] [439] [440] [441] Underfull \hbox (badness 10000) in paragraph at lines 28396--28400 []\T1/fi4/bx/n/10 save.image() \T1/ptm/m/n/10 is just a short-cut for `save my cur-rent workspace', i.e., [442] [443] [444] Underfull \hbox (badness 2302) in paragraph at lines 28602--28609 []\T1/ptm/m/n/10 The root-mean-square for a (pos-si-bly cen-tered) col-umn is d e-fined as $[]$, Underfull \hbox (badness 2837) in paragraph at lines 28602--28609 \T1/ptm/m/n/10 where $\OML/cmm/m/it/10 x$ \T1/ptm/m/n/10 is a vec-tor of the no n-missing val-ues and $\OML/cmm/m/it/10 n$ \T1/ptm/m/n/10 is the num-ber of non -missing Underfull \hbox (badness 4060) in paragraph at lines 28602--28609 \T1/ptm/m/n/10 val-ues. In the case \T1/fi4/bx/n/10 center=TRUE\T1/ptm/m/n/10 , this is the same as the stan-dard de-vi-a-tion, but Underfull \hbox (badness 4805) in paragraph at lines 28602--28609 \T1/ptm/m/n/10 in gen-eral it is not. (To scale by the stan-dard de-vi-a-tions with-out cen-ter-ing, use [445] [446] Underfull \hbox (badness 2261) in paragraph at lines 28755--28760 []\T1/ptm/m/n/10 If \T1/fi4/bx/n/10 strip.white \T1/ptm/m/n/10 is of length 1, it ap-plies to all fields; oth-er-wise, if [447] Underfull \hbox (badness 10000) in paragraph at lines 28782--28788 []\T1/ptm/m/n/10 The es-capes which are in-ter-preted are the con-trol char-ac- ters Underfull \hbox (badness 4001) in paragraph at lines 28782--28788 \T1/ptm/m/n/10 `\T1/fi4/bx/n/10 \a, \b, \f, \n, \r, \t, \v\T1/ptm/m/n/10 ' and oc-tal and hex-adec-i-mal rep-re-sen-ta- [448] Underfull \hbox (badness 10000) in paragraph at lines 28855--28860 []\T1/ptm/m/n/10 Note that since \T1/fi4/bx/n/10 sep \T1/ptm/m/n/10 is a sep-a- ra-tor and not a ter-mi-na-tor, read-ing a file by Underfull \hbox (badness 1946) in paragraph at lines 28855--28860 \T1/fi4/bx/n/10 scan("foo", sep="\n", blank.lines.skip=FALSE) \T1/ptm/m/n/10 wi ll give an empty fi-nal line if the [449] [450] [451] [452] [453] Underfull \hbox (badness 6188) in paragraph at lines 29189--29192 []\T1/ptm/m/n/10 The fourth form gen-er-ates the in-te-ger se-quence \T1/fi4/bx /n/10 1, 2, ..., length(along.with)\T1/ptm/m/n/10 . [454] [455] [456] [457] [458] [459] [460] [461] [462] [463] [464] [465] [466] [467] [468] [469] [470] [471] [472] [473] [474] [475] [476] [477] [478] Underfull \vbox (badness 3803) has occurred while \output is active [479] [480] [481] [482] [483] [484] Underfull \vbox (badness 3803) has occurred while \output is active [485] [486] [487] [488] Underfull \hbox (badness 5008) in paragraph at lines 31395--31407 []\T1/ptm/m/n/10 The \T1/fi4/bx/n/10 srcref \T1/ptm/m/n/10 func-tion pro-duces an ob-ject of class \T1/fi4/bx/n/10 srcref\T1/ptm/m/n/10 , which de-scribes a r ange Underfull \hbox (badness 6141) in paragraph at lines 31395--31407 \T1/ptm/m/n/10 of char-ac-ters in a \T1/fi4/bx/n/10 srcfile\T1/ptm/m/n/10 . The \T1/fi4/bx/n/10 lloc \T1/ptm/m/n/10 value gives the fol-low-ing val-ues: \T 1/fi4/bx/n/10 c Overfull \hbox (112.28088pt too wide) in paragraph at lines 31395--31407 \T1/fi4/bx/n/10 (first_line, first_byte, last_line, last_byte, first_column, l ast_column, first_parsed, last_parsed)\T1/ptm/m/n/10 . [489] [490] Underfull \hbox (badness 1072) in paragraph at lines 31552--31556 []\T1/ptm/m/n/10 On front-ends which sup-port it, the com-mands his-tory is rea d from the file spec-i-fied by Underfull \hbox (badness 10000) in paragraph at lines 31557--31561 []\T1/ptm/m/n/10 The command-line op-tion `\T1/fi4/bx/n/10 --vanilla\T1/ptm/m/n /10 ' im-plies `\T1/fi4/bx/n/10 --no-site-file\T1/ptm/m/n/10 ', `\T1/fi4/bx/n/1 0 --no-init-file\T1/ptm/m/n/10 ', Underfull \hbox (badness 10000) in paragraph at lines 31585--31591 \T1/ptm/m/n/10 and `\T1/fi4/bx/n/10 Rprofile.site\T1/ptm/m/n/10 ' are looked fo r first in architecture-specific di-rec-to-ries, e.g. Underfull \hbox (badness 3343) in paragraph at lines 31594--31601 \T1/ptm/m/n/10 early in the start-up pro-cess-ing. It con-tains en-vi-ron-ment vari-ables set by \T1/phv/m/n/10 R \T1/ptm/m/n/10 in the Underfull \hbox (badness 2573) in paragraph at lines 31594--31601 \T1/ptm/m/n/10 con-fig-ure pro-cess. Val-ues in that file can be over-rid-den i n site or user en-vi-ron-ment Underfull \hbox (badness 1917) in paragraph at lines 31594--31601 \T1/ptm/m/n/10 files: do not change `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/fi4/bx /n/10 /etc/Renviron\T1/ptm/m/n/10 ' it-self. Note that this is dis-tinct from [491] [492] [493] [494] Overfull \hbox (5.98903pt too wide) in paragraph at lines 31806--31809 []\T1/fi4/bx/n/10 stopifnot(A, B) \T1/ptm/m/n/10 is con-cep-tu-ally equiv-a-len t to \T1/fi4/bx/n/10 { if(any(is.na(A)) || !all(A)) stop(...) ; [495] Underfull \hbox (badness 10000) in paragraph at lines 31870--31876 []\T1/ptm/m/n/10 A char-ac-ter string. The de-fault for the \T1/fi4/bx/n/10 for mat \T1/ptm/m/n/10 meth-ods is [496] [497] [498] [499] [500] [501] [502] [503] [504] [505] [506] [507] [508] [509] [510] [511] [512] [513] [514] [515] [516] [517] [518] [519] Underfull \hbox (badness 4416) in paragraph at lines 33414--33416 []\T1/ptm/m/n/10 Argument \T1/fi4/bx/n/10 names \T1/ptm/m/n/10 was in-tro-duced in \T1/phv/m/n/10 R \T1/ptm/m/n/10 2.13.0 to avoid need-ing the com-mon use of [520] [521] [522] [523] [524] [525] [526] [527] [528] [529] [530] [531] Underfull \hbox (badness 1472) in paragraph at lines 34102--34105 []\T1/ptm/m/n/10 logical. If \T1/fi4/bx/n/10 TRUE\T1/ptm/m/n/10 , func-tions ke ep their source in-clud-ing com-ments, see [532] [533] [534] [535] [536] [537] [538] [539] Underfull \hbox (badness 4217) in paragraph at lines 34611--34614 []\T1/ptm/m/n/10 Because of the way it is im-ple-mented, on a Unix-alike \T1/fi 4/bx/n/10 stderr = TRUE \T1/ptm/m/n/10 im-plies [540] [541] Underfull \hbox (badness 2671) in paragraph at lines 34746--34749 []\T1/ptm/m/n/10 levels to re-move for all fac-tors in \T1/fi4/bx/n/10 ...\T1/p tm/m/n/10 . If set to \T1/fi4/bx/n/10 NULL\T1/ptm/m/n/10 , it im-plies [542] [543] [544] [545] [546] [547] Underfull \hbox (badness 10000) in paragraph at lines 35139--35142 [][][]\T1/fi4/bx/n/10 getTaskCallbackNames[][][] [][]taskCallbackManager[][][] [][]$http : / / developer . r-[]project . org / [548] [549] Underfull \hbox (badness 10000) in paragraph at lines 35260--35264 [][][]\T1/fi4/bx/n/10 addTaskCallback[][][]\T1/ptm/m/n/10 , [][]\T1/fi4/bx/n/10 removeTaskCallback[][][]\T1/ptm/m/n/10 , [][]\T1/fi4/bx/n/10 getTaskCallbackNa mes[][][]\T1/ptm/m/n/10 \ [][]$\T1/fi4/bx/n/10 http : / / developer . [550] Underfull \hbox (badness 10000) in paragraph at lines 35322--35326 [][][]\T1/fi4/bx/n/10 addTaskCallback[][][]\T1/ptm/m/n/10 , [][]\T1/fi4/bx/n/10 removeTaskCallback[][][]\T1/ptm/m/n/10 , [][]\T1/fi4/bx/n/10 taskCallbackManag er[][][]\T1/ptm/m/n/10 \ [][]$\T1/fi4/bx/n/10 http : / / developer . [551] [552] [553] [554] [555] [556] [557] [558] [559] [560] Underfull \hbox (badness 10000) in paragraph at lines 35939--35941 []\T1/ptm/m/n/10 Using [][]\T1/fi4/bx/n/10 setBreakpoint[][][] \T1/ptm/m/n/10 ( from pack-age \T1/ptm/b/n/10 utils\T1/ptm/m/n/10 ) may be an al-ter-na-tive, ca ll-ing [561] [562] [563] [564] [565] [566] [567] Underfull \hbox (badness 1990) in paragraph at lines 36440--36448 []\T1/fi4/bx/n/10 try \T1/ptm/m/n/10 eval-u-ates an ex-pres-sion and traps any er-rors that oc-cur dur-ing the eval-u-a-tion. If Underfull \hbox (badness 4846) in paragraph at lines 36440--36448 \T1/ptm/m/n/10 an er-ror oc-curs then the er-ror mes-sage is printed to the [][ ]\T1/fi4/bx/n/10 stderr[][][] \T1/ptm/m/n/10 con-nec-tion un-less [568] [569] [570] [571] [572] Underfull \hbox (badness 1515) in paragraph at lines 36706--36711 []\T1/ptm/m/n/10 On most plat-forms `file' in-cludes sym-bolic links, fi-fos an d sock-ets. Prior to \T1/phv/m/n/10 R \T1/ptm/m/n/10 2.15.0 [573] [574] [575] Underfull \hbox (badness 1917) in paragraph at lines 36929--36936 []\T1/ptm/m/n/10 When a func-tion call-ing \T1/fi4/bx/n/10 UseMethod("fun") \T1 /ptm/m/n/10 is ap-plied to an ob-ject with class at-tribute [576] [577] [578] [579] [580] [581] [582] [583] [584] Underfull \hbox (badness 3668) in paragraph at lines 37494--37496 []\T1/ptm/m/n/10 logical, in-di-cat-ing if the call should be out-put im-me-di- ately, even if [585] Underfull \hbox (badness 2401) in paragraph at lines 37594--37598 []\T1/ptm/m/n/10 See the de-scrip-tion of [][]\T1/fi4/bx/n/10 options[][][]("wa rn") \T1/ptm/m/n/10 for the cir-cum-stances un-der which there is a [586] [587] [588] Underfull \hbox (badness 10000) in paragraph at lines 37770--37775 []\T1/ptm/m/n/10 If \T1/fi4/bx/n/10 arr.ind == TRUE \T1/ptm/m/n/10 and \T1/fi4/ bx/n/10 x \T1/ptm/m/n/10 is an [][]\T1/fi4/bx/n/10 array[][][] \T1/ptm/m/n/10 ( has a [][]\T1/fi4/bx/n/10 dim[][][] \T1/ptm/m/n/10 at-tribute), the re-sult is Underfull \hbox (badness 1454) in paragraph at lines 37770--37775 \T1/fi4/bx/n/10 arrayInd(which(x), dim(x), dimnames(x))\T1/ptm/m/n/10 , namely a ma-trix whose rows each are the [589] [590] [591] [592] [593] [594] [595] [596] [597] Underfull \hbox (badness 5417) in paragraph at lines 38279--38283 []\T1/fi4/bx/n/10 .packages() \T1/ptm/m/n/10 re-turns the names of the cur-rent ly at-tached pack-ages \T1/ptm/m/it/10 in-vis-i-bly \T1/ptm/m/n/10 whereas [598] Underfull \hbox (badness 10000) in paragraph at lines 38332--38336 []\T1/fi4/bx/n/10 .standard_regexps \T1/ptm/m/n/10 re-turns a list of `stan-dar d' reg-exps, in-clud-ing el-e-ments named [599]) (./datasets-pkg.tex [600] Chapter 2. [601] [602] [603] [604] [605] [606] [607] [608] [609] [610] [611] [612] Overfull \hbox (22.36993pt too wide) in paragraph at lines 691--693 []\T1/ptm/m/n/10 This ob-ject of class \T1/fi4/bx/n/10 c("nfnGroupedData", "nfG roupedData", "groupedData", "data.frame") [613] [614] Overfull \hbox (22.36993pt too wide) in paragraph at lines 823--825 []\T1/ptm/m/n/10 This ob-ject of class \T1/fi4/bx/n/10 c("nfnGroupedData", "nfG roupedData", "groupedData", "data.frame") [615] [616] [617] [618] [619] Overfull \hbox (22.36993pt too wide) in paragraph at lines 1128--1130 []\T1/ptm/m/n/10 This ob-ject of class \T1/fi4/bx/n/10 c("nfnGroupedData", "nfG roupedData", "groupedData", "data.frame") [620] [621] [622] [623] [624] [625] [626] [627] [628] Overfull \hbox (22.36993pt too wide) in paragraph at lines 1699--1701 []\T1/ptm/m/n/10 This ob-ject of class \T1/fi4/bx/n/10 c("nfnGroupedData", "nfG roupedData", "groupedData", "data.frame") [629] [630] [631] [632] [633] [634] [635] [636] Overfull \hbox (22.36993pt too wide) in paragraph at lines 2120--2122 []\T1/ptm/m/n/10 This ob-ject of class \T1/fi4/bx/n/10 c("nfnGroupedData", "nfG roupedData", "groupedData", "data.frame") [637] [638] [639] [640] [641] [642] [643] [644] Overfull \hbox (22.36993pt too wide) in paragraph at lines 2597--2599 []\T1/ptm/m/n/10 This ob-ject of class \T1/fi4/bx/n/10 c("nfnGroupedData", "nfG roupedData", "groupedData", "data.frame") [645] Underfull \vbox (badness 10000) has occurred while \output is active [646] Underfull \vbox (badness 10000) has occurred while \output is active [647] [648] [649] [650] [651] [652] [653] [654] [655] Overfull \vbox (20.49605pt too high) has occurred while \output is active [656] [657] [658] [659] [660] [661] Overfull \hbox (22.36993pt too wide) in paragraph at lines 3561--3563 []\T1/ptm/m/n/10 This ob-ject of class \T1/fi4/bx/n/10 c("nfnGroupedData", "nfG roupedData", "groupedData", "data.frame") [662] [663] [664] [665] Underfull \hbox (badness 1325) in paragraph at lines 3796--3799 []\T1/ptm/m/n/10 For back-ground on Bristle-cone pines and Methuse-lah Walk, se e [][]$\T1/fi4/bx/n/10 http : / / www . sonic . net / [666] Underfull \vbox (badness 10000) has occurred while \output is active [667] [668] [669] [670] Underfull \vbox (badness 10000) has occurred while \output is active [671] Underfull \vbox (badness 10000) has occurred while \output is active [672] [673] [674] [675] [676] [677] [678] [679]) (./grDevices-pkg.tex [680] Chapter 3. [681] [682] [683] [684] Underfull \hbox (badness 1484) in paragraph at lines 274--278 []\T1/ptm/m/n/10 numeric vec-tor of length 3, \T1/fi4/bx/n/10 c(mi, ma, n.)\T1/ ptm/m/n/10 , with iden-ti-cal mean-ing to [685] [686] [687] [688] [689] [690] [691] [692] [693] [694] [695] [696] [697] Underfull \hbox (badness 5175) in paragraph at lines 1047--1049 []\T1/ptm/m/n/10 There is cur-rently no doc-u-men-ta-tion about the al-go-rithm . The source code is in [698] [699] [700] Underfull \hbox (badness 1852) in paragraph at lines 1237--1240 []\T1/fi4/bx/n/10 densCols \T1/ptm/m/n/10 com-putes and re-turns the set of col -ors that will be used in plot-ting, call-ing [701] [702] [703] Underfull \hbox (badness 1490) in paragraph at lines 1439--1444 \T1/ptm/m/n/10 by [][]\T1/fi4/bx/n/10 rasterImage[][][] \T1/ptm/m/n/10 and [][] \T1/fi4/bx/n/10 grid.raster[][][]\T1/ptm/m/n/10 ? Pos-si-ble val-ues \T1/fi4/bx /n/10 "no"\T1/ptm/m/n/10 , \T1/fi4/bx/n/10 "yes" \T1/ptm/m/n/10 and [704] Underfull \hbox (badness 2698) in paragraph at lines 1493--1496 []\T1/fi4/bx/n/10 NULL \T1/ptm/m/n/10 if the de-vice does not sup-port cap-ture , oth-er-wise a ma-trix of color names (for [705] Underfull \hbox (badness 10000) in paragraph at lines 1562--1566 []\T1/ptm/m/n/10 logical; if \T1/fi4/bx/n/10 TRUE\T1/ptm/m/n/10 , the func-tion also re-turns \T1/fi4/bx/n/10 TRUE \T1/ptm/m/n/10 when Underfull \hbox (badness 6332) in paragraph at lines 1562--1566 [][]\T1/fi4/bx/n/10 .Device[][][] == "null device" \T1/ptm/m/n/10 and [][]\T1/f i4/bx/n/10 getOption[][][]("device") \T1/ptm/m/n/10 is among the [706] [707] [708] [709] Underfull \hbox (badness 1033) in paragraph at lines 1845--1858 \T1/fi4/bx/n/10 "pgnm"\T1/ptm/m/n/10 , \T1/fi4/bx/n/10 "pgnmraw"\T1/ptm/m/n/10 , \T1/fi4/bx/n/10 "pnm"\T1/ptm/m/n/10 , \T1/fi4/bx/n/10 "pnmraw"\T1/ptm/m/n/10 , \T1/fi4/bx/n/10 "ppm"\T1/ptm/m/n/10 , \T1/fi4/bx/n/10 "ppmraw"\T1/ptm/m/n/10 , \T1/fi4/bx/n/10 "pkm"\T1/ptm/m/n/10 , \T1/fi4/bx/n/10 "pkmraw"\T1/ptm/m/n/10 , \T1/fi4/bx/n/10 "tiffcrle"\T1/ptm/m/n/10 , Underfull \hbox (badness 3758) in paragraph at lines 1845--1858 \T1/fi4/bx/n/10 "tiffg3"\T1/ptm/m/n/10 , \T1/fi4/bx/n/10 "tiffg32d"\T1/ptm/m/n/ 10 , \T1/fi4/bx/n/10 "tiffg4"\T1/ptm/m/n/10 , \T1/fi4/bx/n/10 "tifflzw"\T1/ptm/ m/n/10 , \T1/fi4/bx/n/10 "tiffpack"\T1/ptm/m/n/10 , \T1/fi4/bx/n/10 "tiff12nc"\ T1/ptm/m/n/10 , \T1/fi4/bx/n/10 "tiff24nc"\T1/ptm/m/n/10 , Underfull \hbox (badness 3128) in paragraph at lines 1845--1858 \T1/fi4/bx/n/10 "tiff32nc" "psmono"\T1/ptm/m/n/10 , \T1/fi4/bx/n/10 "psgray"\T1 /ptm/m/n/10 , \T1/fi4/bx/n/10 "psrgb"\T1/ptm/m/n/10 , \T1/fi4/bx/n/10 "bit"\T1/ ptm/m/n/10 , \T1/fi4/bx/n/10 "bitrgb"\T1/ptm/m/n/10 , \T1/fi4/bx/n/10 "bitcmyk" \T1/ptm/m/n/10 , \T1/fi4/bx/n/10 "pngmono"\T1/ptm/m/n/10 , Underfull \hbox (badness 1546) in paragraph at lines 1845--1858 \T1/fi4/bx/n/10 "pnggray"\T1/ptm/m/n/10 , \T1/fi4/bx/n/10 "pngalpha"\T1/ptm/m/n /10 , \T1/fi4/bx/n/10 "png16"\T1/ptm/m/n/10 , \T1/fi4/bx/n/10 "png256"\T1/ptm/m /n/10 , \T1/fi4/bx/n/10 "png16m"\T1/ptm/m/n/10 , \T1/fi4/bx/n/10 "png48"\T1/ptm /m/n/10 , \T1/fi4/bx/n/10 "jpeg"\T1/ptm/m/n/10 , \T1/fi4/bx/n/10 "jpeggray"\T1/ ptm/m/n/10 , [710] [711] Underfull \hbox (badness 10000) in paragraph at lines 1954--1956 []\T1/ptm/m/n/10 The de-fault value when a de-vice is opened is taken from the set-ting of [712] [713] Underfull \hbox (badness 6758) in paragraph at lines 2105--2108 []\T1/ptm/m/n/10 Some other op-tions which can be use-ful (see your Ghostscript doc-u-men-ta-tion) are [714] [715] [716] Overfull \hbox (80.83pt too wide) in paragraph at lines 2249--2251 []\T1/ptm/m/n/10 Navigation keys, passed as one of \T1/fi4/bx/n/10 "Left", "Up" , "Right", "Down", "PgUp", "PgDn", "End", "Home" [717] [718] [719] [720] [721] Underfull \hbox (badness 10000) in paragraph at lines 2602--2603 [722] [723] [724] [725] [726] [727] [728] Underfull \hbox (badness 1755) in paragraph at lines 3040--3042 []\T1/ptm/m/n/10 A length two in-te-ger vec-tor \T1/fi4/bx/n/10 nr, nc \T1/ptm/ m/n/10 giv-ing the num-ber of rows and columns, ful-fill-ing [729] [730] [731] [732] [733] Underfull \hbox (badness 7851) in paragraph at lines 3349--3352 []\T1/ptm/m/n/10 For use with \T1/fi4/bx/n/10 onefile = FALSE \T1/ptm/m/n/10 gi ve a C in-te-ger for-mat such as Underfull \hbox (badness 2662) in paragraph at lines 3363--3365 []\T1/ptm/m/n/10 title string to em-bed as the `\T1/fi4/bx/n/10 /Title\T1/ptm/m /n/10 ' field in the file. De-faults to [734] [735] [736] [737] [738] [739] [740] [741] [742] [743] [744] [745] [746] [747] [748] [749] [750] Underfull \hbox (badness 1789) in paragraph at lines 4400--4402 []\T1/ptm/m/n/10 title string to em-bed as the \T1/fi4/bx/n/10 Title \T1/ptm/m/ n/10 com-ment in the file. De-faults to Underfull \hbox (badness 1377) in paragraph at lines 4450--4455 []\T1/ptm/m/n/10 a char-ac-ter string de-scrib-ing the color model: cur-rently al-lowed val-ues [751] Underfull \hbox (badness 2671) in paragraph at lines 4477--4485 \T1/ptm/m/n/10 For use in this way you will prob-a-bly want to use [][]\T1/fi4/ bx/n/10 setEPS[][][]() \T1/ptm/m/n/10 to set the de-faults as Underfull \hbox (badness 1418) in paragraph at lines 4526--4533 \T1/ptm/m/n/10 it is one of \T1/fi4/bx/n/10 "AvantGarde"\T1/ptm/m/n/10 , \T1/fi 4/bx/n/10 "Bookman"\T1/ptm/m/n/10 , \T1/fi4/bx/n/10 "Courier"\T1/ptm/m/n/10 , \ T1/fi4/bx/n/10 "Helvetica"\T1/ptm/m/n/10 , \T1/fi4/bx/n/10 "Helvetica-Narrow"\T 1/ptm/m/n/10 , Underfull \hbox (badness 2443) in paragraph at lines 4534--4543 \T1/ptm/m/n/10 PostScript de-vice is us-ing URW fonts, you will ob-tain ac-cess to more char-ac-ters and Underfull \hbox (badness 2653) in paragraph at lines 4534--4543 \T1/ptm/m/n/10 more ap-pro-pri-ate met-rics by us-ing these names. To make thes e eas-ier to re-mem-ber, [752] Underfull \hbox (badness 1755) in paragraph at lines 4544--4546 []\T1/ptm/m/n/10 Another type of fam-ily makes use of CID-keyed fonts for East Asian lan-guages -- see [753] Underfull \hbox (badness 1057) in paragraph at lines 4655--4660 []\T1/ptm/m/n/10 Color mod-els pro-vided for back-wards com-pat-i-bil-ity are \ T1/fi4/bx/n/10 "rgb"\T1/ptm/m/n/10 ) (which is RGB+gray) and [754] Underfull \hbox (badness 7344) in paragraph at lines 4715--4717 []\T1/ptm/m/n/10 Support for Com-puter Mod-ern fonts is based on a con-tri-bu-t ion by Brian D'Urso [755] [756] Underfull \hbox (badness 2035) in paragraph at lines 4839--4848 []\T1/ptm/m/n/10 Mappings for a num-ber of stan-dard Adobe fonts (and URW equiv -a-lents) are also pro- Underfull \hbox (badness 10000) in paragraph at lines 4839--4848 \T1/ptm/m/n/10 vided: \T1/fi4/bx/n/10 "AvantGarde"\T1/ptm/m/n/10 , \T1/fi4/bx/n /10 "Bookman"\T1/ptm/m/n/10 , \T1/fi4/bx/n/10 "Courier"\T1/ptm/m/n/10 , \T1/fi4 /bx/n/10 "Helvetica"\T1/ptm/m/n/10 , \T1/fi4/bx/n/10 "Helvetica-Narrow"\T1/ptm/ m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 4839--4848 \T1/fi4/bx/n/10 "NewCenturySchoolbook"\T1/ptm/m/n/10 , \T1/fi4/bx/n/10 "Palatin o" \T1/ptm/m/n/10 and \T1/fi4/bx/n/10 "Times"\T1/ptm/m/n/10 ; \T1/fi4/bx/n/10 " URWGothic"\T1/ptm/m/n/10 , \T1/fi4/bx/n/10 "URWBookman"\T1/ptm/m/n/10 , [757] Overfull \vbox (3.1714pt too high) has occurred while \output is active [758] Underfull \hbox (badness 6775) in paragraph at lines 4906--4914 \T1/ptm/m/n/10 can be found at [][]$\T1/fi4/bx/n/10 ftp : / / ftp . gnu . org / pub / non-[]gnu / chinese-[]fonts-[]truetype/$[][]\T1/ptm/m/n/10 . Ken Underfull \hbox (badness 3000) in paragraph at lines 4906--4914 \T1/ptm/m/n/10 Lunde's CJKV re-sources are at [][]$\T1/fi4/bx/n/10 ftp : / / ft p . oreilly . com / pub / examples / nutshell / cjkv / Underfull \hbox (badness 7344) in paragraph at lines 4925--4927 []\T1/ptm/m/n/10 Support for Com-puter Mod-ern fonts is based on a con-tri-bu-t ion by Brian D'Urso [759] [760] Underfull \hbox (badness 1546) in paragraph at lines 5045--5053 []\T1/ptm/m/n/10 arguments \T1/fi4/bx/n/10 onefile\T1/ptm/m/n/10 , \T1/fi4/bx/n /10 family\T1/ptm/m/n/10 , \T1/fi4/bx/n/10 title\T1/ptm/m/n/10 , \T1/fi4/bx/n/1 0 fonts\T1/ptm/m/n/10 , \T1/fi4/bx/n/10 encoding\T1/ptm/m/n/10 , \T1/fi4/bx/n/1 0 bg\T1/ptm/m/n/10 , \T1/fi4/bx/n/10 fg\T1/ptm/m/n/10 , \T1/fi4/bx/n/10 width\T 1/ptm/m/n/10 , [761] Underfull \hbox (badness 1648) in paragraph at lines 5119--5123 []\T1/ptm/m/n/10 title for the Quartz win-dow (ap-plies to on-screen out-put on ly), de-fault [762] [763] [764] [765] [766] [767] Underfull \hbox (badness 10000) in paragraph at lines 5517--5520 []\T1/fi4/bx/n/10 rgb2hsv \T1/ptm/m/n/10 trans-forms col-ors from RGB space (re d/green/blue) into HSV space [768] [769] Underfull \vbox (badness 3803) has occurred while \output is active [770] [771] [772] [773] [774] Underfull \hbox (badness 1189) in paragraph at lines 5913--5915 []\T1/ptm/m/n/10 for cairo types, the type of anti-aliasing (if any) to be used . One of [775] [776] Underfull \hbox (badness 10000) in paragraph at lines 6011--6013 []\T1/fi4/bx/n/10 "-*-mincho-%s-%s-*-*-%d-*-*-*-*-*-*-*" \T1/ptm/m/n/10 for CJK lan-guages and [777] [778] [779] [780] Underfull \hbox (badness 3780) in paragraph at lines 6302--6308 []\T1/ptm/m/n/10 the font fam-ily to be used. This must be one of \T1/fi4/bx/n/ 10 "AvantGarde"\T1/ptm/m/n/10 , [781] [782] [783] Underfull \hbox (badness 2680) in paragraph at lines 6497--6499 []\T1/ptm/m/n/10 multiplicities (pos-i-tive in-te-gers); i.e., \T1/fi4/bx/n/10 number[i] \T1/ptm/m/n/10 is the mul-ti-plic-ity of [784] [785] [786]) (./graphics-pkg.tex Chapter 4. [787] [788] [789] Underfull \hbox (badness 2856) in paragraph at lines 177--180 []\T1/ptm/m/n/10 For each \T1/fi4/bx/n/10 i\T1/ptm/m/n/10 , an ar-row is drawn be-tween the point \T1/fi4/bx/n/10 (x0[i], y0[i]) \T1/ptm/m/n/10 and the poi nt [790] [791] [792] [793] Underfull \hbox (badness 4492) in paragraph at lines 465--471 []\T1/ptm/m/n/10 When \T1/fi4/bx/n/10 at = NULL\T1/ptm/m/n/10 , pretty tick mar k lo-ca-tions are com-puted in-ter-nally (the same way [794] [795] [796] [797] Underfull \hbox (badness 10000) in paragraph at lines 690--697 []\T1/fi4/bx/n/10 axTicks() \T1/ptm/m/n/10 can be used an \T1/phv/m/n/10 R \T1/ ptm/m/n/10 in-ter-face to the C func-tion \T1/fi4/bx/n/10 CreateAtVector() \T1/ ptm/m/n/10 in [798] [799] [800] Underfull \hbox (badness 1389) in paragraph at lines 856--859 []\T1/ptm/m/n/10 logical. If \T1/fi4/bx/n/10 TRUE\T1/ptm/m/n/10 , the lines whi ch di-vide ad-ja-cent (non-stacked!) bars [801] [802] [803] [804] [805] [806] [807] Underfull \hbox (badness 4634) in paragraph at lines 1253--1256 [][][]\T1/fi4/bx/n/10 boxplot.default[][][] \T1/ptm/m/n/10 which al-ready works nowa-days with data.frames; [][]\T1/fi4/bx/n/10 boxplot.formula[][][]\T1/ptm/m /n/10 , [808] [809] [810] [811] [812] [813] [814] [815] [816] [817] [818] [819] [820] [821] [822] [823] [824] Underfull \hbox (badness 1009) in paragraph at lines 2287--2294 \T1/ptm/m/n/10 be in as-cend-ing or-der. (The rest of this de-scrip-tion does n ot ap-ply to [825] [826] [827] [828] [829] [830] [831] [832] [833] [834] [835] [836] [837] [838] [839] [840] [841] [842] Overfull \hbox (19.78088pt too wide) in paragraph at lines 3397--3397 [] \T1/fi4/bx/n/10 adj = c(0, 0.5), text.width = NULL, text.col = par("c ol"), text.font = NULL,[] [843] [844] [845] [846] Underfull \vbox (badness 10000) has occurred while \output is active [847] [848] [849] [850] [851] [852] [853] [854] [855] [856] [857] [858] Underfull \hbox (badness 1924) in paragraph at lines 4344--4349 []\T1/ptm/m/n/10 a func-tion which in-di-cates what should hap-pen when the dat a con-tain [859] [860] [861] [862] [863] Underfull \hbox (badness 10000) in paragraph at lines 4699--4705 []\T1/ptm/b/it/10 R.O.\T1/ptm/m/n/10 ; size of de-fault char-ac-ter \T1/fi4/bx/ n/10 (width, height) \T1/ptm/m/n/10 in user co-or-di-nate units. Underfull \hbox (badness 5908) in paragraph at lines 4699--4705 \T1/fi4/bx/n/10 par("cxy") \T1/ptm/m/n/10 is \T1/fi4/bx/n/10 par("cin")/par("pi n") \T1/ptm/m/n/10 scaled to user co-or-di-nates. Note that Underfull \hbox (badness 1072) in paragraph at lines 4699--4705 \T1/fi4/bx/n/10 c([][]strwidth[][][](ch), [][]strheight[][][](ch)) \T1/ptm/m/n/ 10 for a given string \T1/fi4/bx/n/10 ch \T1/ptm/m/n/10 is usu-ally much more p re- [864] [865] Underfull \hbox (badness 10000) in paragraph at lines 4827--4830 [866 ] Underfull \hbox (badness 10000) in paragraph at lines 4888--4890 [867 ] [868] Underfull \hbox (badness 10000) in paragraph at lines 5068--5070 []\T1/ptm/m/n/10 The five stan-dard dash-dot line types (\T1/fi4/bx/n/10 lty = 2:6\T1/ptm/m/n/10 ) cor-re-spond to [869] [870] [871] Underfull \hbox (badness 4156) in paragraph at lines 5207--5210 []\T1/ptm/m/n/10 a ex-pan-sion fac-tor ap-plied to the \T1/fi4/bx/n/10 z \T1/pt m/m/n/10 co-or-di-nates. Of-ten used with [872] [873] [874] [875] [876] [877] [878] [879] [880] [881] [882] [883] [884] [885] [886] [887] [888] [889] [890] [891] Overfull \hbox (31.57222pt too wide) in paragraph at lines 6457--6458 [][] [892 ] [893] [894] [895] [896] [897] [898] [899] [900] [901] [902] Underfull \hbox (badness 1048) in paragraph at lines 7161--7166 \T1/ptm/m/n/10 avoided (see the Warn-ings sec-tion be-low). Split-screen mode i s ex-ited by the com-mand [903] [904] Underfull \hbox (badness 1540) in paragraph at lines 7277--7280 []\T1/ptm/m/n/10 For each \T1/fi4/bx/n/10 i\T1/ptm/m/n/10 , a line seg-ment is drawn be-tween the point \T1/fi4/bx/n/10 (x0[i], y0[i]) \T1/ptm/m/n/10 and the point [905] [906] [907] [908] [909] [910] [911] [912] [913] [914] [915] [916] [917] [918] Underfull \hbox (badness 2050) in paragraph at lines 8091--8095 []\T1/ptm/m/n/10 For \T1/fi4/bx/n/10 number[i] == 1\T1/ptm/m/n/10 , a (slightly en-larged) usual plot-ting sym-bol (\T1/fi4/bx/n/10 pch\T1/ptm/m/n/10 ) is dra wn. For [919] [920] [921] [922] [923] [924] (/usr/share/texlive/texmf-dist/tex/latex/inconsolata/ts1fi4.fd) [925] Underfull \hbox (badness 6691) in paragraph at lines 8490--8493 []\T1/ptm/m/n/10 The main ti-tle (on top) us-ing font and size (char-ac-ter ex- pan-sion) Underfull \hbox (badness 2799) in paragraph at lines 8493--8495 []\T1/ptm/m/n/10 Sub-title (at bot-tom) us-ing font and size \T1/fi4/bx/n/10 pa r("font.sub") \T1/ptm/m/n/10 and color [926]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.unit s}) has been already used, duplicate ignored \relax l.8575 \HeaderA{units}{Graphical Units}{units} [927] [928] [929] [930] [931]) (./grid-pkg.tex [932] Chapter 5. Underfull \vbox (badness 10000) has occurred while \output is active [933] [934] [935] [936] [937] [938] [939] Underfull \hbox (badness 2680) in paragraph at lines 405--408 []\T1/ptm/m/n/10 Note that \T1/fi4/bx/n/10 preDrawDetails \T1/ptm/m/n/10 and \T 1/fi4/bx/n/10 postDrawDetails \T1/ptm/m/n/10 are also called in the cal-cu-la-t ion of [940] [941] [942] Overfull \vbox (10.43605pt too high) has occurred while \output is active [943] [944] [945] [946] [947] Underfull \hbox (badness 4279) in paragraph at lines 945--954 [][][]\T1/ptm/m/n/10 Grid[][][], [][]\T1/fi4/bx/n/10 pushViewport[][][]\T1/ptm/ m/n/10 , [][]\T1/fi4/bx/n/10 popViewport[][][]\T1/ptm/m/n/10 , [][]\T1/fi4/bx/n /10 downViewport[][][]\T1/ptm/m/n/10 , [][]\T1/fi4/bx/n/10 seekViewport[][][]\T 1/ptm/m/n/10 , [][]\T1/fi4/bx/n/10 upViewport[][][]\T1/ptm/m/n/10 , [][]\T1/fi4 /bx/n/10 unit[][][]\T1/ptm/m/n/10 , [948] Underfull \vbox (badness 3803) has occurred while \output is active [949] [950] [951] Underfull \hbox (badness 2781) in paragraph at lines 1147--1150 []\T1/ptm/m/n/10 Both func-tions cre-ate an ar-rows grob (a graph-i-cal ob-ject de-scrib-ing ar-rows), but only [952] Underfull \vbox (badness 10000) has occurred while \output is active [953] [954] [955] [956] [957] [958] [959] [960] [961] [962] [963] [964] [965] [966] [967] [968] [969] [970] [971] [972] [973] [974] [975] [976] [977] [978] [979] [980] [981] [982] [983] [984] [985] [986] [987] [988] [989] [990] Underfull \vbox (badness 3803) has occurred while \output is active [991] [992] [993] [994] [995] [996] Underfull \hbox (badness 10000) in paragraph at lines 3762--3764 []\T1/ptm/m/n/10 The de-fault value when a de-vice is opened is taken from the set-ting of [997] [998] [999] [1000] [1001] [1002] [1003] Underfull \hbox (badness 1067) in paragraph at lines 4161--4164 []\T1/ptm/m/n/10 Both func-tions cre-ate a seg-ments grob (a graph-i-cal ob-jec t de-scrib-ing seg-ments), but only [1004] [1005] [1006] [1007] [1008] Underfull \hbox (badness 7256) in paragraph at lines 4400--4402 []\T1/ptm/m/n/10 A char-ac-ter or [][]ex-pres-sion[][][] vec-tor. Other ob-ject s are co-erced by [1009] [1010] [1011] [1012] [1013] [1014] [1015] [1016] [1017] [1018] [1019] [1020] [1021] [1022] [1023] [1024] [1025] [1026] Overfull \hbox (57.28088pt too wide) in paragraph at lines 5522--5526 \T1/fi4/bx/n/10 unit(rep(1, 3), c("npc", "strwidth", "inches"), data=lis t(NULL, "my string", NULL))\T1/ptm/m/n/10 . [1027] Underfull \hbox (badness 2096) in paragraph at lines 5531--5537 \T1/ptm/m/n/10 pos-si-ble to add and sub-tract unit ob-jects (e.g., \T1/fi4/bx/ n/10 unit(1, "npc") - unit(1, "inches")\T1/ptm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 5531--5537 \T1/ptm/m/n/10 and to spec-ify the min-i-mum or max-i-mum of a list of unit ob- jects (e.g., [1028] [1029] [1030] [1031] [1032] [1033] [1034] [1035] Underfull \hbox (badness 7649) in paragraph at lines 5993--5996 []\T1/ptm/m/n/10 This can be use-ful for re-turn-ing to your start-ing point by do-ing some-thing like [1036] [1037] [1038] [1039]) (./methods-pkg.tex [1040] Chapter 6. [1041] [1042] [1043] [1044] [1045] [1046] [1047] [1048] [1049] [1050] [1051] [1052] [1053] [1054] [1055] [1056] Underfull \vbox (badness 2277) has occurred while \output is active [1057] [1058] [1059] [1060] Underfull \hbox (badness 2237) in paragraph at lines 1432--1434 []\T1/ptm/m/n/10 The class \T1/fi4/bx/n/10 "className" \T1/ptm/m/n/10 ex-tends \T1/fi4/bx/n/10 "character" \T1/ptm/m/n/10 and has a slot \T1/fi4/bx/n/10 "pack age"\T1/ptm/m/n/10 , also of class [1061] [1062] [1063] [1064] [1065] [1066] [1067] [1068] Underfull \hbox (badness 1590) in paragraph at lines 1979--1986 []\T1/ptm/m/n/10 Two vir-tual classes are sup-plied to test for ref-er-ence ob- jects: \T1/fi4/bx/n/10 is(x, "refClass") \T1/ptm/m/n/10 tests [1069] Underfull \hbox (badness 10000) in paragraph at lines 2028--2033 []\T1/ptm/m/n/10 The ar-gu-ment to \T1/fi4/bx/n/10 insertSource \T1/ptm/m/n/10 can be an ob-ject of class Underfull \hbox (badness 1038) in paragraph at lines 2028--2033 \T1/ptm/m/n/10 file name is passed to \T1/fi4/bx/n/10 insertSource \T1/ptm/m/n/ 10 it calls \T1/fi4/bx/n/10 evalSource \T1/ptm/m/n/10 to ob-tain the [1070] [1071] [1072] [1073] [1074] [1075] [1076] [1077] Underfull \hbox (badness 10000) in paragraph at lines 2628--2631 []\T1/ptm/m/n/10 As you might ex-pect [][]\T1/fi4/bx/n/10 setGeneric[][][] \T1/ ptm/m/n/10 and [][]\T1/fi4/bx/n/10 setGroupGeneric[][][] \T1/ptm/m/n/10 cre-ate ob-jects of class [1078] [1079] Underfull \hbox (badness 1132) in paragraph at lines 2768--2772 []\T1/ptm/m/n/10 In \T1/fi4/bx/n/10 getGenerics\T1/ptm/m/n/10 , if \T1/fi4/bx/n /10 TRUE\T1/ptm/m/n/10 , the \T1/fi4/bx/n/10 package \T1/ptm/m/n/10 slot of the re-turned re-sult is in [1080] Underfull \hbox (badness 1033) in paragraph at lines 2800--2805 \T1/ptm/m/n/10 In ad-di-tion, \T1/fi4/bx/n/10 removeGeneric \T1/ptm/m/n/10 re-m oves the func-tion it-self; \T1/fi4/bx/n/10 removeMethods \T1/ptm/m/n/10 re-sto res the [1081] [1082] [1083] [1084] [1085] [1086] [1087] [1088] [1089] [1090] [1091] [1092] Underfull \hbox (badness 10000) in paragraph at lines 3637--3642 []\T1/ptm/m/n/10 The \T1/fi4/bx/n/10 initialize \T1/ptm/m/n/10 method for these classes takes spe-cial ar-gu-ments Underfull \hbox (badness 10000) in paragraph at lines 3645--3654 []\T1/ptm/m/n/10 The [1093] [1094] [1095] [1096] [1097] [1098] Underfull \vbox (badness 10000) has occurred while \output is active [1099] [1100] [1101] [1102] [1103] [1104] Underfull \hbox (badness 1436) in paragraph at lines 4454--4457 []\T1/ptm/m/n/10 The class \T1/fi4/bx/n/10 "SealedMethodDefinition" \T1/ptm/m/n /10 is cre-ated by a call to [][]\T1/fi4/bx/n/10 setMethod[][][] \T1/ptm/m/n/10 with ar-gu-ment [1105] Underfull \hbox (badness 1769) in paragraph at lines 4483--4489 []\T1/ptm/m/n/10 class [][]\T1/fi4/bx/n/10 MethodsList[][][] \T1/ptm/m/n/10 for the ob-jects defin-ing sets of meth-ods as-so-ci-ated with a par-tic-u-lar Underfull \hbox (badness 1939) in paragraph at lines 4483--4489 \T1/fi4/bx/n/10 MethodDefinition\T1/ptm/m/n/10 , or an ex-ten-sion. Class [][]\ T1/fi4/bx/n/10 MethodWithNext[][][] \T1/ptm/m/n/10 for an ex-ten-sion used by [1106] [1107] [1108] [1109] [1110] [1111] [1112] Underfull \vbox (badness 10000) has occurred while \output is active [1113] [1114] Underfull \hbox (badness 1092) in paragraph at lines 5155--5162 \T1/ptm/m/n/10 names cor-re-spond-ing to some or all of the for-mal ar-gu-ments . In the pre-vi-ous ex-am-ple, Underfull \hbox (badness 1117) in paragraph at lines 5155--5162 \T1/ptm/m/n/10 if se-lect-ing class \T1/fi4/bx/n/10 "track" \T1/ptm/m/n/10 for \T1/fi4/bx/n/10 x\T1/ptm/m/n/10 , find-ing that the se-lec-tion was an-other me th-ods list and Underfull \hbox (badness 4036) in paragraph at lines 5203--5206 []\T1/ptm/m/n/10 Object of class \T1/fi4/bx/n/10 "PossibleMethod" \T1/ptm/m/n/1 0 the method to use in re-sponse to a [1115] [1116] [1117] [1118] [1119] [1120] Underfull \hbox (badness 1087) in paragraph at lines 5523--5528 []\T1/ptm/m/n/10 In ad-di-tion, the cur-rently avail-able gener-ics with meth-o ds for this class are found (us-ing [1121] [1122] [1123] Underfull \hbox (badness 2221) in paragraph at lines 5745--5750 []\T1/ptm/m/n/10 Two op-tional method names are in-ter-preted spe-cially, \T1/f i4/bx/n/10 initialize \T1/ptm/m/n/10 and [1124] [1125] [1126] [1127] Underfull \hbox (badness 10000) in paragraph at lines 6106--6122 []\T1/ptm/m/n/10 The de-fault method for \T1/fi4/bx/n/10 $initialize() \T1/ptm/ m/n/10 is equiv-a-lent to in-vok-ing the method [1128] [1129] [1130] Underfull \vbox (badness 10000) has occurred while \output is active [1131] [1132] [1133]pdfTeX warning (ext4): destination with the same identifier (name{ Rfn.S4}) has been already used, duplicate ignored \relax l.6550 \aliasA{S4}{S3Part}{S4} [1134] [1135] [1136]pdfTeX warning (ext4): desti nation with the same identifier (name{Rfn.Complex}) has been already used, dupl icate ignored \relax l.6826 \aliasA{Complex}{S4groupGeneric}{Complex} pdfTeX warning (ext4): destinat ion with the same identifier (name{Rfn.Logic}) has been already used, duplicate ignored \relax l.6828 \aliasA{Logic}{S4groupGeneric}{Logic} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Math}) has been already used, duplicate igno red \relax l.6829 \aliasA{Math}{S4groupGeneric}{Math} pdfTeX warning (ext4): destination wi th the same identifier (name{Rfn.Ops}) has been already used, duplicate ignored \relax l.6831 \aliasA{Ops}{S4groupGeneric}{Ops} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Summary}) has been already used, duplicate ignor ed \relax l.6832 \aliasA{Summary}{S4groupGeneric}{Summary} [1137] Underfull \hbox (badness 2050) in paragraph at lines 6893--6897 []\T1/ptm/m/n/10 The mem-bers of the group de-fined by a par-tic-u-lar generic can be ob-tained by call-ing [1138] [1139] [1140] Underfull \hbox (badness 1286) in paragraph at lines 7075--7077 []\T1/ptm/m/n/10 for \T1/fi4/bx/n/10 .selectSuperClasses() \T1/ptm/m/n/10 only, a [][]\T1/fi4/bx/n/10 list[][][] \T1/ptm/m/n/10 of class ex-ten-sions, typ-i-c ally [1141] [1142] [1143] [1144] [1145] [1146] [1147] [1148] [1149] [1150] [1151] [1152] [1153] [1154] [1155] [1156] [1157] [1158] [1159] [1160] [1161] [1162] [1163] [1164] [1165] [1166] [1167] [1168] [1169] [1170] [1171] [1172] [1173] Underfull \hbox (badness 2894) in paragraph at lines 9382--9386 []\T1/ptm/m/n/10 Chambers, John M. (2009) \T1/ptm/m/it/10 Class In-her-i-tance in R [][]$\T1/fi4/bx/n/10 http : / / stat . stanford . edu / ~jmc4 / [1174] Underfull \hbox (badness 1852) in paragraph at lines 9461--9465 []\T1/ptm/m/n/10 Each of the classes ex-tends the cor-re-spond-ing un-traced cl ass, from the data part; e.g., [1175] [1176] [1177] [1178]) (./splines-pkg.tex Chapter 7. Underfull \hbox (badness 10000) in paragraph at lines 22--24 []\T1/ptm/m/n/10 Douglas M. Bates \T1/fi4/bx/n/10 \T1/ptm /m/n/10 and William N. Ven-ables [1179] [1180] [1181] [1182] [1183] [1184] [1185] [1186] [1187] [1188] [1189] [1190] [1191] [1192]) (./stats-pkg.tex Chapter 8. [1193] [1194] [1195] [1196] [1197] [1198] [1199] [1200] [1201] [1202] [1203] [1204] [1205] Underfull \hbox (badness 1412) in paragraph at lines 829--831 []\T1/ptm/m/n/10 A fit-ted model ob-ject, for ex-am-ple from \T1/fi4/bx/n/10 lm \T1/ptm/m/n/10 or \T1/fi4/bx/n/10 aov\T1/ptm/m/n/10 , or a for-mula for [1206] [1207] [1208] [1209] [1210] [1211] [1212] [1213] Underfull \hbox (badness 2503) in paragraph at lines 1316--1319 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of \T1/fi4/bx/n/10 "two.sided"\T1/ptm/m/n/10 , [1214] [1215] [1216] Underfull \hbox (badness 10000) in paragraph at lines 1495--1499 []\T1/ptm/m/n/10 An ob-ject of class \T1/fi4/bx/n/10 c("aov", "lm") \T1/ptm/m/n /10 or for mul-ti-ple re-sponses of class [1217] [1218] [1219] [1220] [1221] [1222] [1223] [1224] [1225] [1226] Underfull \hbox (badness 3965) in paragraph at lines 2139--2141 []\T1/ptm/m/n/10 the AIC value cor-re-spond-ing to the log-likelihood. Only val id for [1227] [1228] [1229] [1230] [1231] Underfull \hbox (badness 3965) in paragraph at lines 2467--2469 []\T1/ptm/m/n/10 the AIC value cor-re-spond-ing to the log-likelihood. Only val id for [1232] [1233] [1234] [1235] [1236] [1237] [1238] [1239] [1240] [1241] [1242] [1243] [1244] Underfull \hbox (badness 2503) in paragraph at lines 3230--3233 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of \T1/fi4/bx/n/10 "two.sided"\T1/ptm/m/n/10 , [1245] [1246] [1247] [1248] [1249] [1250] [1251] [1252] [1253] [1254] [1255] [1256] [1257] [1258] [1259] [1260] [1261] [1262] [1263] [1264] Underfull \hbox (badness 3989) in paragraph at lines 4424--4431 []\T1/ptm/m/n/10 a nu-meric vec-tor of length 2, equal to say $\OT1/cmr/m/n/10 (\OML/cmm/m/it/10 g[]; g[]\OT1/cmr/m/n/10 )$\T1/ptm/m/n/10 , where $\OML/cmm/m/ it/10 g[] \OT1/cmr/m/n/10 = [1265] [1266] [1267] [1268] [1269] [1270] [1271] [1272] [1273] Underfull \hbox (badness 2932) in paragraph at lines 5037--5039 []\T1/ptm/m/n/10 Note that the usual def-i-ni-tion of con-vo-lu-tion of two se- quences \T1/fi4/bx/n/10 x \T1/ptm/m/n/10 and \T1/fi4/bx/n/10 y \T1/ptm/m/n/10 i s given by [1274] [1275] [1276] Underfull \hbox (badness 1603) in paragraph at lines 5244--5249 []\T1/fi4/bx/n/10 var \T1/ptm/m/n/10 is just an-other in-ter-face to \T1/fi4/bx /n/10 cov\T1/ptm/m/n/10 , where \T1/fi4/bx/n/10 na.rm \T1/ptm/m/n/10 is used to de-ter-mine the de-fault for Underfull \hbox (badness 1472) in paragraph at lines 5244--5249 \T1/fi4/bx/n/10 use \T1/ptm/m/n/10 when that is un-spec-i-fied. If \T1/fi4/bx/n /10 na.rm \T1/ptm/m/n/10 is \T1/fi4/bx/n/10 TRUE \T1/ptm/m/n/10 then the com-pl ete ob-ser-va-tions (rows) Underfull \hbox (badness 3108) in paragraph at lines 5244--5249 \T1/ptm/m/n/10 are used (\T1/fi4/bx/n/10 use = "na.or.complete"\T1/ptm/m/n/10 ) to com-pute the vari-ance. Oth-er-wise, by de-fault [1277] Underfull \hbox (badness 2913) in paragraph at lines 5278--5290 \T1/ptm/m/n/10 For \T1/fi4/bx/n/10 cov()\T1/ptm/m/n/10 , a non-Pearson method i s un-usual but avail-able for the sake of com-plete- [1278] [1279] Underfull \hbox (badness 2503) in paragraph at lines 5393--5397 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of \T1/fi4/bx/n/10 "two.sided"\T1/ptm/m/n/10 , [1280] Underfull \hbox (badness 1168) in paragraph at lines 5454--5459 []\T1/ptm/m/n/10 For Spear-man's test, p-values are com-puted us-ing al-go-rith m AS 89 for $\OML/cmm/m/it/10 n < \OT1/cmr/m/n/10 1290$ \T1/ptm/m/n/10 and [1281] [1282] [1283] [1284] [1285] [1286] [1287] Underfull \hbox (badness 8132) in paragraph at lines 5892--5897 \T1/ptm/m/n/10 then \T1/fi4/bx/n/10 y \T1/ptm/m/n/10 is a den-dro-gram of the s ame graph struc-ture as \T1/fi4/bx/n/10 x \T1/ptm/m/n/10 and for each node, [1288] [1289] [1290] [1291] Underfull \hbox (badness 7081) in paragraph at lines 6147--6150 []\T1/ptm/m/n/10 Objects of class \T1/fi4/bx/n/10 "hclust" \T1/ptm/m/n/10 can b e con-verted to class \T1/fi4/bx/n/10 "dendrogram" \T1/ptm/m/n/10 us-ing method Underfull \hbox (badness 10000) in paragraph at lines 6151--6153 []\T1/fi4/bx/n/10 rev.dendrogram \T1/ptm/m/n/10 sim-ply re-turns the den-dro-gr am \T1/fi4/bx/n/10 x \T1/ptm/m/n/10 with re-versed nodes, see also [1292] [1293] [1294] [1295] [1296] Underfull \vbox (badness 10000) has occurred while \output is active [1297] [1298] [1299] [1300] [1301] [1302] [1303] [1304] Underfull \hbox (badness 10000) in paragraph at lines 6950--6953 []\T1/ptm/m/n/10 optionally, the dis-tance method used; re-sult-ing from [][]\T 1/fi4/bx/n/10 dist[][][]()\T1/ptm/m/n/10 , the [1305] [1306] Underfull \hbox (badness 10000) in paragraph at lines 7087--7090 []\T1/ptm/m/n/10 The CRAN task view on dis-tri-bu-tions, [][]$\T1/fi4/bx/n/10 h ttp : / / cran . r-[]project . org / web / views / [1307] [1308] [1309] [1310] [1311] [1312] [1313] [1314] [1315] [1316] [1317] [1318] [1319] [1320] [1321] [1322] [1323] [1324] [1325] Underfull \vbox (badness 3803) has occurred while \output is active [1326] [1327] [1328] [1329] Underfull \hbox (badness 2626) in paragraph at lines 8508--8511 []\T1/ptm/m/n/10 Either \T1/fi4/bx/n/10 "convolution" \T1/ptm/m/n/10 or \T1/fi4 /bx/n/10 "recursive" \T1/ptm/m/n/10 (and can be ab-bre-vi-ated). If [1330] [1331] Underfull \hbox (badness 2503) in paragraph at lines 8608--8612 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of \T1/fi4/bx/n/10 "two.sided"\T1/ptm/m/n/10 , [1332] [1333] [1334] [1335] [1336] Overfull \hbox (11.88992pt too wide) in paragraph at lines 8942--8944 []\T1/ptm/m/n/10 the char-ac-ter string \T1/fi4/bx/n/10 "Fligner-Killeen test o f homogeneity of variances"\T1/ptm/m/n/10 . [1337] [1338] [1339] [1340] [1341] [1342] [1343] [1344] [1345] Overfull \hbox (15.6622pt too wide) in paragraph at lines 9555--9557 []\T1/ptm/m/n/10 The cu-mu-la-tive haz-ard $\OML/cmm/m/it/10 H\OT1/cmr/m/n/10 ( \OML/cmm/m/it/10 t\OT1/cmr/m/n/10 ) = \OMS/cmsy/m/n/10 ^^@ []\OT1/cmr/m/n/10 (1 \OMS/cmsy/m/n/10 ^^@ \OML/cmm/m/it/10 F\OT1/cmr/m/n/10 (\OML/cmm/m/it/10 t\OT1 /cmr/m/n/10 ))$ \T1/ptm/m/n/10 is \T1/fi4/bx/n/10 -pgamma(t, ..., lower = FALSE , log = TRUE)\T1/ptm/m/n/10 . [1346] [1347] [1348] [1349] [1350] Underfull \hbox (badness 4518) in paragraph at lines 9839--9844 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1351] [1352] [1353] [1354] [1355] Underfull \hbox (badness 2142) in paragraph at lines 10180--10183 []\T1/ptm/m/n/10 positive con-ver-gence tol-er-ance $\OML/cmm/m/it/10 ^^O$\T1/p tm/m/n/10 ; the it-er-a-tions con-verge when $\OMS/cmsy/m/n/10 j\OML/cmm/m/it/1 0 dev \OMS/cmsy/m/n/10 ^^@ Underfull \hbox (badness 1253) in paragraph at lines 10199--10202 []\T1/ptm/m/n/10 When \T1/fi4/bx/n/10 trace \T1/ptm/m/n/10 is true, calls to [] []\T1/fi4/bx/n/10 cat[][][] \T1/ptm/m/n/10 pro-duce the out-put for each IWLS i t-er-a-tion. Hence, [1356] Underfull \hbox (badness 1708) in paragraph at lines 10261--10264 []\T1/ptm/m/n/10 the type of resid-u-als which should be re-turned. The al-ter- na-tives are: [1357] [1358] [1359] [1360] [1361] Underfull \hbox (badness 1694) in paragraph at lines 10625--10628 []\T1/ptm/m/n/10 character vec-tors with row and col-umn la-bels to use; these de-fault to [1362] Underfull \hbox (badness 1867) in paragraph at lines 10644--10653 \T1/ptm/m/n/10 in the row case. If ei-ther is miss-ing, as by de-fault, then th e or-der-ing of the cor-re- [1363] [1364] [1365] [1366] [1367] [1368] [1369]pdfTeX warning (ext4): destinat ion with the same identifier (name{Rfn.hat}) has been already used, duplicate i gnored \relax l.11083 \aliasA{hat}{influence.measures}{hat} [1370] [1371] Underfull \hbox (badness 1484) in paragraph at lines 11207--11209 []\T1/ptm/m/n/10 The func-tion \T1/fi4/bx/n/10 hat() \T1/ptm/m/n/10 ex-ists mai nly for S (ver-sion 2) com-pat-i-bil-ity; we rec-om-mend us-ing [1372] [1373] [1374] [1375] [1376] [1377] [1378] [1379] [1380] Underfull \hbox (badness 4441) in paragraph at lines 11753--11755 []\T1/ptm/m/n/10 vector of dif-fer-enc-ing co-ef-fi-cients, so an ARMA model is fit-ted to [1381] [1382] [1383] [1384] [1385] [1386] [1387] [1388] [1389] [1390] [1391] [1392] [1393] [1394] [1395] [1396] Underfull \hbox (badness 4518) in paragraph at lines 12700--12705 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1397] [1398] [1399] [1400] [1401] [1402] [1403] [1404] [1405] [1406] Underfull \hbox (badness 4518) in paragraph at lines 13318--13323 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1407] [1408] [1409] [1410] [1411] [1412] [1413] [1414] Overfull \hbox (5.6622pt too wide) in paragraph at lines 13863--13865 []\T1/ptm/m/n/10 The cu-mu-la-tive haz-ard $\OML/cmm/m/it/10 H\OT1/cmr/m/n/10 ( \OML/cmm/m/it/10 t\OT1/cmr/m/n/10 ) = \OMS/cmsy/m/n/10 ^^@ []\OT1/cmr/m/n/10 (1 \OMS/cmsy/m/n/10 ^^@ \OML/cmm/m/it/10 F\OT1/cmr/m/n/10 (\OML/cmm/m/it/10 t\OT1 /cmr/m/n/10 ))$ \T1/ptm/m/n/10 is \T1/fi4/bx/n/10 -plnorm(t, r, lower = FALSE, log = TRUE)\T1/ptm/m/n/10 . [1415] [1416] [1417] [1418] [1419] [1420] [1421] [1422] [1423] [1424] [1425] Underfull \hbox (badness 2503) in paragraph at lines 14478--14482 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of \T1/fi4/bx/n/10 "two.sided"\T1/ptm/m/n/10 , [1426] [1427] Underfull \vbox (badness 10000) has occurred while \output is active [1428] [1429] [1430] [1431] [1432] [1433] [1434] Underfull \hbox (badness 3009) in paragraph at lines 14985--14991 []\T1/fi4/bx/n/10 model.offset \T1/ptm/m/n/10 and \T1/fi4/bx/n/10 model.respons e \T1/ptm/m/n/10 are equiv-a-lent to \T1/fi4/bx/n/10 model.extract(, "offset") \T1/ptm/m/n/10 and [1435] [1436] [1437] [1438] [1439] [1440] [1441] [1442] [1443] [1444] [1445] [1446] [1447] [1448] [1449] [1450] [1451] [1452] [1453] [1454] [1455] [1456] [1457] [1458] [1459] [1460] [1461] Underfull \vbox (badness 10000) has occurred while \output is active [1462] Underfull \vbox (badness 10000) has occurred while \output is active [1463] [1464] [1465] [1466] [1467] [1468] [1469] [1470] [1471] [1472] [1473] [1474] [1475] Underfull \hbox (badness 1377) in paragraph at lines 17468--17473 []\T1/ptm/m/n/10 A vec-tor of scal-ing val-ues for the pa-ram-e-ters. Op-ti-miz a-tion is per-formed on Underfull \hbox (badness 1735) in paragraph at lines 17473--17476 []\T1/ptm/m/n/10 A vec-tor of step sizes for the finite-difference ap-prox-i-ma -tion to the gra-di-ent, on Underfull \hbox (badness 2343) in paragraph at lines 17486--17490 []\T1/ptm/m/n/10 Relative con-ver-gence tol-er-ance. The al-go-rithm stops if i t is un-able to re-duce Underfull \hbox (badness 2080) in paragraph at lines 17486--17490 \T1/ptm/m/n/10 the value by a fac-tor of \T1/fi4/bx/n/10 reltol * (abs(val) + r eltol) \T1/ptm/m/n/10 at a step. De-faults to Underfull \hbox (badness 2662) in paragraph at lines 17494--17498 []\T1/ptm/m/n/10 The fre-quency of re-ports for the \T1/fi4/bx/n/10 "BFGS"\T1/p tm/m/n/10 , \T1/fi4/bx/n/10 "L-BFGS-B" \T1/ptm/m/n/10 and \T1/fi4/bx/n/10 "SANN " \T1/ptm/m/n/10 meth-ods if [1476] [1477] [1478] [1479] [1480] [1481] [1482] [1483] [1484] [1485] Underfull \hbox (badness 1337) in paragraph at lines 18103--18106 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1486] [1487] [1488] [1489] [1490] [1491] [1492] [1493] [1494] [1495] [1496] [1497] [1498] Underfull \hbox (badness 5563) in paragraph at lines 18830--18832 []\T1/ptm/m/n/10 logical. If \T1/fi4/bx/n/10 TRUE\T1/ptm/m/n/10 , add to al-rea dy ex-ist-ing plot. Only valid for Underfull \hbox (badness 1194) in paragraph at lines 18833--18836 []\T1/ptm/m/n/10 coverage prob-a-bil-ity for con-fi-dence in-ter-val. Plot-ting of the con-fi-dence [1499] [1500] [1501] [1502] [1503] Underfull \hbox (badness 1675) in paragraph at lines 19120--19123 []\T1/ptm/m/n/10 Setting \T1/fi4/bx/n/10 lower.tail = FALSE \T1/ptm/m/n/10 al-l ows to get much more pre-cise re-sults when the de-fault, [1504] Underfull \hbox (badness 2503) in paragraph at lines 19197--19200 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of \T1/fi4/bx/n/10 "two.sided"\T1/ptm/m/n/10 , [1505] Underfull \hbox (badness 10000) in paragraph at lines 19224--19226 []\T1/ptm/m/n/10 the char-ac-ter string \T1/fi4/bx/n/10 "Exact Poisson test" \T 1/ptm/m/n/10 or [1506] [1507] [1508] [1509] [1510] [1511] [1512] [1513] [1514] [1515] [1516] [1517] [1518] [1519] [1520] Underfull \hbox (badness 10000) in paragraph at lines 20189--20195 []\T1/ptm/m/n/10 For time-series pre-dic-tion, [][]\T1/fi4/bx/n/10 predict.ar[] [][]\T1/ptm/m/n/10 , [][]\T1/fi4/bx/n/10 predict.Arima[][][]\T1/ptm/m/n/10 , [] []\T1/fi4/bx/n/10 predict.arima0[][][]\T1/ptm/m/n/10 , [1521] [1522] [1523] [1524] [1525] [1526] [1527] [1528] [1529] [1530] [1531] [1532] [1533] [1534] [1535] [1536] [1537] Underfull \hbox (badness 2111) in paragraph at lines 21140--21145 []\T1/ptm/m/n/10 Utility func-tion to be used in higher-level [][]\T1/fi4/bx/n/ 10 print[][][] \T1/ptm/m/n/10 meth-ods, such as [][]\T1/fi4/bx/n/10 print.summa ry.lm[][][]\T1/ptm/m/n/10 , [1538] [1539] [1540] [1541] [1542] Underfull \hbox (badness 1337) in paragraph at lines 21478--21484 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1543] [1544] [1545] [1546] [1547] [1548] [1549] [1550] [1551] [1552] [1553] [1554] Underfull \hbox (badness 10000) in paragraph at lines 22222--22225 []\T1/ptm/m/n/10 Optional vec-tor with clus-ter mem-ber-ships as re-turned by Underfull \hbox (badness 1675) in paragraph at lines 22222--22225 \T1/fi4/bx/n/10 cutree(hclust.obj, k = k)\T1/ptm/m/n/10 , can be spec-i-fied fo r ef-fi-ciency if al-ready [1555] [1556] [1557] [1558] [1559] [1560] [1561] [1562] [1563] [1564] Underfull \hbox (badness 10000) in paragraph at lines 22797--22800 []\T1/ptm/m/n/10 Apart from the end val-ues, the re-sult \T1/fi4/bx/n/10 y = ru nmed(x, k) \T1/ptm/m/n/10 sim-ply has Underfull \hbox (badness 3690) in paragraph at lines 22846--22850 [][][]\T1/fi4/bx/n/10 smoothEnds[][][] \T1/ptm/m/n/10 which im-ple-ments Tukey' s end point rule and is called by de-fault from Underfull \hbox (badness 1062) in paragraph at lines 22846--22850 \T1/fi4/bx/n/10 runmed(*, endrule = "median")\T1/ptm/m/n/10 . [][]\T1/fi4/bx/n/ 10 smooth[][][] \T1/ptm/m/n/10 uses run-ning me-di-ans of 3 for its com-pound [1565] [1566] [1567] [1568] [1569] [1570] [1571] [1572] [1573] [1574] [1575] [1576] [1577] [1578] [1579] [1580] [1581] [1582] [1583] [1584] [1585] [1586] [1587] [1588] [1589] [1590] [1591] [1592] [1593] [1594] [1595] [1596] Underfull \hbox (badness 3514) in paragraph at lines 24785--24790 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/fi4/bx/n/10 input \T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1597] Underfull \hbox (badness 3514) in paragraph at lines 24847--24852 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/fi4/bx/n/10 input \T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1598] Underfull \hbox (badness 3514) in paragraph at lines 24904--24909 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/fi4/bx/n/10 input \T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1599] Underfull \hbox (badness 3514) in paragraph at lines 24965--24971 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/fi4/bx/n/10 input \T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1600] [1601] [1602] Underfull \hbox (badness 2376) in paragraph at lines 25097--25100 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/fi4/bx/n/10 input \T1/ptm/m/n/10 , which is the value of the ex-pres-sion Overfull \hbox (62.28088pt too wide) in paragraph at lines 25097--25100 \T1/fi4/bx/n/10 Dose * exp(lKe+lKa-lCl) * (exp(-exp(lKe)*input)-exp(-exp(lKa)*i nput)) / (exp(lKa)-exp(lKe))\T1/ptm/m/n/10 . [1603] Underfull \hbox (badness 3514) in paragraph at lines 25157--25162 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/fi4/bx/n/10 input \T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1604] Underfull \hbox (badness 3514) in paragraph at lines 25213--25218 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/fi4/bx/n/10 input \T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1605] Underfull \hbox (badness 3514) in paragraph at lines 25270--25275 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/fi4/bx/n/10 input \T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1606] Underfull \hbox (badness 3514) in paragraph at lines 25325--25330 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/fi4/bx/n/10 input \T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1607] Underfull \hbox (badness 6691) in paragraph at lines 25394--25399 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/fi4/bx/n/10 x\T1/ ptm/m/n/10 . It is the value of the ex-pres-sion [1608] [1609] [1610] [1611] [1612] [1613] [1614] Underfull \hbox (badness 10000) in paragraph at lines 25864--25867 []\T1/ptm/m/n/10 the span (in lags) of the loess win-dow for trend ex- Underfull \hbox (badness 10000) in paragraph at lines 25864--25867 \T1/ptm/m/n/10 trac-tion, which should be odd. If \T1/fi4/bx/n/10 NULL\T1/ptm/m /n/10 , the de-fault, [1615] [1616] [1617] [1618] [1619] [1620] [1621] [1622] [1623] [1624] [1625] Underfull \hbox (badness 5431) in paragraph at lines 26463--26465 []\T1/ptm/m/n/10 the cor-re-la-tion ma-trix cor-re-spond-ing to the above \T1/f i4/bx/n/10 cov.unscaled\T1/ptm/m/n/10 , if [1626] [1627] [1628] Underfull \hbox (badness 5431) in paragraph at lines 26666--26669 []\T1/ptm/m/n/10 the cor-re-la-tion ma-trix cor-re-spond-ing to the above \T1/f i4/bx/n/10 cov.unscaled\T1/ptm/m/n/10 , if [1629] [1630] [1631] [1632] [1633] [1634] Underfull \hbox (badness 1337) in paragraph at lines 26977--26981 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1635] [1636] Underfull \hbox (badness 10000) in paragraph at lines 27094--27097 []\T1/ptm/m/n/10 non-centrality pa-ram-e-ter $\OML/cmm/m/it/10 ^^N$\T1/ptm/m/n/ 10 ; cur-rently ex-cept for \T1/fi4/bx/n/10 rt()\T1/ptm/m/n/10 , only for [1637] [1638] Underfull \hbox (badness 1616) in paragraph at lines 27267--27270 []\T1/ptm/m/n/10 color, plot-ting char-ac-ter ex-pan-sion and type for par-tial resid-u-als, when [1639] Underfull \hbox (badness 4518) in paragraph at lines 27291--27294 []\T1/ptm/m/n/10 For the \T1/fi4/bx/n/10 partial.resid=TRUE \T1/ptm/m/n/10 op-t ion it must have a [][]\T1/fi4/bx/n/10 residuals[][][] \T1/ptm/m/n/10 method th at ac-cepts [1640] [1641] [1642] [1643] [1644] [1645] [1646] [1647] [1648] [1649] [1650] [1651] [1652] [1653] [1654] [1655] [1656] [1657] [1658] [1659] [1660] Underfull \hbox (badness 1337) in paragraph at lines 28590--28594 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1661] [1662] [1663] [1664] Overfull \hbox (28.1622pt too wide) in paragraph at lines 28838--28841 []\T1/ptm/m/n/10 The cu-mu-la-tive haz-ard $\OML/cmm/m/it/10 H\OT1/cmr/m/n/10 ( \OML/cmm/m/it/10 t\OT1/cmr/m/n/10 ) = \OMS/cmsy/m/n/10 ^^@ []\OT1/cmr/m/n/10 (1 \OMS/cmsy/m/n/10 ^^@ \OML/cmm/m/it/10 F\OT1/cmr/m/n/10 (\OML/cmm/m/it/10 t\OT1 /cmr/m/n/10 ))$ \T1/ptm/m/n/10 is \T1/fi4/bx/n/10 -pweibull(t, a, b, lower = FA LSE, log = TRUE) [1665] [1666] [1667] [1668] Underfull \hbox (badness 1337) in paragraph at lines 29061--29065 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1669] [1670] Underfull \hbox (badness 5161) in paragraph at lines 29154--29156 []\T1/ptm/m/n/10 an es-ti-mate of the lo-ca-tion pa-ram-e-ter. (Only present if ar-gu-ment [1671] [1672] [1673] [1674] [1675] Underfull \hbox (badness 10000) in paragraph at lines 29510--29515 []\T1/ptm/m/n/10 There is a \T1/fi4/bx/n/10 summary \T1/ptm/m/n/10 method for c on-tin-gency ta-ble ob-jects cre-ated by \T1/fi4/bx/n/10 table \T1/ptm/m/n/10 o r Underfull \hbox (badness 1303) in paragraph at lines 29510--29515 \T1/fi4/bx/n/10 xtabs(*, sparse=FALSE)\T1/ptm/m/n/10 , which gives ba-sic in-fo r-ma-tion and per-forms a chi-squared test Underfull \hbox (badness 1308) in paragraph at lines 29522--29525 []\T1/ptm/m/n/10 By de-fault, when \T1/fi4/bx/n/10 sparse=FALSE\T1/ptm/m/n/10 , a con-tin-gency ta-ble in ar-ray rep-re-sen-ta-tion of S3 class [1676] [1677] [1678]) (./stats4-pkg.tex Chapter 9. [1679] [1680] [1681] [1682] [1683] [1684]pdfTeX warning (ext4): destination wit h the same identifier (name{Rfn.show.Rdash.methods}) has been already used, dup licate ignored \relax l.407 ...Package \pkg{stats4}}{show.Rdash.methods} [1685] [1686] [1687] [1688]) (./tcltk-pkg.tex Chapter 10. [1689] [1690] [1691] [1692] [1693] [1694] [1695] Underfull \vbox (badness 10000) has occurred while \output is active [1696] Underfull \vbox (badness 10000) has occurred while \output is active [1697] Underfull \hbox (badness 1546) in paragraph at lines 644--651 []\T1/fi4/bx/n/10 tcl \T1/ptm/m/n/10 pro-vides a generic in-ter-face to call-in g any Tk or Tcl com-mand by sim-ply run-ning [1698] [1699] [1700] [1701] Underfull \vbox (badness 10000) has occurred while \output is active [1702] [1703] [1704] [1705] [1706] [1707] [1708] [1709]) (./tools-pkg.tex [1710] Chapter 11. LaTeX Font Warning: Font shape `T1/fi4/m/it' undefined (Font) using `T1/fi4/m/n' instead on input line 26. [1711] Underfull \hbox (badness 10000) in paragraph at lines 120--135 \T1/fi4/bx/n/10 formatIncollection\T1/ptm/m/n/10 , \T1/fi4/bx/n/10 formatInProc eedings\T1/ptm/m/n/10 , \T1/fi4/bx/n/10 formatManual\T1/ptm/m/n/10 , \T1/fi4/bx /n/10 formatMastersthesis\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 120--135 \T1/fi4/bx/n/10 formatMisc\T1/ptm/m/n/10 , \T1/fi4/bx/n/10 formatPhdthesis\T1/p tm/m/n/10 , \T1/fi4/bx/n/10 formatProceedings\T1/ptm/m/n/10 , \T1/fi4/bx/n/10 f ormatTechreport \T1/ptm/m/n/10 and [1712] [1713] [1714] Underfull \hbox (badness 2080) in paragraph at lines 251--256 \T1/ptm/m/n/10 ac-ters. It is sorted by Uni-code point and within a point al-ph a-bet-i-cally on the glyph Underfull \hbox (badness 2644) in paragraph at lines 251--256 \T1/ptm/m/n/10 (there can be more than one name for a Uni-code point). The data are in the file [1715] [1716] [1717] Underfull \vbox (badness 10000) has occurred while \output is active [1718] [1719] [1720] [1721] Underfull \hbox (badness 1635) in paragraph at lines 666--668 []\T1/ptm/m/n/10 Delete files in the tem-po-rary di-rec-tory? This op-tion is i g-nored when [1722] [1723] Underfull \hbox (badness 10000) in paragraph at lines 814--816 []\T1/ptm/m/n/10 Re-save PDF files (es-pe-cially vi-gnettes) more com-pactly. S up-port func-tion for [1724] [1725] [1726] Underfull \hbox (badness 7981) in paragraph at lines 980--984 []\T1/ptm/m/n/10 a char-ac-ter vec-tor list-ing the types of de-pen-den-cies, a sub-set of Overfull \hbox (9.55087pt too wide) in paragraph at lines 980--984 \T1/fi4/bx/n/10 c("Depends", "Imports", "LinkingTo", "Suggests", "Enhances ")\T1/ptm/m/n/10 . Underfull \hbox (badness 1082) in paragraph at lines 986--988 []\T1/ptm/m/n/10 a char-ac-ter vec-tor of \T1/phv/m/n/10 R \T1/ptm/m/n/10 li-br ary trees, or \T1/fi4/bx/n/10 NULL \T1/ptm/m/n/10 for all known trees (see [1727] [1728] [1729] [1730] [1731] Underfull \hbox (badness 5726) in paragraph at lines 1249--1254 []\T1/ptm/m/n/10 If \T1/fi4/bx/n/10 reduce \T1/ptm/m/n/10 is \T1/fi4/bx/n/10 TR UE\T1/ptm/m/n/10 , the sys-tem will col-lapse the fields in the \T1/fi4/bx/n/10 DependsList \T1/ptm/m/n/10 ob-ject Underfull \hbox (badness 7221) in paragraph at lines 1249--1254 \T1/ptm/m/n/10 such that a min-i-mal set of de-pen-den-cies are spec-i-fied (fo r in-stance if there was [1732] [1733] [1734] [1735] [1736] Underfull \hbox (badness 7981) in paragraph at lines 1531--1536 []\T1/ptm/m/n/10 a char-ac-ter vec-tor list-ing the types of de-pen-den-cies, a sub-set of Overfull \hbox (9.55087pt too wide) in paragraph at lines 1531--1536 \T1/fi4/bx/n/10 c("Depends", "Imports", "LinkingTo", "Suggests", "Enhances ")\T1/ptm/m/n/10 . [1737] [1738] [1739] [1740] LaTeX Font Warning: Font shape `T1/fi4/m/sl' undefined (Font) using `T1/fi4/m/n' instead on input line 1782. [1741] [1742] [1743] [1744] Underfull \hbox (badness 1424) in paragraph at lines 2018--2020 []\T1/fi4/m/sl/10 NULL \T1/ptm/m/n/10 or a named (by top-ics) char-ac-ter vec-t or of links, as re-turned by [1745] [1746] [1747] [1748] [1749] [1750] [1751] [1752] Underfull \hbox (badness 1675) in paragraph at lines 2529--2531 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing how the news en-tries shoul d be \T1/ptm/m/it/10 chopped\T1/ptm/m/n/10 ; [1753] [1754] [1755] [1756] [1757] [1758] [1759] [1760] [1761] Underfull \hbox (badness 5726) in paragraph at lines 3093--3098 []\T1/ptm/m/n/10 If \T1/fi4/m/sl/10 reduce \T1/ptm/m/n/10 is \T1/fi4/m/sl/10 TR UE\T1/ptm/m/n/10 , the sys-tem will col-lapse the fields in the \T1/fi4/m/sl/10 DependsList \T1/ptm/m/n/10 ob-ject Underfull \hbox (badness 7221) in paragraph at lines 3093--3098 \T1/ptm/m/n/10 such that a min-i-mal set of de-pen-den-cies are spec-i-fied (fo r in-stance if there was [1762] Underfull \hbox (badness 1688) in paragraph at lines 3144--3156 []\T1/ptm/m/n/10 a char-ac-ter vec-tor giv-ing the fields to be used in the `\T 1/fi4/m/sl/10 PACKAGES\T1/ptm/m/n/10 ' and [1763] [1764] [1765] [1766]) (./utils-pkg.tex Chapter 12. [1767] Underfull \hbox (badness 2556) in paragraph at lines 47--52 []\T1/ptm/m/n/10 a nu-meric vec-tor or list with names par-tially match-ing `\T 1/fi4/m/sl/10 insertions\T1/ptm/m/n/10 ', [1768] [1769] Underfull \hbox (badness 1454) in paragraph at lines 198--201 []\T1/ptm/m/n/10 logical in-di-cat-ing if the search should be case-insensitive , \T1/fi4/m/sl/10 TRUE \T1/ptm/m/n/10 by de- Underfull \hbox (badness 1540) in paragraph at lines 214--217 []\T1/fi4/m/sl/10 find \T1/ptm/m/n/10 is a dif-fer-ent user in-ter-face for the same task as \T1/fi4/m/sl/10 apropos\T1/ptm/m/n/10 . How-ever, by de-fault [1770] [1771] [1772] [1773] [1774] [1775] Underfull \hbox (badness 5847) in paragraph at lines 584--590 []\T1/ptm/m/n/10 Argument \T1/fi4/m/sl/10 filters \T1/ptm/m/n/10 can be used to se-lect which of the pack-ages on the repos-i-to- Underfull \hbox (badness 4229) in paragraph at lines 584--590 \T1/ptm/m/n/10 ries are re-ported. It is called with its de-fault value (\T1/fi 4/m/sl/10 NULL\T1/ptm/m/n/10 ) by func-tions such as [1776] [1777] [1778] [1779] [1780] Underfull \vbox (badness 3803) has occurred while \output is active [1781] [1782] [1783] [1784] [1785] Underfull \hbox (badness 1371) in paragraph at lines 1201--1203 []\T1/ptm/m/n/10 additional named ar-gu-ments such as \T1/fi4/m/sl/10 method \T 1/ptm/m/n/10 and \T1/fi4/m/sl/10 ccaddress \T1/ptm/m/n/10 to pass to [1786] [1787] [1788] [1789] Underfull \hbox (badness 2057) in paragraph at lines 1469--1471 []\T1/ptm/m/n/10 None for \T1/fi4/m/sl/10 chooseCRANmirror()\T1/ptm/m/n/10 , th is func-tion is in-voked for its side ef-fect of up-dat-ing [1790] [1791] [1792] [1793] Underfull \hbox (badness 1661) in paragraph at lines 1704--1711 []\T1/ptm/m/n/10 logical in-di-cat-ing if the re-sult should be sim-pli-fied to an [][]\T1/fi4/m/sl/10 array[][][] \T1/ptm/m/n/10 (typ-i- Underfull \hbox (badness 1990) in paragraph at lines 1716--1719 []\T1/ptm/m/n/10 a [][]\T1/fi4/m/sl/10 list[][][] \T1/ptm/m/n/10 or [][]\T1/fi4 /m/sl/10 array[][][]\T1/ptm/m/n/10 , see the \T1/fi4/m/sl/10 simplify \T1/ptm/m /n/10 ar-gu-ment above. In the lat-ter case, the iden-tity [1794] [1795] [1796] [1797] [1798] [1799] Overfull \hbox (6.10922pt too wide) in paragraph at lines 2100--2103 []\T1/ptm/m/n/10 files end-ing `\T1/fi4/m/sl/10 .csv\T1/ptm/m/n/10 ' or `\T1/fi 4/m/sl/10 .CSV\T1/ptm/m/n/10 ' are read us-ing [][]\T1/fi4/m/sl/10 read.table[] [][](..., header = TRUE, sep = ";")\T1/ptm/m/n/10 , [1800] [1801] [1802] [1803] [1804] [1805] [1806] [1807] Underfull \hbox (badness 1430) in paragraph at lines 2629--2635 []\T1/ptm/m/n/10 The level of de-tail pro-vided dur-ing trans-fer can be set by the \T1/fi4/m/sl/10 quiet \T1/ptm/m/n/10 ar-gu-ment and the Underfull \hbox (badness 2837) in paragraph at lines 2629--2635 \T1/fi4/m/sl/10 internet.info \T1/ptm/m/n/10 op-tion. The de-tails de-pend on t he plat-form and scheme, but set-ting [1808] Underfull \hbox (badness 1231) in paragraph at lines 2673--2679 []\T1/ptm/m/n/10 Usernames and pass-words can be set for HTTP proxy trans-fers via en-vi-ron-ment vari-able [1809] [1810] [1811] [1812] [1813] Underfull \hbox (badness 1210) in paragraph at lines 3044--3051 []\T1/ptm/m/n/10 logical or ex-pres-sion; if not \T1/fi4/m/sl/10 FALSE\T1/ptm/m /n/10 , the ran-dom num-ber gen-er-a-tor state [1814] [1815] [1816] [1817] [1818] [1819] [1820]pdfTeX warning (ext4): destinat ion with the same identifier (name{Rfn.format}) has been already used, duplicat e ignored \relax l.3428 ...mat Unordered and Ordered Lists}{format} pdfTeX warning (ext4): destin ation with the same identifier (name{Rfn.format.1}) has been already used, dupl icate ignored \relax l.3428 ...mat Unordered and Ordered Lists}{format} [1821] [1822] [1823] [1824] [1825] [1826] [1827] [1828] [1829] [1830] [1831] [1832] Underfull \hbox (badness 1371) in paragraph at lines 4199--4201 []\T1/ptm/m/n/10 additional named ar-gu-ments such as \T1/fi4/m/sl/10 method \T 1/ptm/m/n/10 and \T1/fi4/m/sl/10 ccaddress \T1/ptm/m/n/10 to pass to [1833] [1834] Underfull \hbox (badness 1502) in paragraph at lines 4288--4293 []\T1/ptm/m/n/10 a char-ac-ter string to be matched in the help page `key-words '. `Key- Underfull \hbox (badness 2103) in paragraph at lines 4288--4293 \T1/ptm/m/n/10 words' are re-ally cat-e-gories: the stan-dard cat-e-gories are listed in file [1835] [1836] Underfull \hbox (badness 10000) in paragraph at lines 4452--4461 []\T1/ptm/m/n/10 One of the links on the in-dex page is the HTML pack-age in-de x, [1837] [1838] Underfull \hbox (badness 3118) in paragraph at lines 4568--4570 []\T1/ptm/m/n/10 For de-tails of the lock-ing which is done, see the sec-tion ` Lock-ing' in the help for [1839] Underfull \hbox (badness 2057) in paragraph at lines 4648--4654 \T1/ptm/m/n/10 can be source archives or bi-nary pack-age archive files (as cre -ated by [1840] Underfull \hbox (badness 1348) in paragraph at lines 4694--4699 []\T1/ptm/m/n/10 logical in-di-cat-ing to also in-stall unin-stalled pack-ages which these pack- Underfull \hbox (badness 3884) in paragraph at lines 4694--4699 \T1/ptm/m/n/10 ages de-pend on/link to/import/suggest (and so on re-cur-sively) . Not Underfull \hbox (badness 3657) in paragraph at lines 4694--4699 \T1/ptm/m/n/10 used if \T1/fi4/m/sl/10 repos = NULL\T1/ptm/m/n/10 . Can also be a char-ac-ter vec-tor, a sub-set of Underfull \hbox (badness 10000) in paragraph at lines 4707--4714 []\T1/fi4/m/sl/10 TRUE \T1/ptm/m/n/10 means (as from \T1/phv/m/n/10 R \T1/ptm/m /n/10 2.15.0) to use Underfull \hbox (badness 10000) in paragraph at lines 4707--4714 \T1/fi4/m/sl/10 c("Depends", "Imports", "LinkingTo", "Suggests") \T1/ptm/m/n/10 for \T1/fi4/m/sl/10 pkgs \T1/ptm/m/n/10 and Underfull \hbox (badness 2103) in paragraph at lines 4707--4714 \T1/fi4/m/sl/10 c("Depends", "Imports", "LinkingTo") \T1/ptm/m/n/10 for added d e-pen-den-cies: this Underfull \hbox (badness 10000) in paragraph at lines 4748--4751 []\T1/ptm/m/n/10 (not used on Win-dows) anal-o-gous to \T1/fi4/m/sl/10 configur e.args \T1/ptm/m/n/10 for flag [1841] Underfull \hbox (badness 10000) in paragraph at lines 4772--4775 []\T1/ptm/m/n/10 an op-tional char-ac-ter vec-tor of ad-di-tional op-tion(s) to be Underfull \hbox (badness 10000) in paragraph at lines 4772--4775 \T1/ptm/m/n/10 passed to \T1/fi4/m/sl/10 R CMD INSTALL \T1/ptm/m/n/10 for a sou rce pack-age in-stall. E.g. [1842] Underfull \hbox (badness 10000) in paragraph at lines 4883--4888 [][][]\T1/fi4/m/sl/10 update.packages[][][]\T1/ptm/m/n/10 , [][]\T1/fi4/m/sl/10 available.packages[][][]\T1/ptm/m/n/10 , [][]\T1/fi4/m/sl/10 download.packages [][][]\T1/ptm/m/n/10 , [][]\T1/fi4/m/sl/10 installed.packages[][][]\T1/ptm/m/n/ 10 , [1843] [1844] [1845] [1846] [1847] [1848] [1849] [1850] [1851] [1852] [1853] [1854] [1855] [1856] [1857] [1858] [1859] [1860] Underfull \hbox (badness 10000) in paragraph at lines 6009--6011 []\T1/fi4/m/sl/10 packageVersion() \T1/ptm/m/n/10 is a con-ve-nience short-cut, al-low-ing things like Underfull \hbox (badness 2310) in paragraph at lines 6014--6019 []\T1/ptm/m/n/10 If a `\T1/fi4/m/sl/10 DESCRIPTION\T1/ptm/m/n/10 ' file for the given pack-age is found and can suc-cess-fully be read, [1861] [1862] Underfull \hbox (badness 10000) in paragraph at lines 6120--6123 []\T1/ptm/m/n/10 a data frame with columns as the \T1/ptm/m/it/10 ma-trix \T1/p tm/m/n/10 re-turned by Underfull \hbox (badness 10000) in paragraph at lines 6120--6123 [][]\T1/fi4/m/sl/10 available.packages[][][] \T1/ptm/m/n/10 plus \T1/fi4/m/sl/1 0 "Status"\T1/ptm/m/n/10 , a fac-tor with lev-els [1863] [1864] [1865] [1866] [1867] [1868] [1869] [1870] [1871] [1872] [1873] [1874] [1875] [1876] [1877] Underfull \hbox (badness 1163) in paragraph at lines 7106--7109 []\T1/ptm/m/n/10 the to-ken that was (or, is to be) com-pleted, as set by the l ast call to [1878] [1879] Underfull \hbox (badness 1097) in paragraph at lines 7257--7260 []\T1/ptm/m/n/10 The name \T1/fi4/m/sl/10 "clipboard" \T1/ptm/m/n/10 may also b e used on Win-dows, in which case [1880] [1881] Underfull \hbox (badness 3000) in paragraph at lines 7385--7390 [][][]\T1/fi4/m/sl/10 scan[][][]\T1/ptm/m/n/10 , [][]\T1/fi4/m/sl/10 type.conve rt[][][]\T1/ptm/m/n/10 , [][]\T1/fi4/m/sl/10 read.fwf[][][] \T1/ptm/m/n/10 for read-ing \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ixed \T1/ptm/m/it/10 w\T1/ptm/m/n/10 i dth \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ormatted in-put; [][]\T1/fi4/m/sl/10 read.t able[][][]\T1/ptm/m/n/10 ; [1882] [1883] [1884] [1885] [1886] [1887] [1888] [1889] [1890] Underfull \hbox (badness 2134) in paragraph at lines 7944--7949 [][][]\T1/fi4/m/sl/10 scan[][][]\T1/ptm/m/n/10 , [][]\T1/fi4/m/sl/10 type.conve rt[][][]\T1/ptm/m/n/10 , [][]\T1/fi4/m/sl/10 read.fwf[][][] \T1/ptm/m/n/10 for read-ing \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ixed \T1/ptm/m/it/10 w\T1/ptm/m/n/10 i dth \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ormatted in-put; [][]\T1/fi4/m/sl/10 write. table[][][]\T1/ptm/m/n/10 ; [1891] [1892] [1893] [1894] [1895] [1896] [1897] [1898] [1899] [1900] [1901] [1902] [1903] [1904] [1905] Underfull \hbox (badness 10000) in paragraph at lines 8862--8864 [][][]$\T1/fi4/m/sl/10 http : / / en . wikipedia . org / wiki / Ctags$[][]\T1/p tm/m/n/10 , [][]$\T1/fi4/m/sl/10 http : / / www . gnu . org / software / emacs / [1906] [1907] [1908] Underfull \hbox (badness 10000) in paragraph at lines 9040--9044 []\T1/ptm/m/n/10 The de-fault for \T1/fi4/m/sl/10 stylepath \T1/ptm/m/n/10 is n ow taken from the en-vi-ron-ment vari-able Underfull \hbox (badness 10000) in paragraph at lines 9071--9077 []\T1/ptm/m/n/10 If you wish to over-ride this de-fault be-hav-ior en-tirely, y ou can add a [1909] [1910] Underfull \hbox (badness 2096) in paragraph at lines 9185--9188 []\T1/ptm/m/n/10 logical (\T1/fi4/m/sl/10 FALSE\T1/ptm/m/n/10 ), in-di-cat-ing whether PNG fig-ures should be gen-er-ated. Ig-nored if Underfull \hbox (badness 1527) in paragraph at lines 9189--9192 []\T1/ptm/m/n/10 logical (\T1/fi4/m/sl/10 FALSE\T1/ptm/m/n/10 ), in-di-cat-ing whether JPEG fig-ures should be gen-er-ated. Ig-nored if Underfull \hbox (badness 1009) in paragraph at lines 9256--9267 []\T1/ptm/m/n/10 Before each code chunk is eval-u-ated, zero or more hook func- tions can be ex-e-cuted. If [1911] [1912] [1913] [1914] [1915] [1916] Underfull \hbox (badness 2635) in paragraph at lines 9557--9560 []\T1/ptm/m/n/10 Repository `\T1/fi4/m/sl/10 CRAN\T1/ptm/m/n/10 ' is treated sp e-cially: the value is taken from the cur-rent set-ting of [1917] [1918] [1919] [1920] [1921] Underfull \hbox (badness 5970) in paragraph at lines 9920--9923 []\T1/ptm/m/n/10 the page width to be used. The de-fault is the cur-rently ac-t ive [1922] Underfull \hbox (badness 1910) in paragraph at lines 9931--9940 \T1/ptm/m/n/10 strictly, one of the val-ues \T1/fi4/m/sl/10 c("no", "cut", "wra p")\T1/ptm/m/n/10 . De-faults to the [1923] [1924] [1925] [1926] Underfull \hbox (badness 2213) in paragraph at lines 10215--10222 []\T1/ptm/m/n/10 If \T1/fi4/m/sl/10 syntax = NULL \T1/ptm/m/n/10 (the de-fault) then the avail-able syn-tax ob-jects are con-sulted in turn, Underfull \hbox (badness 1688) in paragraph at lines 10215--10222 \T1/ptm/m/n/10 and se-lected if their \T1/fi4/m/sl/10 extension \T1/ptm/m/n/10 com-po-nent matches (as a reg-exp) the file name. Ob- [1927] [1928] [1929] Underfull \hbox (badness 10000) in paragraph at lines 10434--10437 [][][]$\T1/fi4/m/sl/10 http : / / en . wikipedia . org / wiki / Tar _ (file _ f ormat)$[][]\T1/ptm/m/n/10 , [][]$\T1/fi4/m/sl/10 http : / / pubs . opengroup . org / Underfull \hbox (badness 2245) in paragraph at lines 10434--10437 \T1/fi4/m/sl/10 onlinepubs / 9699919799 / utilities / pax . html # tag _ 20 _ 9 2 _ 13 _ 06$[][] \T1/ptm/m/n/10 for the way the POSIX [1930] [1931] [1932] [1933] [1934] [1935] [1936] [1937] Underfull \hbox (badness 10000) in paragraph at lines 10928--10930 []\T1/ptm/m/n/10 Arguments such as \T1/fi4/m/sl/10 destdir \T1/ptm/m/n/10 and \ T1/fi4/m/sl/10 dependencies \T1/ptm/m/n/10 to be passed to Underfull \hbox (badness 1052) in paragraph at lines 10931--10933 []\T1/ptm/m/n/10 character, in-di-cat-ing the type of pack-age to down-load and in-stall. See [1938] Underfull \hbox (badness 10000) in paragraph at lines 10961--10966 []\T1/ptm/m/n/10 For how the list of suit-able avail-able pack-ages is de-ter-m ined Underfull \hbox (badness 10000) in paragraph at lines 10961--10966 \T1/ptm/m/n/10 see [][]\T1/fi4/m/sl/10 available.packages[][][]\T1/ptm/m/n/10 . \T1/fi4/m/sl/10 available = NULL \T1/ptm/m/n/10 make a call to Underfull \hbox (badness 6961) in paragraph at lines 10961--10966 \T1/fi4/m/sl/10 available.packages(contriburl = contriburl, method = method) \T 1/ptm/m/n/10 and hence by de- Underfull \hbox (badness 10000) in paragraph at lines 10990--10993 [][][]\T1/fi4/m/sl/10 install.packages[][][]\T1/ptm/m/n/10 , [][]\T1/fi4/m/sl/1 0 available.packages[][][]\T1/ptm/m/n/10 , [][]\T1/fi4/m/sl/10 download.package s[][][]\T1/ptm/m/n/10 , [][]\T1/fi4/m/sl/10 installed.packages[][][]\T1/ptm/m/n /10 , [1939] [1940] Underfull \hbox (badness 10000) in paragraph at lines 11083--11088 []\T1/ptm/m/n/10 Characters in a URL other than the En-glish al-phanu-meric cha r-ac-ters and [1941] [1942] [1943] [1944] [1945] Underfull \hbox (badness 10000) in paragraph at lines 11401--11403 []\T1/ptm/m/n/10 To write a Unix-style file on Win-dows, use a bi-nary con-nec- tion e.g. [1946] [1947] [1948]) (./refman.ind [1949] [1950] [1951] [1952] [1953] [1954] [1955] [1956] [1957] [1958] [1959] [1960] [1961] [1962] [1963] [1964] [1965] [1966] [1967] [1968] [1969] [1970] [1971] [1972] [1973] [1974] [1975] [1976] [1977] [1978] [1979] [1980] [1981] [1982] [1983] [1984] [1985] [1986] [1987] [1988] [1989] [1990] [1991] [1992] [1993] [1994] [1995] [1996] [1997] [1998] [1999] [2000] [2001] [2002] [2003] [2004] [2005] [2006] [2007] [2008] [2009] [2010] [2011] [2012] [2013] [2014]) (./refman.aux) Package rerunfilecheck Warning: File `refman.out' has changed. 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[1] [2] [3] [4] [5] [6] [7] [8] [9] [10] [11] [12] [13] [14] [15] [16] [17] [18] [19] [20] [21] [22] [23] [24] [25] [26] [27]) [28] (./base-pkg.tex Chapter 1. [1] Underfull \hbox (badness 10000) in paragraph at lines 77--85 []\T1/ptm/m/n/10 a small pos-i-tive floating-point num-ber \T1/fi4/bx/n/10 x \T 1/ptm/m/n/10 such that \T1/fi4/bx/n/10 1 - x != 1\T1/ptm/m/n/10 . Underfull \hbox (badness 10000) in paragraph at lines 77--85 \T1/ptm/m/n/10 It equals \T1/fi4/bx/n/10 double.base ^ double.neg.ulp.digits \T 1/ptm/m/n/10 if Underfull \hbox (badness 10000) in paragraph at lines 77--85 \T1/fi4/bx/n/10 double.base \T1/ptm/m/n/10 is 2 or \T1/fi4/bx/n/10 double.round ing \T1/ptm/m/n/10 is 0; oth-er-wise, it is Underfull \hbox (badness 1668) in paragraph at lines 88--95 []\T1/ptm/m/n/10 the largest nor-mal-ized floating-point num-ber. Typ-i-cally, it is equal to [2] [3] Underfull \hbox (badness 1178) in paragraph at lines 224--228 []\T1/ptm/m/n/10 character string, the pre-ferred set-ting for [][]\T1/fi4/bx/n /10 options[][][]("pkgType")\T1/ptm/m/n/10 . Val-ues [4] [5] [6] [7] Underfull \hbox (badness 2556) in paragraph at lines 431--437 []\T1/ptm/m/n/10 a nu-meric vec-tor or list with names par-tially match-ing `\T 1/fi4/bx/n/10 insertions\T1/ptm/m/n/10 ', [8] [9] [10] [11] [12] [13] [14] [15] [16] Underfull \hbox (badness 2671) in paragraph at lines 982--985 []\T1/ptm/m/n/10 If the calls to \T1/fi4/bx/n/10 FUN \T1/ptm/m/n/10 re-turn vec -tors of dif-fer-ent lengths, \T1/fi4/bx/n/10 apply \T1/ptm/m/n/10 re-turns a l ist of length [17] [18] [19] Underfull \hbox (badness 10000) in paragraph at lines 1183--1189 []\T1/fi4/bx/n/10 %% \T1/ptm/m/n/10 in-di-cates \T1/fi4/bx/n/10 x mod y \T1/ptm /m/n/10 and \T1/fi4/bx/n/10 %/% \T1/ptm/m/n/10 in-di-cates in-te-ger di-vi-sion . It is guar-an-teed that Underfull \hbox (badness 3323) in paragraph at lines 1183--1189 \T1/fi4/bx/n/10 x == (x %% y) + y * ( x %/% y ) \T1/ptm/m/n/10 (up to round-i ng er-ror) un-less \T1/fi4/bx/n/10 y == 0 \T1/ptm/m/n/10 where the [20] [21] [22] [23] [24] [25] [26] [27] [28] [29] Underfull \hbox (badness 10000) in paragraph at lines 1851--1853 []\T1/ptm/m/n/10 a date-time ob-ject, or some-thing which can be co-erced by [30] [31] [32] [33] [34] [35] [36] [37] [38] [39] [40] [41] Underfull \hbox (badness 10000) in paragraph at lines 2584--2587 [42] [43] [44] [45] Underfull \vbox (badness 10000) has occurred while \output is active [46] [47] [48] [49] [50] [51] Underfull \hbox (badness 10000) in paragraph at lines 3167--3169 []\T1/ptm/m/n/10 The num-ber of lines printed for the de-parsed call can be lim -ited by set-ting [52] [53] [54] [55] [56] [57] [58] [59] Underfull \hbox (badness 2173) in paragraph at lines 3714--3719 []\T1/ptm/m/n/10 Are the \T1/fi4/bx/n/10 R.app \T1/ptm/m/n/10 GUI com-po-nents and the [][]\T1/fi4/bx/n/10 quartz[][][] \T1/ptm/m/n/10 func-tion op-er-a-tiona l? Underfull \hbox (badness 3281) in paragraph at lines 3714--3719 \T1/ptm/m/n/10 Only on some Mac OS X builds. Note that this is dis-tinct from [60] Underfull \hbox (badness 2970) in paragraph at lines 3739--3745 []\T1/ptm/m/n/10 is there sup-port the [][]\T1/fi4/bx/n/10 svg[][][]\T1/ptm/m/n /10 , [][]\T1/fi4/bx/n/10 cairo_pdf[][][] \T1/ptm/m/n/10 and [][]\T1/fi4/bx/n/1 0 cairo_ps[][][] \T1/ptm/m/n/10 de-vices, and for [61] [62] [63] Underfull \hbox (badness 10000) in paragraph at lines 3911--3916 \T1/fi4/bx/n/10 deparse.level = 0 \T1/ptm/m/n/10 con-structs no la-bels; the de -fault, Underfull \hbox (badness 4391) in paragraph at lines 3911--3916 \T1/fi4/bx/n/10 deparse.level = 1 or 2 \T1/ptm/m/n/10 con-structs la-bels from the ar-gu-ment names, [64] [65] [66] [67] [68] Underfull \hbox (badness 2521) in paragraph at lines 4295--4297 []\T1/ptm/m/n/10 a char-ac-ter vec-tor, or an ob-ject that can be co-erced to c har-ac-ter by [69] [70] [71] [72] [73] [74] [75] [76] [77] [78] [79] [80] [81] [82] [83] [84] [85] [86] [87] [88] [89] [90] [91] Underfull \hbox (badness 10000) in paragraph at lines 5797--5800 []\T1/ptm/m/n/10 A note on `\T1/fi4/bx/n/10 file://\T1/ptm/m/n/10 ' URLs. The m ost gen-eral form (from RFC1738) is [92] [93] [94] Underfull \hbox (badness 2790) in paragraph at lines 6005--6012 []\T1/fi4/bx/n/10 file \T1/ptm/m/n/10 can be used with \T1/fi4/bx/n/10 descript ion = "clipboard" \T1/ptm/m/n/10 in mode \T1/fi4/bx/n/10 "r" \T1/ptm/m/n/10 onl y. This reads Underfull \hbox (badness 3471) in paragraph at lines 6005--6012 \T1/ptm/m/n/10 the X11 pri-mary se-lec-tion (see [][]$\T1/fi4/bx/n/10 http : / / standards . freedesktop . org / clipboards-[]spec / [95] [96] Underfull \vbox (badness 10000) has occurred while \output is active [97] [98] [99] [100] [101] [102] [103] [104] [105] Underfull \hbox (badness 4595) in paragraph at lines 6719--6722 []\T1/ptm/m/n/10 logical, in-di-cat-ing if an `x[i]' equal to the low-est (or h igh-est, for [106] Underfull \hbox (badness 2351) in paragraph at lines 6769--6772 [][][]\T1/fi4/bx/n/10 split[][][] \T1/ptm/m/n/10 for split-ting a vari-able ac- cord-ing to a group fac-tor; [][]\T1/fi4/bx/n/10 factor[][][]\T1/ptm/m/n/10 , [ ][]\T1/fi4/bx/n/10 tabulate[][][]\T1/ptm/m/n/10 , [][]\T1/fi4/bx/n/10 table[][] []\T1/ptm/m/n/10 , [107] [108] [109] [110] Underfull \hbox (badness 10000) in paragraph at lines 7002--7013 []\T1/fi4/bx/n/10 data.frame \T1/ptm/m/n/10 con-verts each of its ar-gu-ments t o a data frame by call-ing [111] Underfull \hbox (badness 4479) in paragraph at lines 7073--7082 [][][]\T1/fi4/bx/n/10 I[][][]\T1/ptm/m/n/10 , [][]\T1/fi4/bx/n/10 plot.data.fra me[][][]\T1/ptm/m/n/10 , [][]\T1/fi4/bx/n/10 print.data.frame[][][]\T1/ptm/m/n/ 10 , [][]\T1/fi4/bx/n/10 row.names[][][]\T1/ptm/m/n/10 , [][]\T1/fi4/bx/n/10 na mes[][][] \T1/ptm/m/n/10 (for the col-umn names), Underfull \hbox (badness 2469) in paragraph at lines 7073--7082 [][]\T1/fi4/bx/n/10 [.data.frame[][][] \T1/ptm/m/n/10 for sub-set-ting meth-ods , [][]\T1/fi4/bx/n/10 Math.data.frame[][][] \T1/ptm/m/n/10 etc, about \T1/ptm/m /it/10 Group \T1/ptm/m/n/10 meth-ods for [112] [113] [114] [115] [116] [117] Underfull \hbox (badness 10000) in paragraph at lines 7482--7494 \T1/fi4/bx/n/10 23:59:59", format = "%Y-%m-%d %H:%M:%S", tz = "UTC") \T1/ptm/m/ n/10 may give \T1/fi4/bx/n/10 NA\T1/ptm/m/n/10 , and hence Underfull \hbox (badness 6220) in paragraph at lines 7482--7494 \T1/fi4/bx/n/10 as.POSIXct("1969-12-31 23:59:59", tz = "UTC") \T1/ptm/m/n/10 w ill give \T1/fi4/bx/n/10 "1969-12-31 23:59:00"\T1/ptm/m/n/10 . [118] [119] [120] [121] [122] [123] [124] [125] [126] [127] [128] [129] [130] [131] [132] [133] [134] Underfull \hbox (badness 1394) in paragraph at lines 8594--8599 []\T1/ptm/m/n/10 Subtraction of date-time ob-jects gives an ob-ject of this cla ss, by call-ing \T1/fi4/bx/n/10 difftime \T1/ptm/m/n/10 with [135] [136] [137] [138] [139] [140] [141] Underfull \hbox (badness 10000) in paragraph at lines 9006--9010 [][][]$\T1/fi4/bx/n/10 http : / / en . wikipedia . org / wiki / IEEE _ 754-[]19 85$[][]\T1/ptm/m/n/10 , [][]$\T1/fi4/bx/n/10 http : / / en . wikipedia . org / wiki / IEEE _ [142] [143] [144] [145] [146] [147] Underfull \hbox (badness 2150) in paragraph at lines 9389--9392 []\T1/ptm/m/n/10 logical in-di-cat-ing if du-pli-ca-tion should be con-sid-ered from the re-verse Underfull \hbox (badness 6396) in paragraph at lines 9402--9410 []\T1/ptm/m/n/10 For the de-fault meth-ods, and when-ever there are equiv-a-len t method def-i-ni-tions for [148] [149] [150] [151] [152] [153] [154] [155] [156] [157] [158] [159] [160] [161] [162] [163] Underfull \hbox (badness 4569) in paragraph at lines 10467--10471 []\T1/ptm/m/n/10 When eval-u-at-ing ex-pres-sions in a data frame that has been passed as an ar-gu-ment Underfull \hbox (badness 2401) in paragraph at lines 10467--10471 \T1/ptm/m/n/10 to a func-tion, the rel-e-vant en-clo-sure is of-ten the caller' s en-vi-ron-ment, i.e., one needs [164] [165] [166] [167] [168] [169] [170] [171] Underfull \hbox (badness 2698) in paragraph at lines 11007--11016 []\T1/ptm/m/n/10 Both \T1/fi4/bx/n/10 $ \T1/ptm/m/n/10 and \T1/fi4/bx/n/10 [[ \ T1/ptm/m/n/10 can be ap-plied to en-vi-ron-ments. Only char-ac-ter in-dices are al-lowed Underfull \hbox (badness 4341) in paragraph at lines 11007--11016 \T1/ptm/m/n/10 and no par-tial match-ing is done. The se-man-tics of these op-e r-a-tions are those of [172] [173] [174] [175] [176] [177] [178] [179] [180] [181] [182] [183] [184] [185] Underfull \hbox (badness 2253) in paragraph at lines 11938--11940 []\T1/ptm/m/n/10 character vec-tors con-tain-ing file paths. Tilde-expansion is done: see [186] Underfull \hbox (badness 1565) in paragraph at lines 11999--12003 [][][]\T1/fi4/bx/n/10 Sys.readlink[][][] \T1/ptm/m/n/10 to find out about sym-b olic links, [][]\T1/fi4/bx/n/10 files[][][]\T1/ptm/m/n/10 , [][]\T1/fi4/bx/n/10 file.access[][][]\T1/ptm/m/n/10 , [][]\T1/fi4/bx/n/10 list.files[][][]\T1/ptm/ m/n/10 , and [187] Underfull \hbox (badness 10000) in paragraph at lines 12042--12044 []\T1/ptm/m/n/10 It can also be used for en-vi-ron-ment paths such as \T1/fi4/b x/n/10 PATH \T1/ptm/m/n/10 and \T1/fi4/bx/n/10 R_LIBS \T1/ptm/m/n/10 with [188] Underfull \hbox (badness 1292) in paragraph at lines 12105--12113 \T1/ptm/m/n/10 ing spe-cial pager names be-ing in-ter-cepted by lower-level cod e (such as \T1/fi4/bx/n/10 "internal" \T1/ptm/m/n/10 and [189] Underfull \hbox (badness 1466) in paragraph at lines 12173--12176 []\T1/ptm/m/n/10 character vec-tors, con-tain-ing file names or paths. For \T1/ fi4/bx/n/10 file.copy \T1/ptm/m/n/10 and [190] Underfull \hbox (badness 10000) in paragraph at lines 12272--12276 [][][]\T1/fi4/bx/n/10 file.info[][][]\T1/ptm/m/n/10 , [][]\T1/fi4/bx/n/10 file. access[][][]\T1/ptm/m/n/10 , [][]\T1/fi4/bx/n/10 file.path[][][]\T1/ptm/m/n/10 , [][]\T1/fi4/bx/n/10 file.show[][][]\T1/ptm/m/n/10 , [][]\T1/fi4/bx/n/10 list. files[][][]\T1/ptm/m/n/10 , [][]\T1/fi4/bx/n/10 unlink[][][]\T1/ptm/m/n/10 , [] []\T1/fi4/bx/n/10 basename[][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 12283--12286 [][][]$\T1/fi4/bx/n/10 http : / / en . wikipedia . org / wiki / Hard _ link$[][ ] \T1/ptm/m/n/10 and [][]$\T1/fi4/bx/n/10 http : / / en . wikipedia . org / wik i / [191] [192] [193] [194] Underfull \hbox (badness 3108) in paragraph at lines 12500--12507 []\T1/ptm/m/n/10 Find the in-dices of \T1/fi4/bx/n/10 x \T1/ptm/m/n/10 in \T1/f i4/bx/n/10 vec\T1/ptm/m/n/10 , where \T1/fi4/bx/n/10 vec \T1/ptm/m/n/10 must be sorted (non-decreasingly); i.e., if Underfull \hbox (badness 3965) in paragraph at lines 12537--12541 []\T1/ptm/m/n/10 This is the same com-pu-ta-tion as for the em-pir-i-cal dis-tr i-bu-tion func-tion, and in-deed, [195] [196] [197] [198] [199] [200] [201] [202] [203] [204] [205] Underfull \hbox (badness 4429) in paragraph at lines 13229--13232 []\T1/ptm/m/n/10 an atomic nu-mer-i-cal or char-ac-ter ob-ject, pos-si-bly [][] \T1/fi4/bx/n/10 complex[][][] \T1/ptm/m/n/10 only for [206] Underfull \hbox (badness 10000) in paragraph at lines 13315--13317 []\T1/ptm/m/n/10 If you set \T1/fi4/bx/n/10 format \T1/ptm/m/n/10 it over-rides the set-ting of \T1/fi4/bx/n/10 mode\T1/ptm/m/n/10 , so Underfull \hbox (badness 10000) in paragraph at lines 13321--13325 []\T1/fi4/bx/n/10 formatC \T1/ptm/m/n/10 does not nec-es-sar-ily align the num- bers on the dec-i-mal point, so [207] [208] [209] [210] [211] [212] [213] [214] [215] [216] [217] [218] [219] Underfull \hbox (badness 1092) in paragraph at lines 14074--14079 [][]\T1/fi4/bx/n/10 library.dynam[][][]\T1/ptm/m/n/10 , or can be found af-ter the DLL has been loaded us-ing [220] [221] [222] Underfull \hbox (badness 6741) in paragraph at lines 14320--14324 \T1/ptm/m/n/10 Additionally, the list will have an ad-di-tional class, be-ing \ T1/fi4/bx/n/10 CRoutine\T1/ptm/m/n/10 , \T1/fi4/bx/n/10 CallRoutine\T1/ptm/m/n/ 10 , [223] [224] [225] [226] [227] Underfull \hbox (badness 1867) in paragraph at lines 14627--14634 []\T1/ptm/m/n/10 character string con-tain-ing a [][]reg-u-lar ex-pres-sion[][] [] (or char-ac-ter string for [228] [229] [230] [231] Underfull \vbox (badness 10000) has occurred while \output is active [232] [233] Underfull \hbox (badness 3679) in paragraph at lines 14999--15001 []\T1/ptm/m/n/10 The TRE li-brary of Ville Lau-rikari ([][]$\T1/fi4/bx/n/10 htt p : / / laurikari . net / tre/$[][]\T1/ptm/m/n/10 ) is used ex-cept for [234] [235] [236] [237] [238] [239] [240] Underfull \hbox (badness 1478) in paragraph at lines 15467--15470 []\T1/ptm/m/n/10 A char-ac-ter vec-tor, or an ob-ject to be con-verted to a cha r-ac-ter vec-tor [241] [242] [243] [244] [245] [246] [247] Overfull \hbox (17.37834pt too wide) in paragraph at lines 15902--15905 []\T1/ptm/m/n/10 Sometimes it is bet-ter to use a con-struc-tion such as \T1/fi 4/bx/n/10 (tmp <- yes; tmp[!test] <- no[!test]; tmp)\T1/ptm/m/n/10 , [248] [249] [250] Underfull \hbox (badness 1442) in paragraph at lines 16138--16140 []\T1/ptm/m/n/10 the choice of de-fault graph-ics de-vice launched when needed and by [][]\T1/fi4/bx/n/10 dev.new[][][]\T1/ptm/m/n/10 : see [251] Underfull \hbox (badness 2452) in paragraph at lines 16230--16246 [][][]\T1/fi4/bx/n/10 as.character[][][]\T1/ptm/m/n/10 , [][]\T1/fi4/bx/n/10 as .complex[][][]\T1/ptm/m/n/10 , [][]\T1/fi4/bx/n/10 as.double[][][]\T1/ptm/m/n/1 0 , [][]\T1/fi4/bx/n/10 as.integer[][][]\T1/ptm/m/n/10 , [][]\T1/fi4/bx/n/10 as .logical[][][]\T1/ptm/m/n/10 , [][]\T1/fi4/bx/n/10 as.raw[][][]\T1/ptm/m/n/10 , [][]\T1/fi4/bx/n/10 as.vector[][][]\T1/ptm/m/n/10 , [252] [253] [254] [255] [256] [257] [258] [259] [260] [261] [262] Underfull \hbox (badness 4739) in paragraph at lines 16873--16875 []\T1/ptm/m/n/10 numeric scalar >= 0. Smaller dif-fer-ences are not con-sid-ere d, see [263] [264] [265] [266] [267] [268] Underfull \hbox (badness 1642) in paragraph at lines 17254--17259 []\T1/fi4/bx/n/10 sapply \T1/ptm/m/n/10 is a user-friendly ver-sion and wrap-pe r of \T1/fi4/bx/n/10 lapply \T1/ptm/m/n/10 by de-fault re-turn-ing a vec-tor, [269] [270] [271] [272] [273] [274] [275] Underfull \hbox (badness 10000) in paragraph at lines 17728--17732 []\T1/ptm/m/n/10 By de-fault \T1/fi4/bx/n/10 R_LIBS \T1/ptm/m/n/10 is un-set, a nd \T1/fi4/bx/n/10 R_LIBS_USER \T1/ptm/m/n/10 is set to di-rec-tory Underfull \hbox (badness 2460) in paragraph at lines 17728--17732 \T1/ptm/m/n/10 `\T1/fi4/bx/n/10 R/\T1/ptm/m/sl/10 R.version$platform\T1/fi4/bx/ n/10 -library/\T1/ptm/m/sl/10 x.y\T1/ptm/m/n/10 ' of the home di-rec-tory (or ` \T1/fi4/bx/n/10 Library/R/\T1/ptm/m/sl/10 x.y\T1/fi4/bx/n/10 /library\T1/ptm/m/ n/10 ' [276] [277] [278] Underfull \hbox (badness 1014) in paragraph at lines 17893--17898 []\T1/ptm/m/n/10 Normally \T1/fi4/bx/n/10 library \T1/ptm/m/n/10 re-turns (in-v is-i-bly) the list of at-tached pack-ages, but \T1/fi4/bx/n/10 TRUE \T1/ptm/m/n /10 or \T1/fi4/bx/n/10 FALSE \T1/ptm/m/n/10 if [279] [280] [281] [282] [283] [284] [285] [286] [287] [288] [289] Underfull \hbox (badness 1264) in paragraph at lines 18584--18589 []\T1/ptm/m/n/10 character string. The fol-low-ing cat-e-gories should al-ways be sup-ported: [290] [291] [292] [293] [294] [295] Underfull \hbox (badness 4954) in paragraph at lines 18996--19002 []\T1/fi4/bx/n/10 as.logical \T1/ptm/m/n/10 at-tempts to co-erce its ar-gu-ment to be of log-i-cal type. For [][]\T1/fi4/bx/n/10 factor[][][]\T1/ptm/m/n/10 s, Underfull \hbox (badness 10000) in paragraph at lines 18996--19002 \T1/ptm/m/n/10 this uses the [][]\T1/fi4/bx/n/10 levels[][][] \T1/ptm/m/n/10 (l a-bels). Like [][]\T1/fi4/bx/n/10 as.vector[][][] \T1/ptm/m/n/10 it strips at-t ributes in-clud-ing Underfull \hbox (badness 10000) in paragraph at lines 18996--19002 \T1/ptm/m/n/10 names. Char-ac-ter strings \T1/fi4/bx/n/10 c("T", "TRUE", "True" , "true") \T1/ptm/m/n/10 are re-garded as true, [296] [297] [298] [299] Underfull \hbox (badness 10000) in paragraph at lines 19241--19243 []\T1/ptm/m/n/10 The al-go-rithm used by \T1/fi4/bx/n/10 make.unique \T1/ptm/m/ n/10 has the prop-erty that [300] [301] [302] [303] [304] [305] [306] [307] [308] [309] [310] [311] [312] [313] [314] [315] Underfull \hbox (badness 1655) in paragraph at lines 20219--20225 [][][]$\T1/fi4/bx/n/10 http : / / en . wikipedia . org / wiki / Data _ compress ion$[][] \T1/ptm/m/n/10 for back-ground on data com-pres-sion, [316] [317] Underfull \hbox (badness 1484) in paragraph at lines 20368--20376 []\T1/ptm/m/n/10 The address-space limit is 2Gb un-der 32-bit Win-dows un-less the OS's de-fault has been [318] [319] [320] [321] Underfull \hbox (badness 2790) in paragraph at lines 20622--20625 []\T1/fi4/bx/n/10 packageStartupMessage \T1/ptm/m/n/10 is a vari-ant whose mes- sages can be sup-pressed sep-a-rately by Underfull \hbox (badness 1571) in paragraph at lines 20622--20625 \T1/fi4/bx/n/10 suppressPackageStartupMessages\T1/ptm/m/n/10 . (They are still mes-sages, so can be sup-pressed by [322] [323] [324] [325] [326] [327] [328] Underfull \hbox (badness 10000) in paragraph at lines 21059--21062 []\T1/ptm/m/n/10 It is pos-si-ble to up-date just part of the names at-tribute via the gen-eral rules: Underfull \hbox (badness 10000) in paragraph at lines 21059--21062 \T1/ptm/m/n/10 see the ex-am-ples. This works be-cause the ex-pres-sion there i s eval-u-ated as [329] [330] [331] [332] [333] [334] [335] [336] [337] [338] [339] [340] [341] [342] [343] [344] Underfull \hbox (badness 1199) in paragraph at lines 22082--22088 []\T1/ptm/m/n/10 The de-fault method for \T1/fi4/bx/n/10 is.numeric \T1/ptm/m/n /10 re-turns \T1/fi4/bx/n/10 TRUE \T1/ptm/m/n/10 if its ar-gu-ment is of [][]mo de[][][] \T1/fi4/bx/n/10 "numeric" Underfull \hbox (badness 2027) in paragraph at lines 22082--22088 \T1/ptm/m/n/10 ([][]type[][][] \T1/fi4/bx/n/10 "double" \T1/ptm/m/n/10 or type \T1/fi4/bx/n/10 "integer"\T1/ptm/m/n/10 ) and not a fac-tor, and \T1/fi4/bx/n/1 0 FALSE \T1/ptm/m/n/10 oth-er-wise. That is, [345] [346] [347] [348] [349] [350] [351] Underfull \hbox (badness 1038) in paragraph at lines 22610--22619 []\T1/ptm/m/n/10 the pack-ages that are at-tached by de-fault when \T1/phv/m/n/ 10 R \T1/ptm/m/n/10 starts up. Ini-tially Underfull \hbox (badness 10000) in paragraph at lines 22610--22619 \T1/fi4/bx/n/10 c("datasets", "utils", "grDevices", "graphics", "stats", "methods")\T1/ptm/m/n/10 . [352] Underfull \hbox (badness 6220) in paragraph at lines 22634--22636 []\T1/ptm/m/n/10 Extra command-line ar-gu-ment(s) for non-default meth-ods: see Underfull \hbox (badness 10000) in paragraph at lines 22696--22705 []\T1/ptm/m/n/10 the com-mand used for dis-play-ing text files by [][]\T1/fi4/b x/n/10 file.show[][][]\T1/ptm/m/n/10 . De-faults to Underfull \hbox (badness 2600) in paragraph at lines 22696--22705 \T1/ptm/m/n/10 `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/fi4/bx/n/10 /bin/pager\T1/p tm/m/n/10 ', which se-lects a pager via the \T1/fi4/bx/n/10 PAGER \T1/ptm/m/n/1 0 en-vi-ron-ment vari-able Underfull \hbox (badness 2142) in paragraph at lines 22706--22712 []\T1/ptm/m/n/10 the de-fault pa-per for-mat used by [][]\T1/fi4/bx/n/10 postsc ript[][][]\T1/ptm/m/n/10 ; set by en-vi-ron-ment vari-able [353] Underfull \hbox (badness 1968) in paragraph at lines 22719--22724 []\T1/ptm/m/n/10 the com-mand used by [][]\T1/fi4/bx/n/10 postscript[][][] \T1/ ptm/m/n/10 for print-ing; set by en-vi-ron-ment vari-able Underfull \hbox (badness 10000) in paragraph at lines 22729--22738 []\T1/ptm/m/n/10 Used for the readline-based ter-mi-nal in-ter-face. De-fault v alue [354] [355] [356] Underfull \hbox (badness 10000) in paragraph at lines 22970--22976 []\T1/ptm/m/n/10 The URL of a Bio-con-duc-tor mir-ror for use by [][]\T1/fi4/bx /n/10 setRepositories[][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 22970--22976 \T1/ptm/m/n/10 e.g. the de-fault `\T1/fi4/bx/n/10 "http://www.bioconductor.org" \T1/ptm/m/n/10 ' or the Eu-ro-pean mir- Underfull \hbox (badness 10000) in paragraph at lines 22970--22976 \T1/ptm/m/n/10 ror `\T1/fi4/bx/n/10 "http://bioconductor.statistik.tu-dortmund. de"\T1/ptm/m/n/10 '. Can be set by Underfull \hbox (badness 10000) in paragraph at lines 22982--22985 []\T1/ptm/m/n/10 default Cc: ad-dress used by [][]\T1/fi4/bx/n/10 create.post[] [][] \T1/ptm/m/n/10 (and hence[][]\T1/fi4/bx/n/10 bug.report[][][] \T1/ptm/m/n/ 10 and Underfull \hbox (badness 2689) in paragraph at lines 23003--23005 []\T1/ptm/m/n/10 optional in-te-ger vec-tor for set-ting ports of the in-ter-na l HTTP server, see Underfull \hbox (badness 7203) in paragraph at lines 23031--23034 []\T1/ptm/m/n/10 default email-ing method used by [][]\T1/fi4/bx/n/10 create.po st[][][] \T1/ptm/m/n/10 and hence [][]\T1/fi4/bx/n/10 bug.report[][][] \T1/ptm/ m/n/10 and Underfull \hbox (badness 2680) in paragraph at lines 23041--23047 \T1/ptm/m/n/10 and \T1/fi4/bx/n/10 "mac.binary.leopard"\T1/ptm/m/n/10 . Win-dow s uses \T1/fi4/bx/n/10 "win.binary"\T1/ptm/m/n/10 . (\T1/fi4/bx/n/10 "mac.binar y" \T1/ptm/m/n/10 and Underfull \hbox (badness 10000) in paragraph at lines 23049--23056 []\T1/ptm/m/n/10 URLs of the repos-i-to-ries for use by [][]\T1/fi4/bx/n/10 upd ate.packages[][][]\T1/ptm/m/n/10 . De-faults to Underfull \hbox (badness 10000) in paragraph at lines 23049--23056 \T1/fi4/bx/n/10 c(CRAN="@CRAN@")\T1/ptm/m/n/10 , a value that causes some util- i-ties to prompt for a Underfull \hbox (badness 6380) in paragraph at lines 23049--23056 \T1/ptm/m/n/10 CRAN mir-ror. To avoid this do set the CRAN mir-ror, by some-thi ng like Underfull \hbox (badness 10000) in paragraph at lines 23049--23056 \T1/fi4/bx/n/10 local({r <- getOption("repos"); r["CRAN"] <- "http://my.local.c ran"; [357] [358] [359] [360] [361] Underfull \hbox (badness 10000) in paragraph at lines 23331--23335 []\T1/ptm/m/n/10 The outer prod-uct of the ar-rays \T1/fi4/bx/n/10 X \T1/ptm/m/ n/10 and \T1/fi4/bx/n/10 Y \T1/ptm/m/n/10 is the ar-ray \T1/fi4/bx/n/10 A \T1/p tm/m/n/10 with di-men- Underfull \hbox (badness 10000) in paragraph at lines 23331--23335 \T1/ptm/m/n/10 sion \T1/fi4/bx/n/10 c(dim(X), dim(Y)) \T1/ptm/m/n/10 where el-e -ment \T1/fi4/bx/n/10 A[c(arrayindex.x, arrayindex.y)] [362] [363] [364] [365] Underfull \hbox (badness 1748) in paragraph at lines 23608--23612 \T1/ptm/m/n/10 seem un-de-sir-able, e.g., when past-ing two char-ac-ter vec-tor s, or very de-sir-able, e.g. in [366] [367] [368] [369] [370] [371] [372] [373] Underfull \hbox (badness 2726) in paragraph at lines 24096--24099 []\T1/ptm/m/n/10 character string (or \T1/fi4/bx/n/10 NULL\T1/ptm/m/n/10 ) in-d i-cat-ing [][]\T1/fi4/bx/n/10 NA[][][] \T1/ptm/m/n/10 val-ues in printed out-pu t, see [374] [375] [376] [377] [378] [379] [380] [381] [382] [383] [384] [385] [386] Underfull \hbox (badness 1052) in paragraph at lines 24872--24877 []\T1/fi4/bx/n/10 qr.X \T1/ptm/m/n/10 re-turns $\OML/cmm/b/it/10 X$\T1/ptm/m/n/ 10 , the orig-i-nal ma-trix from which the qr ob-ject was con-structed, pro-vid ed [387] [388] [389] [390] [391] [392] Underfull \hbox (badness 1097) in paragraph at lines 25248--25256 []\T1/ptm/m/n/10 The seed, \T1/fi4/bx/n/10 .Random.seed[-1] == r[1:3] \T1/ptm/m /n/10 is an in-te-ger vec-tor of length [393] [394] [395] [396] Underfull \hbox (badness 1533) in paragraph at lines 25562--25565 []\T1/ptm/m/n/10 As with all com-piled code, mis-specifying these func-tions ca n crash \T1/phv/m/n/10 R\T1/ptm/m/n/10 . Do in-clude the [397] [398] [399] [400] [401] [402] [403] [404] [405] [406] [407] [408] [409] [410] [411] [412] [413] [414] [415] [416] [417] [418] [419] [420] [421] [422] [423] Underfull \hbox (badness 6188) in paragraph at lines 27239--27241 []\T1/ptm/m/n/10 The POSIX 1003.2 stan-dard at [][]$\T1/fi4/bx/n/10 http : / / pubs . opengroup . org / onlinepubs / 9699919799 / [424] [425] [426] [427] [428] [429] [430] [431] [432] [433] [434] [435] [436] [437] [438] [439] [440] [441] Underfull \hbox (badness 10000) in paragraph at lines 28396--28400 []\T1/fi4/bx/n/10 save.image() \T1/ptm/m/n/10 is just a short-cut for `save my cur-rent workspace', i.e., [442] [443] [444] Underfull \hbox (badness 2302) in paragraph at lines 28602--28609 []\T1/ptm/m/n/10 The root-mean-square for a (pos-si-bly cen-tered) col-umn is d e-fined as $[]$, Underfull \hbox (badness 2837) in paragraph at lines 28602--28609 \T1/ptm/m/n/10 where $\OML/cmm/m/it/10 x$ \T1/ptm/m/n/10 is a vec-tor of the no n-missing val-ues and $\OML/cmm/m/it/10 n$ \T1/ptm/m/n/10 is the num-ber of non -missing Underfull \hbox (badness 4060) in paragraph at lines 28602--28609 \T1/ptm/m/n/10 val-ues. In the case \T1/fi4/bx/n/10 center=TRUE\T1/ptm/m/n/10 , this is the same as the stan-dard de-vi-a-tion, but Underfull \hbox (badness 4805) in paragraph at lines 28602--28609 \T1/ptm/m/n/10 in gen-eral it is not. (To scale by the stan-dard de-vi-a-tions with-out cen-ter-ing, use [445] [446] Underfull \hbox (badness 2261) in paragraph at lines 28755--28760 []\T1/ptm/m/n/10 If \T1/fi4/bx/n/10 strip.white \T1/ptm/m/n/10 is of length 1, it ap-plies to all fields; oth-er-wise, if [447] Underfull \hbox (badness 10000) in paragraph at lines 28782--28788 []\T1/ptm/m/n/10 The es-capes which are in-ter-preted are the con-trol char-ac- ters Underfull \hbox (badness 4001) in paragraph at lines 28782--28788 \T1/ptm/m/n/10 `\T1/fi4/bx/n/10 \a, \b, \f, \n, \r, \t, \v\T1/ptm/m/n/10 ' and oc-tal and hex-adec-i-mal rep-re-sen-ta- [448] Underfull \hbox (badness 10000) in paragraph at lines 28855--28860 []\T1/ptm/m/n/10 Note that since \T1/fi4/bx/n/10 sep \T1/ptm/m/n/10 is a sep-a- ra-tor and not a ter-mi-na-tor, read-ing a file by Underfull \hbox (badness 1946) in paragraph at lines 28855--28860 \T1/fi4/bx/n/10 scan("foo", sep="\n", blank.lines.skip=FALSE) \T1/ptm/m/n/10 wi ll give an empty fi-nal line if the [449] [450] [451] [452] [453] Underfull \hbox (badness 6188) in paragraph at lines 29189--29192 []\T1/ptm/m/n/10 The fourth form gen-er-ates the in-te-ger se-quence \T1/fi4/bx /n/10 1, 2, ..., length(along.with)\T1/ptm/m/n/10 . [454] [455] [456] [457] [458] [459] [460] [461] [462] [463] [464] [465] [466] [467] [468] [469] [470] [471] [472] [473] [474] [475] [476] [477] [478] Underfull \vbox (badness 3803) has occurred while \output is active [479] [480] [481] [482] [483] [484] Underfull \vbox (badness 3803) has occurred while \output is active [485] [486] [487] [488] Underfull \hbox (badness 5008) in paragraph at lines 31395--31407 []\T1/ptm/m/n/10 The \T1/fi4/bx/n/10 srcref \T1/ptm/m/n/10 func-tion pro-duces an ob-ject of class \T1/fi4/bx/n/10 srcref\T1/ptm/m/n/10 , which de-scribes a r ange Underfull \hbox (badness 6141) in paragraph at lines 31395--31407 \T1/ptm/m/n/10 of char-ac-ters in a \T1/fi4/bx/n/10 srcfile\T1/ptm/m/n/10 . The \T1/fi4/bx/n/10 lloc \T1/ptm/m/n/10 value gives the fol-low-ing val-ues: \T 1/fi4/bx/n/10 c Overfull \hbox (112.28088pt too wide) in paragraph at lines 31395--31407 \T1/fi4/bx/n/10 (first_line, first_byte, last_line, last_byte, first_column, l ast_column, first_parsed, last_parsed)\T1/ptm/m/n/10 . [489] [490] Underfull \hbox (badness 1072) in paragraph at lines 31552--31556 []\T1/ptm/m/n/10 On front-ends which sup-port it, the com-mands his-tory is rea d from the file spec-i-fied by Underfull \hbox (badness 10000) in paragraph at lines 31557--31561 []\T1/ptm/m/n/10 The command-line op-tion `\T1/fi4/bx/n/10 --vanilla\T1/ptm/m/n /10 ' im-plies `\T1/fi4/bx/n/10 --no-site-file\T1/ptm/m/n/10 ', `\T1/fi4/bx/n/1 0 --no-init-file\T1/ptm/m/n/10 ', Underfull \hbox (badness 10000) in paragraph at lines 31585--31591 \T1/ptm/m/n/10 and `\T1/fi4/bx/n/10 Rprofile.site\T1/ptm/m/n/10 ' are looked fo r first in architecture-specific di-rec-to-ries, e.g. Underfull \hbox (badness 3343) in paragraph at lines 31594--31601 \T1/ptm/m/n/10 early in the start-up pro-cess-ing. It con-tains en-vi-ron-ment vari-ables set by \T1/phv/m/n/10 R \T1/ptm/m/n/10 in the Underfull \hbox (badness 2573) in paragraph at lines 31594--31601 \T1/ptm/m/n/10 con-fig-ure pro-cess. Val-ues in that file can be over-rid-den i n site or user en-vi-ron-ment Underfull \hbox (badness 1917) in paragraph at lines 31594--31601 \T1/ptm/m/n/10 files: do not change `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/fi4/bx /n/10 /etc/Renviron\T1/ptm/m/n/10 ' it-self. Note that this is dis-tinct from [491] [492] [493] [494] Overfull \hbox (5.98903pt too wide) in paragraph at lines 31806--31809 []\T1/fi4/bx/n/10 stopifnot(A, B) \T1/ptm/m/n/10 is con-cep-tu-ally equiv-a-len t to \T1/fi4/bx/n/10 { if(any(is.na(A)) || !all(A)) stop(...) ; [495] Underfull \hbox (badness 10000) in paragraph at lines 31870--31876 []\T1/ptm/m/n/10 A char-ac-ter string. The de-fault for the \T1/fi4/bx/n/10 for mat \T1/ptm/m/n/10 meth-ods is [496] [497] [498] [499] [500] [501] [502] [503] [504] [505] [506] [507] [508] [509] [510] [511] [512] [513] [514] [515] [516] [517] [518] [519] Underfull \hbox (badness 4416) in paragraph at lines 33414--33416 []\T1/ptm/m/n/10 Argument \T1/fi4/bx/n/10 names \T1/ptm/m/n/10 was in-tro-duced in \T1/phv/m/n/10 R \T1/ptm/m/n/10 2.13.0 to avoid need-ing the com-mon use of [520] [521] [522] [523] [524] [525] [526] [527] [528] [529] [530] [531] Underfull \hbox (badness 1472) in paragraph at lines 34102--34105 []\T1/ptm/m/n/10 logical. If \T1/fi4/bx/n/10 TRUE\T1/ptm/m/n/10 , func-tions ke ep their source in-clud-ing com-ments, see [532] [533] [534] [535] [536] [537] [538] [539] Underfull \hbox (badness 4217) in paragraph at lines 34611--34614 []\T1/ptm/m/n/10 Because of the way it is im-ple-mented, on a Unix-alike \T1/fi 4/bx/n/10 stderr = TRUE \T1/ptm/m/n/10 im-plies [540] [541] Underfull \hbox (badness 2671) in paragraph at lines 34746--34749 []\T1/ptm/m/n/10 levels to re-move for all fac-tors in \T1/fi4/bx/n/10 ...\T1/p tm/m/n/10 . If set to \T1/fi4/bx/n/10 NULL\T1/ptm/m/n/10 , it im-plies [542] [543] [544] [545] [546] [547] Underfull \hbox (badness 10000) in paragraph at lines 35139--35142 [][][]\T1/fi4/bx/n/10 getTaskCallbackNames[][][] [][]taskCallbackManager[][][] [][]$http : / / developer . r-[]project . org / [548] [549] Underfull \hbox (badness 10000) in paragraph at lines 35260--35264 [][][]\T1/fi4/bx/n/10 addTaskCallback[][][]\T1/ptm/m/n/10 , [][]\T1/fi4/bx/n/10 removeTaskCallback[][][]\T1/ptm/m/n/10 , [][]\T1/fi4/bx/n/10 getTaskCallbackNa mes[][][]\T1/ptm/m/n/10 \ [][]$\T1/fi4/bx/n/10 http : / / developer . [550] Underfull \hbox (badness 10000) in paragraph at lines 35322--35326 [][][]\T1/fi4/bx/n/10 addTaskCallback[][][]\T1/ptm/m/n/10 , [][]\T1/fi4/bx/n/10 removeTaskCallback[][][]\T1/ptm/m/n/10 , [][]\T1/fi4/bx/n/10 taskCallbackManag er[][][]\T1/ptm/m/n/10 \ [][]$\T1/fi4/bx/n/10 http : / / developer . [551] [552] [553] [554] [555] [556] [557] [558] [559] [560] Underfull \hbox (badness 10000) in paragraph at lines 35939--35941 []\T1/ptm/m/n/10 Using [][]\T1/fi4/bx/n/10 setBreakpoint[][][] \T1/ptm/m/n/10 ( from pack-age \T1/ptm/b/n/10 utils\T1/ptm/m/n/10 ) may be an al-ter-na-tive, ca ll-ing [561] [562] [563] [564] [565] [566] [567] Underfull \hbox (badness 1990) in paragraph at lines 36440--36448 []\T1/fi4/bx/n/10 try \T1/ptm/m/n/10 eval-u-ates an ex-pres-sion and traps any er-rors that oc-cur dur-ing the eval-u-a-tion. If Underfull \hbox (badness 4846) in paragraph at lines 36440--36448 \T1/ptm/m/n/10 an er-ror oc-curs then the er-ror mes-sage is printed to the [][ ]\T1/fi4/bx/n/10 stderr[][][] \T1/ptm/m/n/10 con-nec-tion un-less [568] [569] [570] [571] [572] Underfull \hbox (badness 1515) in paragraph at lines 36706--36711 []\T1/ptm/m/n/10 On most plat-forms `file' in-cludes sym-bolic links, fi-fos an d sock-ets. Prior to \T1/phv/m/n/10 R \T1/ptm/m/n/10 2.15.0 [573] [574] [575] Underfull \hbox (badness 1917) in paragraph at lines 36929--36936 []\T1/ptm/m/n/10 When a func-tion call-ing \T1/fi4/bx/n/10 UseMethod("fun") \T1 /ptm/m/n/10 is ap-plied to an ob-ject with class at-tribute [576] [577] [578] [579] [580] [581] [582] [583] [584] Underfull \hbox (badness 3668) in paragraph at lines 37494--37496 []\T1/ptm/m/n/10 logical, in-di-cat-ing if the call should be out-put im-me-di- ately, even if [585] Underfull \hbox (badness 2401) in paragraph at lines 37594--37598 []\T1/ptm/m/n/10 See the de-scrip-tion of [][]\T1/fi4/bx/n/10 options[][][]("wa rn") \T1/ptm/m/n/10 for the cir-cum-stances un-der which there is a [586] [587] [588] Underfull \hbox (badness 10000) in paragraph at lines 37770--37775 []\T1/ptm/m/n/10 If \T1/fi4/bx/n/10 arr.ind == TRUE \T1/ptm/m/n/10 and \T1/fi4/ bx/n/10 x \T1/ptm/m/n/10 is an [][]\T1/fi4/bx/n/10 array[][][] \T1/ptm/m/n/10 ( has a [][]\T1/fi4/bx/n/10 dim[][][] \T1/ptm/m/n/10 at-tribute), the re-sult is Underfull \hbox (badness 1454) in paragraph at lines 37770--37775 \T1/fi4/bx/n/10 arrayInd(which(x), dim(x), dimnames(x))\T1/ptm/m/n/10 , namely a ma-trix whose rows each are the [589] [590] [591] [592] [593] [594] [595] [596] [597] Underfull \hbox (badness 5417) in paragraph at lines 38279--38283 []\T1/fi4/bx/n/10 .packages() \T1/ptm/m/n/10 re-turns the names of the cur-rent ly at-tached pack-ages \T1/ptm/m/it/10 in-vis-i-bly \T1/ptm/m/n/10 whereas [598] Underfull \hbox (badness 10000) in paragraph at lines 38332--38336 []\T1/fi4/bx/n/10 .standard_regexps \T1/ptm/m/n/10 re-turns a list of `stan-dar d' reg-exps, in-clud-ing el-e-ments named [599]) (./datasets-pkg.tex [600] Chapter 2. [601] [602] [603] [604] [605] [606] [607] [608] [609] [610] [611] [612] Overfull \hbox (22.36993pt too wide) in paragraph at lines 691--693 []\T1/ptm/m/n/10 This ob-ject of class \T1/fi4/bx/n/10 c("nfnGroupedData", "nfG roupedData", "groupedData", "data.frame") [613] [614] Overfull \hbox (22.36993pt too wide) in paragraph at lines 823--825 []\T1/ptm/m/n/10 This ob-ject of class \T1/fi4/bx/n/10 c("nfnGroupedData", "nfG roupedData", "groupedData", "data.frame") [615] [616] [617] [618] [619] Overfull \hbox (22.36993pt too wide) in paragraph at lines 1128--1130 []\T1/ptm/m/n/10 This ob-ject of class \T1/fi4/bx/n/10 c("nfnGroupedData", "nfG roupedData", "groupedData", "data.frame") [620] [621] [622] [623] [624] [625] [626] [627] [628] Overfull \hbox (22.36993pt too wide) in paragraph at lines 1699--1701 []\T1/ptm/m/n/10 This ob-ject of class \T1/fi4/bx/n/10 c("nfnGroupedData", "nfG roupedData", "groupedData", "data.frame") [629] [630] [631] [632] [633] [634] [635] [636] Overfull \hbox (22.36993pt too wide) in paragraph at lines 2120--2122 []\T1/ptm/m/n/10 This ob-ject of class \T1/fi4/bx/n/10 c("nfnGroupedData", "nfG roupedData", "groupedData", "data.frame") [637] [638] [639] [640] [641] [642] [643] [644] Overfull \hbox (22.36993pt too wide) in paragraph at lines 2597--2599 []\T1/ptm/m/n/10 This ob-ject of class \T1/fi4/bx/n/10 c("nfnGroupedData", "nfG roupedData", "groupedData", "data.frame") [645] Underfull \vbox (badness 10000) has occurred while \output is active [646] Underfull \vbox (badness 10000) has occurred while \output is active [647] [648] [649] [650] [651] [652] [653] [654] [655] Overfull \vbox (20.49605pt too high) has occurred while \output is active [656] [657] [658] [659] [660] [661] Overfull \hbox (22.36993pt too wide) in paragraph at lines 3561--3563 []\T1/ptm/m/n/10 This ob-ject of class \T1/fi4/bx/n/10 c("nfnGroupedData", "nfG roupedData", "groupedData", "data.frame") [662] [663] [664] [665] Underfull \hbox (badness 1325) in paragraph at lines 3796--3799 []\T1/ptm/m/n/10 For back-ground on Bristle-cone pines and Methuse-lah Walk, se e [][]$\T1/fi4/bx/n/10 http : / / www . sonic . net / [666] Underfull \vbox (badness 10000) has occurred while \output is active [667] [668] [669] [670] Underfull \vbox (badness 10000) has occurred while \output is active [671] Underfull \vbox (badness 10000) has occurred while \output is active [672] [673] [674] [675] [676] [677] [678] [679]) (./grDevices-pkg.tex [680] Chapter 3. [681] [682] [683] [684] Underfull \hbox (badness 1484) in paragraph at lines 274--278 []\T1/ptm/m/n/10 numeric vec-tor of length 3, \T1/fi4/bx/n/10 c(mi, ma, n.)\T1/ ptm/m/n/10 , with iden-ti-cal mean-ing to [685] [686] [687] [688] [689] [690] [691] [692] [693] [694] [695] [696] [697] Underfull \hbox (badness 5175) in paragraph at lines 1047--1049 []\T1/ptm/m/n/10 There is cur-rently no doc-u-men-ta-tion about the al-go-rithm . The source code is in [698] [699] [700] Underfull \hbox (badness 1852) in paragraph at lines 1237--1240 []\T1/fi4/bx/n/10 densCols \T1/ptm/m/n/10 com-putes and re-turns the set of col -ors that will be used in plot-ting, call-ing [701] [702] [703] Underfull \hbox (badness 1490) in paragraph at lines 1439--1444 \T1/ptm/m/n/10 by [][]\T1/fi4/bx/n/10 rasterImage[][][] \T1/ptm/m/n/10 and [][] \T1/fi4/bx/n/10 grid.raster[][][]\T1/ptm/m/n/10 ? Pos-si-ble val-ues \T1/fi4/bx /n/10 "no"\T1/ptm/m/n/10 , \T1/fi4/bx/n/10 "yes" \T1/ptm/m/n/10 and [704] Underfull \hbox (badness 2698) in paragraph at lines 1493--1496 []\T1/fi4/bx/n/10 NULL \T1/ptm/m/n/10 if the de-vice does not sup-port cap-ture , oth-er-wise a ma-trix of color names (for [705] Underfull \hbox (badness 10000) in paragraph at lines 1562--1566 []\T1/ptm/m/n/10 logical; if \T1/fi4/bx/n/10 TRUE\T1/ptm/m/n/10 , the func-tion also re-turns \T1/fi4/bx/n/10 TRUE \T1/ptm/m/n/10 when Underfull \hbox (badness 6332) in paragraph at lines 1562--1566 [][]\T1/fi4/bx/n/10 .Device[][][] == "null device" \T1/ptm/m/n/10 and [][]\T1/f i4/bx/n/10 getOption[][][]("device") \T1/ptm/m/n/10 is among the [706] [707] [708] [709] Underfull \hbox (badness 1033) in paragraph at lines 1845--1858 \T1/fi4/bx/n/10 "pgnm"\T1/ptm/m/n/10 , \T1/fi4/bx/n/10 "pgnmraw"\T1/ptm/m/n/10 , \T1/fi4/bx/n/10 "pnm"\T1/ptm/m/n/10 , \T1/fi4/bx/n/10 "pnmraw"\T1/ptm/m/n/10 , \T1/fi4/bx/n/10 "ppm"\T1/ptm/m/n/10 , \T1/fi4/bx/n/10 "ppmraw"\T1/ptm/m/n/10 , \T1/fi4/bx/n/10 "pkm"\T1/ptm/m/n/10 , \T1/fi4/bx/n/10 "pkmraw"\T1/ptm/m/n/10 , \T1/fi4/bx/n/10 "tiffcrle"\T1/ptm/m/n/10 , Underfull \hbox (badness 3758) in paragraph at lines 1845--1858 \T1/fi4/bx/n/10 "tiffg3"\T1/ptm/m/n/10 , \T1/fi4/bx/n/10 "tiffg32d"\T1/ptm/m/n/ 10 , \T1/fi4/bx/n/10 "tiffg4"\T1/ptm/m/n/10 , \T1/fi4/bx/n/10 "tifflzw"\T1/ptm/ m/n/10 , \T1/fi4/bx/n/10 "tiffpack"\T1/ptm/m/n/10 , \T1/fi4/bx/n/10 "tiff12nc"\ T1/ptm/m/n/10 , \T1/fi4/bx/n/10 "tiff24nc"\T1/ptm/m/n/10 , Underfull \hbox (badness 3128) in paragraph at lines 1845--1858 \T1/fi4/bx/n/10 "tiff32nc" "psmono"\T1/ptm/m/n/10 , \T1/fi4/bx/n/10 "psgray"\T1 /ptm/m/n/10 , \T1/fi4/bx/n/10 "psrgb"\T1/ptm/m/n/10 , \T1/fi4/bx/n/10 "bit"\T1/ ptm/m/n/10 , \T1/fi4/bx/n/10 "bitrgb"\T1/ptm/m/n/10 , \T1/fi4/bx/n/10 "bitcmyk" \T1/ptm/m/n/10 , \T1/fi4/bx/n/10 "pngmono"\T1/ptm/m/n/10 , Underfull \hbox (badness 1546) in paragraph at lines 1845--1858 \T1/fi4/bx/n/10 "pnggray"\T1/ptm/m/n/10 , \T1/fi4/bx/n/10 "pngalpha"\T1/ptm/m/n /10 , \T1/fi4/bx/n/10 "png16"\T1/ptm/m/n/10 , \T1/fi4/bx/n/10 "png256"\T1/ptm/m /n/10 , \T1/fi4/bx/n/10 "png16m"\T1/ptm/m/n/10 , \T1/fi4/bx/n/10 "png48"\T1/ptm /m/n/10 , \T1/fi4/bx/n/10 "jpeg"\T1/ptm/m/n/10 , \T1/fi4/bx/n/10 "jpeggray"\T1/ ptm/m/n/10 , [710] [711] Underfull \hbox (badness 10000) in paragraph at lines 1954--1956 []\T1/ptm/m/n/10 The de-fault value when a de-vice is opened is taken from the set-ting of [712] [713] Underfull \hbox (badness 6758) in paragraph at lines 2105--2108 []\T1/ptm/m/n/10 Some other op-tions which can be use-ful (see your Ghostscript doc-u-men-ta-tion) are [714] [715] [716] Overfull \hbox (80.83pt too wide) in paragraph at lines 2249--2251 []\T1/ptm/m/n/10 Navigation keys, passed as one of \T1/fi4/bx/n/10 "Left", "Up" , "Right", "Down", "PgUp", "PgDn", "End", "Home" [717] [718] [719] [720] [721] Underfull \hbox (badness 10000) in paragraph at lines 2602--2603 [722] [723] [724] [725] [726] [727] [728] Underfull \hbox (badness 1755) in paragraph at lines 3040--3042 []\T1/ptm/m/n/10 A length two in-te-ger vec-tor \T1/fi4/bx/n/10 nr, nc \T1/ptm/ m/n/10 giv-ing the num-ber of rows and columns, ful-fill-ing [729] [730] [731] [732] [733] Underfull \hbox (badness 7851) in paragraph at lines 3349--3352 []\T1/ptm/m/n/10 For use with \T1/fi4/bx/n/10 onefile = FALSE \T1/ptm/m/n/10 gi ve a C in-te-ger for-mat such as Underfull \hbox (badness 2662) in paragraph at lines 3363--3365 []\T1/ptm/m/n/10 title string to em-bed as the `\T1/fi4/bx/n/10 /Title\T1/ptm/m /n/10 ' field in the file. De-faults to [734] [735] [736] [737] [738] [739] [740] [741] [742] [743] [744] [745] [746] [747] [748] [749] [750] Underfull \hbox (badness 1789) in paragraph at lines 4400--4402 []\T1/ptm/m/n/10 title string to em-bed as the \T1/fi4/bx/n/10 Title \T1/ptm/m/ n/10 com-ment in the file. De-faults to Underfull \hbox (badness 1377) in paragraph at lines 4450--4455 []\T1/ptm/m/n/10 a char-ac-ter string de-scrib-ing the color model: cur-rently al-lowed val-ues [751] Underfull \hbox (badness 2671) in paragraph at lines 4477--4485 \T1/ptm/m/n/10 For use in this way you will prob-a-bly want to use [][]\T1/fi4/ bx/n/10 setEPS[][][]() \T1/ptm/m/n/10 to set the de-faults as Underfull \hbox (badness 1418) in paragraph at lines 4526--4533 \T1/ptm/m/n/10 it is one of \T1/fi4/bx/n/10 "AvantGarde"\T1/ptm/m/n/10 , \T1/fi 4/bx/n/10 "Bookman"\T1/ptm/m/n/10 , \T1/fi4/bx/n/10 "Courier"\T1/ptm/m/n/10 , \ T1/fi4/bx/n/10 "Helvetica"\T1/ptm/m/n/10 , \T1/fi4/bx/n/10 "Helvetica-Narrow"\T 1/ptm/m/n/10 , Underfull \hbox (badness 2443) in paragraph at lines 4534--4543 \T1/ptm/m/n/10 PostScript de-vice is us-ing URW fonts, you will ob-tain ac-cess to more char-ac-ters and Underfull \hbox (badness 2653) in paragraph at lines 4534--4543 \T1/ptm/m/n/10 more ap-pro-pri-ate met-rics by us-ing these names. To make thes e eas-ier to re-mem-ber, [752] Underfull \hbox (badness 1755) in paragraph at lines 4544--4546 []\T1/ptm/m/n/10 Another type of fam-ily makes use of CID-keyed fonts for East Asian lan-guages -- see [753] Underfull \hbox (badness 1057) in paragraph at lines 4655--4660 []\T1/ptm/m/n/10 Color mod-els pro-vided for back-wards com-pat-i-bil-ity are \ T1/fi4/bx/n/10 "rgb"\T1/ptm/m/n/10 ) (which is RGB+gray) and [754] Underfull \hbox (badness 7344) in paragraph at lines 4715--4717 []\T1/ptm/m/n/10 Support for Com-puter Mod-ern fonts is based on a con-tri-bu-t ion by Brian D'Urso [755] [756] Underfull \hbox (badness 2035) in paragraph at lines 4839--4848 []\T1/ptm/m/n/10 Mappings for a num-ber of stan-dard Adobe fonts (and URW equiv -a-lents) are also pro- Underfull \hbox (badness 10000) in paragraph at lines 4839--4848 \T1/ptm/m/n/10 vided: \T1/fi4/bx/n/10 "AvantGarde"\T1/ptm/m/n/10 , \T1/fi4/bx/n /10 "Bookman"\T1/ptm/m/n/10 , \T1/fi4/bx/n/10 "Courier"\T1/ptm/m/n/10 , \T1/fi4 /bx/n/10 "Helvetica"\T1/ptm/m/n/10 , \T1/fi4/bx/n/10 "Helvetica-Narrow"\T1/ptm/ m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 4839--4848 \T1/fi4/bx/n/10 "NewCenturySchoolbook"\T1/ptm/m/n/10 , \T1/fi4/bx/n/10 "Palatin o" \T1/ptm/m/n/10 and \T1/fi4/bx/n/10 "Times"\T1/ptm/m/n/10 ; \T1/fi4/bx/n/10 " URWGothic"\T1/ptm/m/n/10 , \T1/fi4/bx/n/10 "URWBookman"\T1/ptm/m/n/10 , [757] Overfull \vbox (3.1714pt too high) has occurred while \output is active [758] Underfull \hbox (badness 6775) in paragraph at lines 4906--4914 \T1/ptm/m/n/10 can be found at [][]$\T1/fi4/bx/n/10 ftp : / / ftp . gnu . org / pub / non-[]gnu / chinese-[]fonts-[]truetype/$[][]\T1/ptm/m/n/10 . Ken Underfull \hbox (badness 3000) in paragraph at lines 4906--4914 \T1/ptm/m/n/10 Lunde's CJKV re-sources are at [][]$\T1/fi4/bx/n/10 ftp : / / ft p . oreilly . com / pub / examples / nutshell / cjkv / Underfull \hbox (badness 7344) in paragraph at lines 4925--4927 []\T1/ptm/m/n/10 Support for Com-puter Mod-ern fonts is based on a con-tri-bu-t ion by Brian D'Urso [759] [760] Underfull \hbox (badness 1546) in paragraph at lines 5045--5053 []\T1/ptm/m/n/10 arguments \T1/fi4/bx/n/10 onefile\T1/ptm/m/n/10 , \T1/fi4/bx/n /10 family\T1/ptm/m/n/10 , \T1/fi4/bx/n/10 title\T1/ptm/m/n/10 , \T1/fi4/bx/n/1 0 fonts\T1/ptm/m/n/10 , \T1/fi4/bx/n/10 encoding\T1/ptm/m/n/10 , \T1/fi4/bx/n/1 0 bg\T1/ptm/m/n/10 , \T1/fi4/bx/n/10 fg\T1/ptm/m/n/10 , \T1/fi4/bx/n/10 width\T 1/ptm/m/n/10 , [761] Underfull \hbox (badness 1648) in paragraph at lines 5119--5123 []\T1/ptm/m/n/10 title for the Quartz win-dow (ap-plies to on-screen out-put on ly), de-fault [762] [763] [764] [765] [766] [767] Underfull \hbox (badness 10000) in paragraph at lines 5517--5520 []\T1/fi4/bx/n/10 rgb2hsv \T1/ptm/m/n/10 trans-forms col-ors from RGB space (re d/green/blue) into HSV space [768] [769] Underfull \vbox (badness 3803) has occurred while \output is active [770] [771] [772] [773] [774] Underfull \hbox (badness 1189) in paragraph at lines 5913--5915 []\T1/ptm/m/n/10 for cairo types, the type of anti-aliasing (if any) to be used . One of [775] [776] Underfull \hbox (badness 10000) in paragraph at lines 6011--6013 []\T1/fi4/bx/n/10 "-*-mincho-%s-%s-*-*-%d-*-*-*-*-*-*-*" \T1/ptm/m/n/10 for CJK lan-guages and [777] [778] [779] [780] Underfull \hbox (badness 3780) in paragraph at lines 6302--6308 []\T1/ptm/m/n/10 the font fam-ily to be used. This must be one of \T1/fi4/bx/n/ 10 "AvantGarde"\T1/ptm/m/n/10 , [781] [782] [783] Underfull \hbox (badness 2680) in paragraph at lines 6497--6499 []\T1/ptm/m/n/10 multiplicities (pos-i-tive in-te-gers); i.e., \T1/fi4/bx/n/10 number[i] \T1/ptm/m/n/10 is the mul-ti-plic-ity of [784] [785] [786]) (./graphics-pkg.tex Chapter 4. [787] [788] [789] Underfull \hbox (badness 2856) in paragraph at lines 177--180 []\T1/ptm/m/n/10 For each \T1/fi4/bx/n/10 i\T1/ptm/m/n/10 , an ar-row is drawn be-tween the point \T1/fi4/bx/n/10 (x0[i], y0[i]) \T1/ptm/m/n/10 and the poi nt [790] [791] [792] [793] Underfull \hbox (badness 4492) in paragraph at lines 465--471 []\T1/ptm/m/n/10 When \T1/fi4/bx/n/10 at = NULL\T1/ptm/m/n/10 , pretty tick mar k lo-ca-tions are com-puted in-ter-nally (the same way [794] [795] [796] [797] Underfull \hbox (badness 10000) in paragraph at lines 690--697 []\T1/fi4/bx/n/10 axTicks() \T1/ptm/m/n/10 can be used an \T1/phv/m/n/10 R \T1/ ptm/m/n/10 in-ter-face to the C func-tion \T1/fi4/bx/n/10 CreateAtVector() \T1/ ptm/m/n/10 in [798] [799] [800] Underfull \hbox (badness 1389) in paragraph at lines 856--859 []\T1/ptm/m/n/10 logical. If \T1/fi4/bx/n/10 TRUE\T1/ptm/m/n/10 , the lines whi ch di-vide ad-ja-cent (non-stacked!) bars [801] [802] [803] [804] [805] [806] [807] Underfull \hbox (badness 4634) in paragraph at lines 1253--1256 [][][]\T1/fi4/bx/n/10 boxplot.default[][][] \T1/ptm/m/n/10 which al-ready works nowa-days with data.frames; [][]\T1/fi4/bx/n/10 boxplot.formula[][][]\T1/ptm/m /n/10 , [808] [809] [810] [811] [812] [813] [814] [815] [816] [817] [818] [819] [820] [821] [822] [823] [824] Underfull \hbox (badness 1009) in paragraph at lines 2287--2294 \T1/ptm/m/n/10 be in as-cend-ing or-der. (The rest of this de-scrip-tion does n ot ap-ply to [825] [826] [827] [828] [829] [830] [831] [832] [833] [834] [835] [836] [837] [838] [839] [840] [841] [842] Overfull \hbox (19.78088pt too wide) in paragraph at lines 3397--3397 [] \T1/fi4/bx/n/10 adj = c(0, 0.5), text.width = NULL, text.col = par("c ol"), text.font = NULL,[] [843] [844] [845] [846] Underfull \vbox (badness 10000) has occurred while \output is active [847] [848] [849] [850] [851] [852] [853] [854] [855] [856] [857] [858] Underfull \hbox (badness 1924) in paragraph at lines 4344--4349 []\T1/ptm/m/n/10 a func-tion which in-di-cates what should hap-pen when the dat a con-tain [859] [860] [861] [862] [863] Underfull \hbox (badness 10000) in paragraph at lines 4699--4705 []\T1/ptm/b/it/10 R.O.\T1/ptm/m/n/10 ; size of de-fault char-ac-ter \T1/fi4/bx/ n/10 (width, height) \T1/ptm/m/n/10 in user co-or-di-nate units. Underfull \hbox (badness 5908) in paragraph at lines 4699--4705 \T1/fi4/bx/n/10 par("cxy") \T1/ptm/m/n/10 is \T1/fi4/bx/n/10 par("cin")/par("pi n") \T1/ptm/m/n/10 scaled to user co-or-di-nates. Note that Underfull \hbox (badness 1072) in paragraph at lines 4699--4705 \T1/fi4/bx/n/10 c([][]strwidth[][][](ch), [][]strheight[][][](ch)) \T1/ptm/m/n/ 10 for a given string \T1/fi4/bx/n/10 ch \T1/ptm/m/n/10 is usu-ally much more p re- [864] [865] Underfull \hbox (badness 10000) in paragraph at lines 4827--4830 [866 ] Underfull \hbox (badness 10000) in paragraph at lines 4888--4890 [867 ] [868] Underfull \hbox (badness 10000) in paragraph at lines 5068--5070 []\T1/ptm/m/n/10 The five stan-dard dash-dot line types (\T1/fi4/bx/n/10 lty = 2:6\T1/ptm/m/n/10 ) cor-re-spond to [869] [870] [871] Underfull \hbox (badness 4156) in paragraph at lines 5207--5210 []\T1/ptm/m/n/10 a ex-pan-sion fac-tor ap-plied to the \T1/fi4/bx/n/10 z \T1/pt m/m/n/10 co-or-di-nates. Of-ten used with [872] [873] [874] [875] [876] [877] [878] [879] [880] [881] [882] [883] [884] [885] [886] [887] [888] [889] [890] [891] Overfull \hbox (31.57222pt too wide) in paragraph at lines 6457--6458 [][] [892 ] [893] [894] [895] [896] [897] [898] [899] [900] [901] [902] Underfull \hbox (badness 1048) in paragraph at lines 7161--7166 \T1/ptm/m/n/10 avoided (see the Warn-ings sec-tion be-low). Split-screen mode i s ex-ited by the com-mand [903] [904] Underfull \hbox (badness 1540) in paragraph at lines 7277--7280 []\T1/ptm/m/n/10 For each \T1/fi4/bx/n/10 i\T1/ptm/m/n/10 , a line seg-ment is drawn be-tween the point \T1/fi4/bx/n/10 (x0[i], y0[i]) \T1/ptm/m/n/10 and the point [905] [906] [907] [908] [909] [910] [911] [912] [913] [914] [915] [916] [917] [918] Underfull \hbox (badness 2050) in paragraph at lines 8091--8095 []\T1/ptm/m/n/10 For \T1/fi4/bx/n/10 number[i] == 1\T1/ptm/m/n/10 , a (slightly en-larged) usual plot-ting sym-bol (\T1/fi4/bx/n/10 pch\T1/ptm/m/n/10 ) is dra wn. For [919] [920] [921] [922] [923] [924] (/usr/share/texlive/texmf-dist/tex/latex/inconsolata/ts1fi4.fd) [925] Underfull \hbox (badness 6691) in paragraph at lines 8490--8493 []\T1/ptm/m/n/10 The main ti-tle (on top) us-ing font and size (char-ac-ter ex- pan-sion) Underfull \hbox (badness 2799) in paragraph at lines 8493--8495 []\T1/ptm/m/n/10 Sub-title (at bot-tom) us-ing font and size \T1/fi4/bx/n/10 pa r("font.sub") \T1/ptm/m/n/10 and color [926]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.unit s}) has been already used, duplicate ignored \relax l.8575 \HeaderA{units}{Graphical Units}{units} [927] [928] [929] [930] [931]) (./grid-pkg.tex [932] Chapter 5. Underfull \vbox (badness 10000) has occurred while \output is active [933] [934] [935] [936] [937] [938] [939] Underfull \hbox (badness 2680) in paragraph at lines 405--408 []\T1/ptm/m/n/10 Note that \T1/fi4/bx/n/10 preDrawDetails \T1/ptm/m/n/10 and \T 1/fi4/bx/n/10 postDrawDetails \T1/ptm/m/n/10 are also called in the cal-cu-la-t ion of [940] [941] [942] Overfull \vbox (10.43605pt too high) has occurred while \output is active [943] [944] [945] [946] [947] Underfull \hbox (badness 4279) in paragraph at lines 945--954 [][][]\T1/ptm/m/n/10 Grid[][][], [][]\T1/fi4/bx/n/10 pushViewport[][][]\T1/ptm/ m/n/10 , [][]\T1/fi4/bx/n/10 popViewport[][][]\T1/ptm/m/n/10 , [][]\T1/fi4/bx/n /10 downViewport[][][]\T1/ptm/m/n/10 , [][]\T1/fi4/bx/n/10 seekViewport[][][]\T 1/ptm/m/n/10 , [][]\T1/fi4/bx/n/10 upViewport[][][]\T1/ptm/m/n/10 , [][]\T1/fi4 /bx/n/10 unit[][][]\T1/ptm/m/n/10 , [948] Underfull \vbox (badness 3803) has occurred while \output is active [949] [950] [951] Underfull \hbox (badness 2781) in paragraph at lines 1147--1150 []\T1/ptm/m/n/10 Both func-tions cre-ate an ar-rows grob (a graph-i-cal ob-ject de-scrib-ing ar-rows), but only [952] Underfull \vbox (badness 10000) has occurred while \output is active [953] [954] [955] [956] [957] [958] [959] [960] [961] [962] [963] [964] [965] [966] [967] [968] [969] [970] [971] [972] [973] [974] [975] [976] [977] [978] [979] [980] [981] [982] [983] [984] [985] [986] [987] [988] [989] [990] Underfull \vbox (badness 3803) has occurred while \output is active [991] [992] [993] [994] [995] [996] Underfull \hbox (badness 10000) in paragraph at lines 3762--3764 []\T1/ptm/m/n/10 The de-fault value when a de-vice is opened is taken from the set-ting of [997] [998] [999] [1000] [1001] [1002] [1003] Underfull \hbox (badness 1067) in paragraph at lines 4161--4164 []\T1/ptm/m/n/10 Both func-tions cre-ate a seg-ments grob (a graph-i-cal ob-jec t de-scrib-ing seg-ments), but only [1004] [1005] [1006] [1007] [1008] Underfull \hbox (badness 7256) in paragraph at lines 4400--4402 []\T1/ptm/m/n/10 A char-ac-ter or [][]ex-pres-sion[][][] vec-tor. Other ob-ject s are co-erced by [1009] [1010] [1011] [1012] [1013] [1014] [1015] [1016] [1017] [1018] [1019] [1020] [1021] [1022] [1023] [1024] [1025] [1026] Overfull \hbox (57.28088pt too wide) in paragraph at lines 5522--5526 \T1/fi4/bx/n/10 unit(rep(1, 3), c("npc", "strwidth", "inches"), data=lis t(NULL, "my string", NULL))\T1/ptm/m/n/10 . [1027] Underfull \hbox (badness 2096) in paragraph at lines 5531--5537 \T1/ptm/m/n/10 pos-si-ble to add and sub-tract unit ob-jects (e.g., \T1/fi4/bx/ n/10 unit(1, "npc") - unit(1, "inches")\T1/ptm/m/n/10 ), Underfull \hbox (badness 10000) in paragraph at lines 5531--5537 \T1/ptm/m/n/10 and to spec-ify the min-i-mum or max-i-mum of a list of unit ob- jects (e.g., [1028] [1029] [1030] [1031] [1032] [1033] [1034] [1035] Underfull \hbox (badness 7649) in paragraph at lines 5993--5996 []\T1/ptm/m/n/10 This can be use-ful for re-turn-ing to your start-ing point by do-ing some-thing like [1036] [1037] [1038] [1039]) (./methods-pkg.tex [1040] Chapter 6. [1041] [1042] [1043] [1044] [1045] [1046] [1047] [1048] [1049] [1050] [1051] [1052] [1053] [1054] [1055] [1056] Underfull \vbox (badness 2277) has occurred while \output is active [1057] [1058] [1059] [1060] Underfull \hbox (badness 2237) in paragraph at lines 1432--1434 []\T1/ptm/m/n/10 The class \T1/fi4/bx/n/10 "className" \T1/ptm/m/n/10 ex-tends \T1/fi4/bx/n/10 "character" \T1/ptm/m/n/10 and has a slot \T1/fi4/bx/n/10 "pack age"\T1/ptm/m/n/10 , also of class [1061] [1062] [1063] [1064] [1065] [1066] [1067] [1068] Underfull \hbox (badness 1590) in paragraph at lines 1979--1986 []\T1/ptm/m/n/10 Two vir-tual classes are sup-plied to test for ref-er-ence ob- jects: \T1/fi4/bx/n/10 is(x, "refClass") \T1/ptm/m/n/10 tests [1069] Underfull \hbox (badness 10000) in paragraph at lines 2028--2033 []\T1/ptm/m/n/10 The ar-gu-ment to \T1/fi4/bx/n/10 insertSource \T1/ptm/m/n/10 can be an ob-ject of class Underfull \hbox (badness 1038) in paragraph at lines 2028--2033 \T1/ptm/m/n/10 file name is passed to \T1/fi4/bx/n/10 insertSource \T1/ptm/m/n/ 10 it calls \T1/fi4/bx/n/10 evalSource \T1/ptm/m/n/10 to ob-tain the [1070] [1071] [1072] [1073] [1074] [1075] [1076] [1077] Underfull \hbox (badness 10000) in paragraph at lines 2628--2631 []\T1/ptm/m/n/10 As you might ex-pect [][]\T1/fi4/bx/n/10 setGeneric[][][] \T1/ ptm/m/n/10 and [][]\T1/fi4/bx/n/10 setGroupGeneric[][][] \T1/ptm/m/n/10 cre-ate ob-jects of class [1078] [1079] Underfull \hbox (badness 1132) in paragraph at lines 2768--2772 []\T1/ptm/m/n/10 In \T1/fi4/bx/n/10 getGenerics\T1/ptm/m/n/10 , if \T1/fi4/bx/n /10 TRUE\T1/ptm/m/n/10 , the \T1/fi4/bx/n/10 package \T1/ptm/m/n/10 slot of the re-turned re-sult is in [1080] Underfull \hbox (badness 1033) in paragraph at lines 2800--2805 \T1/ptm/m/n/10 In ad-di-tion, \T1/fi4/bx/n/10 removeGeneric \T1/ptm/m/n/10 re-m oves the func-tion it-self; \T1/fi4/bx/n/10 removeMethods \T1/ptm/m/n/10 re-sto res the [1081] [1082] [1083] [1084] [1085] [1086] [1087] [1088] [1089] [1090] [1091] [1092] Underfull \hbox (badness 10000) in paragraph at lines 3637--3642 []\T1/ptm/m/n/10 The \T1/fi4/bx/n/10 initialize \T1/ptm/m/n/10 method for these classes takes spe-cial ar-gu-ments Underfull \hbox (badness 10000) in paragraph at lines 3645--3654 []\T1/ptm/m/n/10 The [1093] [1094] [1095] [1096] [1097] [1098] Underfull \vbox (badness 10000) has occurred while \output is active [1099] [1100] [1101] [1102] [1103] [1104] Underfull \hbox (badness 1436) in paragraph at lines 4454--4457 []\T1/ptm/m/n/10 The class \T1/fi4/bx/n/10 "SealedMethodDefinition" \T1/ptm/m/n /10 is cre-ated by a call to [][]\T1/fi4/bx/n/10 setMethod[][][] \T1/ptm/m/n/10 with ar-gu-ment [1105] Underfull \hbox (badness 1769) in paragraph at lines 4483--4489 []\T1/ptm/m/n/10 class [][]\T1/fi4/bx/n/10 MethodsList[][][] \T1/ptm/m/n/10 for the ob-jects defin-ing sets of meth-ods as-so-ci-ated with a par-tic-u-lar Underfull \hbox (badness 1939) in paragraph at lines 4483--4489 \T1/fi4/bx/n/10 MethodDefinition\T1/ptm/m/n/10 , or an ex-ten-sion. Class [][]\ T1/fi4/bx/n/10 MethodWithNext[][][] \T1/ptm/m/n/10 for an ex-ten-sion used by [1106] [1107] [1108] [1109] [1110] [1111] [1112] Underfull \vbox (badness 10000) has occurred while \output is active [1113] [1114] Underfull \hbox (badness 1092) in paragraph at lines 5155--5162 \T1/ptm/m/n/10 names cor-re-spond-ing to some or all of the for-mal ar-gu-ments . In the pre-vi-ous ex-am-ple, Underfull \hbox (badness 1117) in paragraph at lines 5155--5162 \T1/ptm/m/n/10 if se-lect-ing class \T1/fi4/bx/n/10 "track" \T1/ptm/m/n/10 for \T1/fi4/bx/n/10 x\T1/ptm/m/n/10 , find-ing that the se-lec-tion was an-other me th-ods list and Underfull \hbox (badness 4036) in paragraph at lines 5203--5206 []\T1/ptm/m/n/10 Object of class \T1/fi4/bx/n/10 "PossibleMethod" \T1/ptm/m/n/1 0 the method to use in re-sponse to a [1115] [1116] [1117] [1118] [1119] [1120] Underfull \hbox (badness 1087) in paragraph at lines 5523--5528 []\T1/ptm/m/n/10 In ad-di-tion, the cur-rently avail-able gener-ics with meth-o ds for this class are found (us-ing [1121] [1122] [1123] Underfull \hbox (badness 2221) in paragraph at lines 5745--5750 []\T1/ptm/m/n/10 Two op-tional method names are in-ter-preted spe-cially, \T1/f i4/bx/n/10 initialize \T1/ptm/m/n/10 and [1124] [1125] [1126] [1127] Underfull \hbox (badness 10000) in paragraph at lines 6106--6122 []\T1/ptm/m/n/10 The de-fault method for \T1/fi4/bx/n/10 $initialize() \T1/ptm/ m/n/10 is equiv-a-lent to in-vok-ing the method [1128] [1129] [1130] Underfull \vbox (badness 10000) has occurred while \output is active [1131] [1132] [1133]pdfTeX warning (ext4): destination with the same identifier (name{ Rfn.S4}) has been already used, duplicate ignored \relax l.6550 \aliasA{S4}{S3Part}{S4} [1134] [1135] [1136]pdfTeX warning (ext4): desti nation with the same identifier (name{Rfn.Complex}) has been already used, dupl icate ignored \relax l.6826 \aliasA{Complex}{S4groupGeneric}{Complex} pdfTeX warning (ext4): destinat ion with the same identifier (name{Rfn.Logic}) has been already used, duplicate ignored \relax l.6828 \aliasA{Logic}{S4groupGeneric}{Logic} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Math}) has been already used, duplicate igno red \relax l.6829 \aliasA{Math}{S4groupGeneric}{Math} pdfTeX warning (ext4): destination wi th the same identifier (name{Rfn.Ops}) has been already used, duplicate ignored \relax l.6831 \aliasA{Ops}{S4groupGeneric}{Ops} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Summary}) has been already used, duplicate ignor ed \relax l.6832 \aliasA{Summary}{S4groupGeneric}{Summary} [1137] Underfull \hbox (badness 2050) in paragraph at lines 6893--6897 []\T1/ptm/m/n/10 The mem-bers of the group de-fined by a par-tic-u-lar generic can be ob-tained by call-ing [1138] [1139] [1140] Underfull \hbox (badness 1286) in paragraph at lines 7075--7077 []\T1/ptm/m/n/10 for \T1/fi4/bx/n/10 .selectSuperClasses() \T1/ptm/m/n/10 only, a [][]\T1/fi4/bx/n/10 list[][][] \T1/ptm/m/n/10 of class ex-ten-sions, typ-i-c ally [1141] [1142] [1143] [1144] [1145] [1146] [1147] [1148] [1149] [1150] [1151] [1152] [1153] [1154] [1155] [1156] [1157] [1158] [1159] [1160] [1161] [1162] [1163] [1164] [1165] [1166] [1167] [1168] [1169] [1170] [1171] [1172] [1173] Underfull \hbox (badness 2894) in paragraph at lines 9382--9386 []\T1/ptm/m/n/10 Chambers, John M. (2009) \T1/ptm/m/it/10 Class In-her-i-tance in R [][]$\T1/fi4/bx/n/10 http : / / stat . stanford . edu / ~jmc4 / [1174] Underfull \hbox (badness 1852) in paragraph at lines 9461--9465 []\T1/ptm/m/n/10 Each of the classes ex-tends the cor-re-spond-ing un-traced cl ass, from the data part; e.g., [1175] [1176] [1177] [1178]) (./splines-pkg.tex Chapter 7. Underfull \hbox (badness 10000) in paragraph at lines 22--24 []\T1/ptm/m/n/10 Douglas M. Bates \T1/fi4/bx/n/10 \T1/ptm /m/n/10 and William N. Ven-ables [1179] [1180] [1181] [1182] [1183] [1184] [1185] [1186] [1187] [1188] [1189] [1190] [1191] [1192]) (./stats-pkg.tex Chapter 8. [1193] [1194] [1195] [1196] [1197] [1198] [1199] [1200] [1201] [1202] [1203] [1204] [1205] Underfull \hbox (badness 1412) in paragraph at lines 829--831 []\T1/ptm/m/n/10 A fit-ted model ob-ject, for ex-am-ple from \T1/fi4/bx/n/10 lm \T1/ptm/m/n/10 or \T1/fi4/bx/n/10 aov\T1/ptm/m/n/10 , or a for-mula for [1206] [1207] [1208] [1209] [1210] [1211] [1212] [1213] Underfull \hbox (badness 2503) in paragraph at lines 1316--1319 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of \T1/fi4/bx/n/10 "two.sided"\T1/ptm/m/n/10 , [1214] [1215] [1216] Underfull \hbox (badness 10000) in paragraph at lines 1495--1499 []\T1/ptm/m/n/10 An ob-ject of class \T1/fi4/bx/n/10 c("aov", "lm") \T1/ptm/m/n /10 or for mul-ti-ple re-sponses of class [1217] [1218] [1219] [1220] [1221] [1222] [1223] [1224] [1225] [1226] Underfull \hbox (badness 3965) in paragraph at lines 2139--2141 []\T1/ptm/m/n/10 the AIC value cor-re-spond-ing to the log-likelihood. Only val id for [1227] [1228] [1229] [1230] [1231] Underfull \hbox (badness 3965) in paragraph at lines 2467--2469 []\T1/ptm/m/n/10 the AIC value cor-re-spond-ing to the log-likelihood. Only val id for [1232] [1233] [1234] [1235] [1236] [1237] [1238] [1239] [1240] [1241] [1242] [1243] [1244] Underfull \hbox (badness 2503) in paragraph at lines 3230--3233 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of \T1/fi4/bx/n/10 "two.sided"\T1/ptm/m/n/10 , [1245] [1246] [1247] [1248] [1249] [1250] [1251] [1252] [1253] [1254] [1255] [1256] [1257] [1258] [1259] [1260] [1261] [1262] [1263] [1264] Underfull \hbox (badness 3989) in paragraph at lines 4424--4431 []\T1/ptm/m/n/10 a nu-meric vec-tor of length 2, equal to say $\OT1/cmr/m/n/10 (\OML/cmm/m/it/10 g[]; g[]\OT1/cmr/m/n/10 )$\T1/ptm/m/n/10 , where $\OML/cmm/m/ it/10 g[] \OT1/cmr/m/n/10 = [1265] [1266] [1267] [1268] [1269] [1270] [1271] [1272] [1273] Underfull \hbox (badness 2932) in paragraph at lines 5037--5039 []\T1/ptm/m/n/10 Note that the usual def-i-ni-tion of con-vo-lu-tion of two se- quences \T1/fi4/bx/n/10 x \T1/ptm/m/n/10 and \T1/fi4/bx/n/10 y \T1/ptm/m/n/10 i s given by [1274] [1275] [1276] Underfull \hbox (badness 1603) in paragraph at lines 5244--5249 []\T1/fi4/bx/n/10 var \T1/ptm/m/n/10 is just an-other in-ter-face to \T1/fi4/bx /n/10 cov\T1/ptm/m/n/10 , where \T1/fi4/bx/n/10 na.rm \T1/ptm/m/n/10 is used to de-ter-mine the de-fault for Underfull \hbox (badness 1472) in paragraph at lines 5244--5249 \T1/fi4/bx/n/10 use \T1/ptm/m/n/10 when that is un-spec-i-fied. If \T1/fi4/bx/n /10 na.rm \T1/ptm/m/n/10 is \T1/fi4/bx/n/10 TRUE \T1/ptm/m/n/10 then the com-pl ete ob-ser-va-tions (rows) Underfull \hbox (badness 3108) in paragraph at lines 5244--5249 \T1/ptm/m/n/10 are used (\T1/fi4/bx/n/10 use = "na.or.complete"\T1/ptm/m/n/10 ) to com-pute the vari-ance. Oth-er-wise, by de-fault [1277] Underfull \hbox (badness 2913) in paragraph at lines 5278--5290 \T1/ptm/m/n/10 For \T1/fi4/bx/n/10 cov()\T1/ptm/m/n/10 , a non-Pearson method i s un-usual but avail-able for the sake of com-plete- [1278] [1279] Underfull \hbox (badness 2503) in paragraph at lines 5393--5397 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of \T1/fi4/bx/n/10 "two.sided"\T1/ptm/m/n/10 , [1280] Underfull \hbox (badness 1168) in paragraph at lines 5454--5459 []\T1/ptm/m/n/10 For Spear-man's test, p-values are com-puted us-ing al-go-rith m AS 89 for $\OML/cmm/m/it/10 n < \OT1/cmr/m/n/10 1290$ \T1/ptm/m/n/10 and [1281] [1282] [1283] [1284] [1285] [1286] [1287] Underfull \hbox (badness 8132) in paragraph at lines 5892--5897 \T1/ptm/m/n/10 then \T1/fi4/bx/n/10 y \T1/ptm/m/n/10 is a den-dro-gram of the s ame graph struc-ture as \T1/fi4/bx/n/10 x \T1/ptm/m/n/10 and for each node, [1288] [1289] [1290] [1291] Underfull \hbox (badness 7081) in paragraph at lines 6147--6150 []\T1/ptm/m/n/10 Objects of class \T1/fi4/bx/n/10 "hclust" \T1/ptm/m/n/10 can b e con-verted to class \T1/fi4/bx/n/10 "dendrogram" \T1/ptm/m/n/10 us-ing method Underfull \hbox (badness 10000) in paragraph at lines 6151--6153 []\T1/fi4/bx/n/10 rev.dendrogram \T1/ptm/m/n/10 sim-ply re-turns the den-dro-gr am \T1/fi4/bx/n/10 x \T1/ptm/m/n/10 with re-versed nodes, see also [1292] [1293] [1294] [1295] [1296] Underfull \vbox (badness 10000) has occurred while \output is active [1297] [1298] [1299] [1300] [1301] [1302] [1303] [1304] Underfull \hbox (badness 10000) in paragraph at lines 6950--6953 []\T1/ptm/m/n/10 optionally, the dis-tance method used; re-sult-ing from [][]\T 1/fi4/bx/n/10 dist[][][]()\T1/ptm/m/n/10 , the [1305] [1306] Underfull \hbox (badness 10000) in paragraph at lines 7087--7090 []\T1/ptm/m/n/10 The CRAN task view on dis-tri-bu-tions, [][]$\T1/fi4/bx/n/10 h ttp : / / cran . r-[]project . org / web / views / [1307] [1308] [1309] [1310] [1311] [1312] [1313] [1314] [1315] [1316] [1317] [1318] [1319] [1320] [1321] [1322] [1323] [1324] [1325] Underfull \vbox (badness 3803) has occurred while \output is active [1326] [1327] [1328] [1329] Underfull \hbox (badness 2626) in paragraph at lines 8508--8511 []\T1/ptm/m/n/10 Either \T1/fi4/bx/n/10 "convolution" \T1/ptm/m/n/10 or \T1/fi4 /bx/n/10 "recursive" \T1/ptm/m/n/10 (and can be ab-bre-vi-ated). If [1330] [1331] Underfull \hbox (badness 2503) in paragraph at lines 8608--8612 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of \T1/fi4/bx/n/10 "two.sided"\T1/ptm/m/n/10 , [1332] [1333] [1334] [1335] [1336] Overfull \hbox (11.88992pt too wide) in paragraph at lines 8942--8944 []\T1/ptm/m/n/10 the char-ac-ter string \T1/fi4/bx/n/10 "Fligner-Killeen test o f homogeneity of variances"\T1/ptm/m/n/10 . [1337] [1338] [1339] [1340] [1341] [1342] [1343] [1344] [1345] Overfull \hbox (15.6622pt too wide) in paragraph at lines 9555--9557 []\T1/ptm/m/n/10 The cu-mu-la-tive haz-ard $\OML/cmm/m/it/10 H\OT1/cmr/m/n/10 ( \OML/cmm/m/it/10 t\OT1/cmr/m/n/10 ) = \OMS/cmsy/m/n/10 ^^@ []\OT1/cmr/m/n/10 (1 \OMS/cmsy/m/n/10 ^^@ \OML/cmm/m/it/10 F\OT1/cmr/m/n/10 (\OML/cmm/m/it/10 t\OT1 /cmr/m/n/10 ))$ \T1/ptm/m/n/10 is \T1/fi4/bx/n/10 -pgamma(t, ..., lower = FALSE , log = TRUE)\T1/ptm/m/n/10 . [1346] [1347] [1348] [1349] [1350] Underfull \hbox (badness 4518) in paragraph at lines 9839--9844 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1351] [1352] [1353] [1354] [1355] Underfull \hbox (badness 2142) in paragraph at lines 10180--10183 []\T1/ptm/m/n/10 positive con-ver-gence tol-er-ance $\OML/cmm/m/it/10 ^^O$\T1/p tm/m/n/10 ; the it-er-a-tions con-verge when $\OMS/cmsy/m/n/10 j\OML/cmm/m/it/1 0 dev \OMS/cmsy/m/n/10 ^^@ Underfull \hbox (badness 1253) in paragraph at lines 10199--10202 []\T1/ptm/m/n/10 When \T1/fi4/bx/n/10 trace \T1/ptm/m/n/10 is true, calls to [] []\T1/fi4/bx/n/10 cat[][][] \T1/ptm/m/n/10 pro-duce the out-put for each IWLS i t-er-a-tion. Hence, [1356] Underfull \hbox (badness 1708) in paragraph at lines 10261--10264 []\T1/ptm/m/n/10 the type of resid-u-als which should be re-turned. The al-ter- na-tives are: [1357] [1358] [1359] [1360] [1361] Underfull \hbox (badness 1694) in paragraph at lines 10625--10628 []\T1/ptm/m/n/10 character vec-tors with row and col-umn la-bels to use; these de-fault to [1362] Underfull \hbox (badness 1867) in paragraph at lines 10644--10653 \T1/ptm/m/n/10 in the row case. If ei-ther is miss-ing, as by de-fault, then th e or-der-ing of the cor-re- [1363] [1364] [1365] [1366] [1367] [1368] [1369]pdfTeX warning (ext4): destinat ion with the same identifier (name{Rfn.hat}) has been already used, duplicate i gnored \relax l.11083 \aliasA{hat}{influence.measures}{hat} [1370] [1371] Underfull \hbox (badness 1484) in paragraph at lines 11207--11209 []\T1/ptm/m/n/10 The func-tion \T1/fi4/bx/n/10 hat() \T1/ptm/m/n/10 ex-ists mai nly for S (ver-sion 2) com-pat-i-bil-ity; we rec-om-mend us-ing [1372] [1373] [1374] [1375] [1376] [1377] [1378] [1379] [1380] Underfull \hbox (badness 4441) in paragraph at lines 11753--11755 []\T1/ptm/m/n/10 vector of dif-fer-enc-ing co-ef-fi-cients, so an ARMA model is fit-ted to [1381] [1382] [1383] [1384] [1385] [1386] [1387] [1388] [1389] [1390] [1391] [1392] [1393] [1394] [1395] [1396] Underfull \hbox (badness 4518) in paragraph at lines 12700--12705 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1397] [1398] [1399] [1400] [1401] [1402] [1403] [1404] [1405] [1406] Underfull \hbox (badness 4518) in paragraph at lines 13318--13323 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1407] [1408] [1409] [1410] [1411] [1412] [1413] [1414] Overfull \hbox (5.6622pt too wide) in paragraph at lines 13863--13865 []\T1/ptm/m/n/10 The cu-mu-la-tive haz-ard $\OML/cmm/m/it/10 H\OT1/cmr/m/n/10 ( \OML/cmm/m/it/10 t\OT1/cmr/m/n/10 ) = \OMS/cmsy/m/n/10 ^^@ []\OT1/cmr/m/n/10 (1 \OMS/cmsy/m/n/10 ^^@ \OML/cmm/m/it/10 F\OT1/cmr/m/n/10 (\OML/cmm/m/it/10 t\OT1 /cmr/m/n/10 ))$ \T1/ptm/m/n/10 is \T1/fi4/bx/n/10 -plnorm(t, r, lower = FALSE, log = TRUE)\T1/ptm/m/n/10 . [1415] [1416] [1417] [1418] [1419] [1420] [1421] [1422] [1423] [1424] [1425] Underfull \hbox (badness 2503) in paragraph at lines 14478--14482 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of \T1/fi4/bx/n/10 "two.sided"\T1/ptm/m/n/10 , [1426] [1427] Underfull \vbox (badness 10000) has occurred while \output is active [1428] [1429] [1430] [1431] [1432] [1433] [1434] Underfull \hbox (badness 3009) in paragraph at lines 14985--14991 []\T1/fi4/bx/n/10 model.offset \T1/ptm/m/n/10 and \T1/fi4/bx/n/10 model.respons e \T1/ptm/m/n/10 are equiv-a-lent to \T1/fi4/bx/n/10 model.extract(, "offset") \T1/ptm/m/n/10 and [1435] [1436] [1437] [1438] [1439] [1440] [1441] [1442] [1443] [1444] [1445] [1446] [1447] [1448] [1449] [1450] [1451] [1452] [1453] [1454] [1455] [1456] [1457] [1458] [1459] [1460] [1461] Underfull \vbox (badness 10000) has occurred while \output is active [1462] Underfull \vbox (badness 10000) has occurred while \output is active [1463] [1464] [1465] [1466] [1467] [1468] [1469] [1470] [1471] [1472] [1473] [1474] [1475] Underfull \hbox (badness 1377) in paragraph at lines 17468--17473 []\T1/ptm/m/n/10 A vec-tor of scal-ing val-ues for the pa-ram-e-ters. Op-ti-miz a-tion is per-formed on Underfull \hbox (badness 1735) in paragraph at lines 17473--17476 []\T1/ptm/m/n/10 A vec-tor of step sizes for the finite-difference ap-prox-i-ma -tion to the gra-di-ent, on Underfull \hbox (badness 2343) in paragraph at lines 17486--17490 []\T1/ptm/m/n/10 Relative con-ver-gence tol-er-ance. The al-go-rithm stops if i t is un-able to re-duce Underfull \hbox (badness 2080) in paragraph at lines 17486--17490 \T1/ptm/m/n/10 the value by a fac-tor of \T1/fi4/bx/n/10 reltol * (abs(val) + r eltol) \T1/ptm/m/n/10 at a step. De-faults to Underfull \hbox (badness 2662) in paragraph at lines 17494--17498 []\T1/ptm/m/n/10 The fre-quency of re-ports for the \T1/fi4/bx/n/10 "BFGS"\T1/p tm/m/n/10 , \T1/fi4/bx/n/10 "L-BFGS-B" \T1/ptm/m/n/10 and \T1/fi4/bx/n/10 "SANN " \T1/ptm/m/n/10 meth-ods if [1476] [1477] [1478] [1479] [1480] [1481] [1482] [1483] [1484] [1485] Underfull \hbox (badness 1337) in paragraph at lines 18103--18106 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1486] [1487] [1488] [1489] [1490] [1491] [1492] [1493] [1494] [1495] [1496] [1497] [1498] Underfull \hbox (badness 5563) in paragraph at lines 18830--18832 []\T1/ptm/m/n/10 logical. If \T1/fi4/bx/n/10 TRUE\T1/ptm/m/n/10 , add to al-rea dy ex-ist-ing plot. Only valid for Underfull \hbox (badness 1194) in paragraph at lines 18833--18836 []\T1/ptm/m/n/10 coverage prob-a-bil-ity for con-fi-dence in-ter-val. Plot-ting of the con-fi-dence [1499] [1500] [1501] [1502] [1503] Underfull \hbox (badness 1675) in paragraph at lines 19120--19123 []\T1/ptm/m/n/10 Setting \T1/fi4/bx/n/10 lower.tail = FALSE \T1/ptm/m/n/10 al-l ows to get much more pre-cise re-sults when the de-fault, [1504] Underfull \hbox (badness 2503) in paragraph at lines 19197--19200 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of \T1/fi4/bx/n/10 "two.sided"\T1/ptm/m/n/10 , [1505] Underfull \hbox (badness 10000) in paragraph at lines 19224--19226 []\T1/ptm/m/n/10 the char-ac-ter string \T1/fi4/bx/n/10 "Exact Poisson test" \T 1/ptm/m/n/10 or [1506] [1507] [1508] [1509] [1510] [1511] [1512] [1513] [1514] [1515] [1516] [1517] [1518] [1519] [1520] Underfull \hbox (badness 10000) in paragraph at lines 20189--20195 []\T1/ptm/m/n/10 For time-series pre-dic-tion, [][]\T1/fi4/bx/n/10 predict.ar[] [][]\T1/ptm/m/n/10 , [][]\T1/fi4/bx/n/10 predict.Arima[][][]\T1/ptm/m/n/10 , [] []\T1/fi4/bx/n/10 predict.arima0[][][]\T1/ptm/m/n/10 , [1521] [1522] [1523] [1524] [1525] [1526] [1527] [1528] [1529] [1530] [1531] [1532] [1533] [1534] [1535] [1536] [1537] Underfull \hbox (badness 2111) in paragraph at lines 21140--21145 []\T1/ptm/m/n/10 Utility func-tion to be used in higher-level [][]\T1/fi4/bx/n/ 10 print[][][] \T1/ptm/m/n/10 meth-ods, such as [][]\T1/fi4/bx/n/10 print.summa ry.lm[][][]\T1/ptm/m/n/10 , [1538] [1539] [1540] [1541] [1542] Underfull \hbox (badness 1337) in paragraph at lines 21478--21484 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1543] [1544] [1545] [1546] [1547] [1548] [1549] [1550] [1551] [1552] [1553] [1554] Underfull \hbox (badness 10000) in paragraph at lines 22222--22225 []\T1/ptm/m/n/10 Optional vec-tor with clus-ter mem-ber-ships as re-turned by Underfull \hbox (badness 1675) in paragraph at lines 22222--22225 \T1/fi4/bx/n/10 cutree(hclust.obj, k = k)\T1/ptm/m/n/10 , can be spec-i-fied fo r ef-fi-ciency if al-ready [1555] [1556] [1557] [1558] [1559] [1560] [1561] [1562] [1563] [1564] Underfull \hbox (badness 10000) in paragraph at lines 22797--22800 []\T1/ptm/m/n/10 Apart from the end val-ues, the re-sult \T1/fi4/bx/n/10 y = ru nmed(x, k) \T1/ptm/m/n/10 sim-ply has Underfull \hbox (badness 3690) in paragraph at lines 22846--22850 [][][]\T1/fi4/bx/n/10 smoothEnds[][][] \T1/ptm/m/n/10 which im-ple-ments Tukey' s end point rule and is called by de-fault from Underfull \hbox (badness 1062) in paragraph at lines 22846--22850 \T1/fi4/bx/n/10 runmed(*, endrule = "median")\T1/ptm/m/n/10 . [][]\T1/fi4/bx/n/ 10 smooth[][][] \T1/ptm/m/n/10 uses run-ning me-di-ans of 3 for its com-pound [1565] [1566] [1567] [1568] [1569] [1570] [1571] [1572] [1573] [1574] [1575] [1576] [1577] [1578] [1579] [1580] [1581] [1582] [1583] [1584] [1585] [1586] [1587] [1588] [1589] [1590] [1591] [1592] [1593] [1594] [1595] [1596] Underfull \hbox (badness 3514) in paragraph at lines 24785--24790 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/fi4/bx/n/10 input \T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1597] Underfull \hbox (badness 3514) in paragraph at lines 24847--24852 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/fi4/bx/n/10 input \T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1598] Underfull \hbox (badness 3514) in paragraph at lines 24904--24909 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/fi4/bx/n/10 input \T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1599] Underfull \hbox (badness 3514) in paragraph at lines 24965--24971 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/fi4/bx/n/10 input \T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1600] [1601] [1602] Underfull \hbox (badness 2376) in paragraph at lines 25097--25100 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/fi4/bx/n/10 input \T1/ptm/m/n/10 , which is the value of the ex-pres-sion Overfull \hbox (62.28088pt too wide) in paragraph at lines 25097--25100 \T1/fi4/bx/n/10 Dose * exp(lKe+lKa-lCl) * (exp(-exp(lKe)*input)-exp(-exp(lKa)*i nput)) / (exp(lKa)-exp(lKe))\T1/ptm/m/n/10 . [1603] Underfull \hbox (badness 3514) in paragraph at lines 25157--25162 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/fi4/bx/n/10 input \T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1604] Underfull \hbox (badness 3514) in paragraph at lines 25213--25218 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/fi4/bx/n/10 input \T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1605] Underfull \hbox (badness 3514) in paragraph at lines 25270--25275 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/fi4/bx/n/10 input \T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1606] Underfull \hbox (badness 3514) in paragraph at lines 25325--25330 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/fi4/bx/n/10 input \T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1607] Underfull \hbox (badness 6691) in paragraph at lines 25394--25399 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/fi4/bx/n/10 x\T1/ ptm/m/n/10 . It is the value of the ex-pres-sion [1608] [1609] [1610] [1611] [1612] [1613] [1614] Underfull \hbox (badness 10000) in paragraph at lines 25864--25867 []\T1/ptm/m/n/10 the span (in lags) of the loess win-dow for trend ex- Underfull \hbox (badness 10000) in paragraph at lines 25864--25867 \T1/ptm/m/n/10 trac-tion, which should be odd. If \T1/fi4/bx/n/10 NULL\T1/ptm/m /n/10 , the de-fault, [1615] [1616] [1617] [1618] [1619] [1620] [1621] [1622] [1623] [1624] [1625] Underfull \hbox (badness 5431) in paragraph at lines 26463--26465 []\T1/ptm/m/n/10 the cor-re-la-tion ma-trix cor-re-spond-ing to the above \T1/f i4/bx/n/10 cov.unscaled\T1/ptm/m/n/10 , if [1626] [1627] [1628] Underfull \hbox (badness 5431) in paragraph at lines 26666--26669 []\T1/ptm/m/n/10 the cor-re-la-tion ma-trix cor-re-spond-ing to the above \T1/f i4/bx/n/10 cov.unscaled\T1/ptm/m/n/10 , if [1629] [1630] [1631] [1632] [1633] [1634] Underfull \hbox (badness 1337) in paragraph at lines 26977--26981 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1635] [1636] Underfull \hbox (badness 10000) in paragraph at lines 27094--27097 []\T1/ptm/m/n/10 non-centrality pa-ram-e-ter $\OML/cmm/m/it/10 ^^N$\T1/ptm/m/n/ 10 ; cur-rently ex-cept for \T1/fi4/bx/n/10 rt()\T1/ptm/m/n/10 , only for [1637] [1638] Underfull \hbox (badness 1616) in paragraph at lines 27267--27270 []\T1/ptm/m/n/10 color, plot-ting char-ac-ter ex-pan-sion and type for par-tial resid-u-als, when [1639] Underfull \hbox (badness 4518) in paragraph at lines 27291--27294 []\T1/ptm/m/n/10 For the \T1/fi4/bx/n/10 partial.resid=TRUE \T1/ptm/m/n/10 op-t ion it must have a [][]\T1/fi4/bx/n/10 residuals[][][] \T1/ptm/m/n/10 method th at ac-cepts [1640] [1641] [1642] [1643] [1644] [1645] [1646] [1647] [1648] [1649] [1650] [1651] [1652] [1653] [1654] [1655] [1656] [1657] [1658] [1659] [1660] Underfull \hbox (badness 1337) in paragraph at lines 28590--28594 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1661] [1662] [1663] [1664] Overfull \hbox (28.1622pt too wide) in paragraph at lines 28838--28841 []\T1/ptm/m/n/10 The cu-mu-la-tive haz-ard $\OML/cmm/m/it/10 H\OT1/cmr/m/n/10 ( \OML/cmm/m/it/10 t\OT1/cmr/m/n/10 ) = \OMS/cmsy/m/n/10 ^^@ []\OT1/cmr/m/n/10 (1 \OMS/cmsy/m/n/10 ^^@ \OML/cmm/m/it/10 F\OT1/cmr/m/n/10 (\OML/cmm/m/it/10 t\OT1 /cmr/m/n/10 ))$ \T1/ptm/m/n/10 is \T1/fi4/bx/n/10 -pweibull(t, a, b, lower = FA LSE, log = TRUE) [1665] [1666] [1667] [1668] Underfull \hbox (badness 1337) in paragraph at lines 29061--29065 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1669] [1670] Underfull \hbox (badness 5161) in paragraph at lines 29154--29156 []\T1/ptm/m/n/10 an es-ti-mate of the lo-ca-tion pa-ram-e-ter. (Only present if ar-gu-ment [1671] [1672] [1673] [1674] [1675] Underfull \hbox (badness 10000) in paragraph at lines 29510--29515 []\T1/ptm/m/n/10 There is a \T1/fi4/bx/n/10 summary \T1/ptm/m/n/10 method for c on-tin-gency ta-ble ob-jects cre-ated by \T1/fi4/bx/n/10 table \T1/ptm/m/n/10 o r Underfull \hbox (badness 1303) in paragraph at lines 29510--29515 \T1/fi4/bx/n/10 xtabs(*, sparse=FALSE)\T1/ptm/m/n/10 , which gives ba-sic in-fo r-ma-tion and per-forms a chi-squared test Underfull \hbox (badness 1308) in paragraph at lines 29522--29525 []\T1/ptm/m/n/10 By de-fault, when \T1/fi4/bx/n/10 sparse=FALSE\T1/ptm/m/n/10 , a con-tin-gency ta-ble in ar-ray rep-re-sen-ta-tion of S3 class [1676] [1677] [1678]) (./stats4-pkg.tex Chapter 9. [1679] [1680] [1681] [1682] [1683] [1684]pdfTeX warning (ext4): destination wit h the same identifier (name{Rfn.show.Rdash.methods}) has been already used, dup licate ignored \relax l.407 ...Package \pkg{stats4}}{show.Rdash.methods} [1685] [1686] [1687] [1688]) (./tcltk-pkg.tex Chapter 10. [1689] [1690] [1691] [1692] [1693] [1694] [1695] Underfull \vbox (badness 10000) has occurred while \output is active [1696] Underfull \vbox (badness 10000) has occurred while \output is active [1697] Underfull \hbox (badness 1546) in paragraph at lines 644--651 []\T1/fi4/bx/n/10 tcl \T1/ptm/m/n/10 pro-vides a generic in-ter-face to call-in g any Tk or Tcl com-mand by sim-ply run-ning [1698] [1699] [1700] [1701] Underfull \vbox (badness 10000) has occurred while \output is active [1702] [1703] [1704] [1705] [1706] [1707] [1708] [1709]) (./tools-pkg.tex [1710] Chapter 11. LaTeX Font Warning: Font shape `T1/fi4/m/it' undefined (Font) using `T1/fi4/m/n' instead on input line 26. [1711] Underfull \hbox (badness 10000) in paragraph at lines 120--135 \T1/fi4/bx/n/10 formatIncollection\T1/ptm/m/n/10 , \T1/fi4/bx/n/10 formatInProc eedings\T1/ptm/m/n/10 , \T1/fi4/bx/n/10 formatManual\T1/ptm/m/n/10 , \T1/fi4/bx /n/10 formatMastersthesis\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 120--135 \T1/fi4/bx/n/10 formatMisc\T1/ptm/m/n/10 , \T1/fi4/bx/n/10 formatPhdthesis\T1/p tm/m/n/10 , \T1/fi4/bx/n/10 formatProceedings\T1/ptm/m/n/10 , \T1/fi4/bx/n/10 f ormatTechreport \T1/ptm/m/n/10 and [1712] [1713] [1714] Underfull \hbox (badness 2080) in paragraph at lines 251--256 \T1/ptm/m/n/10 ac-ters. It is sorted by Uni-code point and within a point al-ph a-bet-i-cally on the glyph Underfull \hbox (badness 2644) in paragraph at lines 251--256 \T1/ptm/m/n/10 (there can be more than one name for a Uni-code point). The data are in the file [1715] [1716] [1717] Underfull \vbox (badness 10000) has occurred while \output is active [1718] [1719] [1720] [1721] Underfull \hbox (badness 1635) in paragraph at lines 666--668 []\T1/ptm/m/n/10 Delete files in the tem-po-rary di-rec-tory? This op-tion is i g-nored when [1722] [1723] Underfull \hbox (badness 10000) in paragraph at lines 814--816 []\T1/ptm/m/n/10 Re-save PDF files (es-pe-cially vi-gnettes) more com-pactly. S up-port func-tion for [1724] [1725] [1726] Underfull \hbox (badness 7981) in paragraph at lines 980--984 []\T1/ptm/m/n/10 a char-ac-ter vec-tor list-ing the types of de-pen-den-cies, a sub-set of Overfull \hbox (9.55087pt too wide) in paragraph at lines 980--984 \T1/fi4/bx/n/10 c("Depends", "Imports", "LinkingTo", "Suggests", "Enhances ")\T1/ptm/m/n/10 . Underfull \hbox (badness 1082) in paragraph at lines 986--988 []\T1/ptm/m/n/10 a char-ac-ter vec-tor of \T1/phv/m/n/10 R \T1/ptm/m/n/10 li-br ary trees, or \T1/fi4/bx/n/10 NULL \T1/ptm/m/n/10 for all known trees (see [1727] [1728] [1729] [1730] [1731] Underfull \hbox (badness 5726) in paragraph at lines 1249--1254 []\T1/ptm/m/n/10 If \T1/fi4/bx/n/10 reduce \T1/ptm/m/n/10 is \T1/fi4/bx/n/10 TR UE\T1/ptm/m/n/10 , the sys-tem will col-lapse the fields in the \T1/fi4/bx/n/10 DependsList \T1/ptm/m/n/10 ob-ject Underfull \hbox (badness 7221) in paragraph at lines 1249--1254 \T1/ptm/m/n/10 such that a min-i-mal set of de-pen-den-cies are spec-i-fied (fo r in-stance if there was [1732] [1733] [1734] [1735] [1736] Underfull \hbox (badness 7981) in paragraph at lines 1531--1536 []\T1/ptm/m/n/10 a char-ac-ter vec-tor list-ing the types of de-pen-den-cies, a sub-set of Overfull \hbox (9.55087pt too wide) in paragraph at lines 1531--1536 \T1/fi4/bx/n/10 c("Depends", "Imports", "LinkingTo", "Suggests", "Enhances ")\T1/ptm/m/n/10 . [1737] [1738] [1739] [1740] LaTeX Font Warning: Font shape `T1/fi4/m/sl' undefined (Font) using `T1/fi4/m/n' instead on input line 1782. [1741] [1742] [1743] [1744] Underfull \hbox (badness 1424) in paragraph at lines 2018--2020 []\T1/fi4/m/sl/10 NULL \T1/ptm/m/n/10 or a named (by top-ics) char-ac-ter vec-t or of links, as re-turned by [1745] [1746] [1747] [1748] [1749] [1750] [1751] [1752] Underfull \hbox (badness 1675) in paragraph at lines 2529--2531 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing how the news en-tries shoul d be \T1/ptm/m/it/10 chopped\T1/ptm/m/n/10 ; [1753] [1754] [1755] [1756] [1757] [1758] [1759] [1760] [1761] Underfull \hbox (badness 5726) in paragraph at lines 3093--3098 []\T1/ptm/m/n/10 If \T1/fi4/m/sl/10 reduce \T1/ptm/m/n/10 is \T1/fi4/m/sl/10 TR UE\T1/ptm/m/n/10 , the sys-tem will col-lapse the fields in the \T1/fi4/m/sl/10 DependsList \T1/ptm/m/n/10 ob-ject Underfull \hbox (badness 7221) in paragraph at lines 3093--3098 \T1/ptm/m/n/10 such that a min-i-mal set of de-pen-den-cies are spec-i-fied (fo r in-stance if there was [1762] Underfull \hbox (badness 1688) in paragraph at lines 3144--3156 []\T1/ptm/m/n/10 a char-ac-ter vec-tor giv-ing the fields to be used in the `\T 1/fi4/m/sl/10 PACKAGES\T1/ptm/m/n/10 ' and [1763] [1764] [1765] [1766]) (./utils-pkg.tex Chapter 12. [1767] Underfull \hbox (badness 2556) in paragraph at lines 47--52 []\T1/ptm/m/n/10 a nu-meric vec-tor or list with names par-tially match-ing `\T 1/fi4/m/sl/10 insertions\T1/ptm/m/n/10 ', [1768] [1769] Underfull \hbox (badness 1454) in paragraph at lines 198--201 []\T1/ptm/m/n/10 logical in-di-cat-ing if the search should be case-insensitive , \T1/fi4/m/sl/10 TRUE \T1/ptm/m/n/10 by de- Underfull \hbox (badness 1540) in paragraph at lines 214--217 []\T1/fi4/m/sl/10 find \T1/ptm/m/n/10 is a dif-fer-ent user in-ter-face for the same task as \T1/fi4/m/sl/10 apropos\T1/ptm/m/n/10 . How-ever, by de-fault [1770] [1771] [1772] [1773] [1774] [1775] Underfull \hbox (badness 5847) in paragraph at lines 584--590 []\T1/ptm/m/n/10 Argument \T1/fi4/m/sl/10 filters \T1/ptm/m/n/10 can be used to se-lect which of the pack-ages on the repos-i-to- Underfull \hbox (badness 4229) in paragraph at lines 584--590 \T1/ptm/m/n/10 ries are re-ported. It is called with its de-fault value (\T1/fi 4/m/sl/10 NULL\T1/ptm/m/n/10 ) by func-tions such as [1776] [1777] [1778] [1779] [1780] Underfull \vbox (badness 3803) has occurred while \output is active [1781] [1782] [1783] [1784] [1785] Underfull \hbox (badness 1371) in paragraph at lines 1201--1203 []\T1/ptm/m/n/10 additional named ar-gu-ments such as \T1/fi4/m/sl/10 method \T 1/ptm/m/n/10 and \T1/fi4/m/sl/10 ccaddress \T1/ptm/m/n/10 to pass to [1786] [1787] [1788] [1789] Underfull \hbox (badness 2057) in paragraph at lines 1469--1471 []\T1/ptm/m/n/10 None for \T1/fi4/m/sl/10 chooseCRANmirror()\T1/ptm/m/n/10 , th is func-tion is in-voked for its side ef-fect of up-dat-ing [1790] [1791] [1792] [1793] Underfull \hbox (badness 1661) in paragraph at lines 1704--1711 []\T1/ptm/m/n/10 logical in-di-cat-ing if the re-sult should be sim-pli-fied to an [][]\T1/fi4/m/sl/10 array[][][] \T1/ptm/m/n/10 (typ-i- Underfull \hbox (badness 1990) in paragraph at lines 1716--1719 []\T1/ptm/m/n/10 a [][]\T1/fi4/m/sl/10 list[][][] \T1/ptm/m/n/10 or [][]\T1/fi4 /m/sl/10 array[][][]\T1/ptm/m/n/10 , see the \T1/fi4/m/sl/10 simplify \T1/ptm/m /n/10 ar-gu-ment above. In the lat-ter case, the iden-tity [1794] [1795] [1796] [1797] [1798] [1799] Overfull \hbox (6.10922pt too wide) in paragraph at lines 2100--2103 []\T1/ptm/m/n/10 files end-ing `\T1/fi4/m/sl/10 .csv\T1/ptm/m/n/10 ' or `\T1/fi 4/m/sl/10 .CSV\T1/ptm/m/n/10 ' are read us-ing [][]\T1/fi4/m/sl/10 read.table[] [][](..., header = TRUE, sep = ";")\T1/ptm/m/n/10 , [1800] [1801] [1802] [1803] [1804] [1805] [1806] [1807] Underfull \hbox (badness 1430) in paragraph at lines 2629--2635 []\T1/ptm/m/n/10 The level of de-tail pro-vided dur-ing trans-fer can be set by the \T1/fi4/m/sl/10 quiet \T1/ptm/m/n/10 ar-gu-ment and the Underfull \hbox (badness 2837) in paragraph at lines 2629--2635 \T1/fi4/m/sl/10 internet.info \T1/ptm/m/n/10 op-tion. The de-tails de-pend on t he plat-form and scheme, but set-ting [1808] Underfull \hbox (badness 1231) in paragraph at lines 2673--2679 []\T1/ptm/m/n/10 Usernames and pass-words can be set for HTTP proxy trans-fers via en-vi-ron-ment vari-able [1809] [1810] [1811] [1812] [1813] Underfull \hbox (badness 1210) in paragraph at lines 3044--3051 []\T1/ptm/m/n/10 logical or ex-pres-sion; if not \T1/fi4/m/sl/10 FALSE\T1/ptm/m /n/10 , the ran-dom num-ber gen-er-a-tor state [1814] [1815] [1816] [1817] [1818] [1819] [1820]pdfTeX warning (ext4): destinat ion with the same identifier (name{Rfn.format}) has been already used, duplicat e ignored \relax l.3428 ...mat Unordered and Ordered Lists}{format} pdfTeX warning (ext4): destin ation with the same identifier (name{Rfn.format.1}) has been already used, dupl icate ignored \relax l.3428 ...mat Unordered and Ordered Lists}{format} [1821] [1822] [1823] [1824] [1825] [1826] [1827] [1828] [1829] [1830] [1831] [1832] Underfull \hbox (badness 1371) in paragraph at lines 4199--4201 []\T1/ptm/m/n/10 additional named ar-gu-ments such as \T1/fi4/m/sl/10 method \T 1/ptm/m/n/10 and \T1/fi4/m/sl/10 ccaddress \T1/ptm/m/n/10 to pass to [1833] [1834] Underfull \hbox (badness 1502) in paragraph at lines 4288--4293 []\T1/ptm/m/n/10 a char-ac-ter string to be matched in the help page `key-words '. `Key- Underfull \hbox (badness 2103) in paragraph at lines 4288--4293 \T1/ptm/m/n/10 words' are re-ally cat-e-gories: the stan-dard cat-e-gories are listed in file [1835] [1836] Underfull \hbox (badness 10000) in paragraph at lines 4452--4461 []\T1/ptm/m/n/10 One of the links on the in-dex page is the HTML pack-age in-de x, [1837] [1838] Underfull \hbox (badness 3118) in paragraph at lines 4568--4570 []\T1/ptm/m/n/10 For de-tails of the lock-ing which is done, see the sec-tion ` Lock-ing' in the help for [1839] Underfull \hbox (badness 2057) in paragraph at lines 4648--4654 \T1/ptm/m/n/10 can be source archives or bi-nary pack-age archive files (as cre -ated by [1840] Underfull \hbox (badness 1348) in paragraph at lines 4694--4699 []\T1/ptm/m/n/10 logical in-di-cat-ing to also in-stall unin-stalled pack-ages which these pack- Underfull \hbox (badness 3884) in paragraph at lines 4694--4699 \T1/ptm/m/n/10 ages de-pend on/link to/import/suggest (and so on re-cur-sively) . Not Underfull \hbox (badness 3657) in paragraph at lines 4694--4699 \T1/ptm/m/n/10 used if \T1/fi4/m/sl/10 repos = NULL\T1/ptm/m/n/10 . Can also be a char-ac-ter vec-tor, a sub-set of Underfull \hbox (badness 10000) in paragraph at lines 4707--4714 []\T1/fi4/m/sl/10 TRUE \T1/ptm/m/n/10 means (as from \T1/phv/m/n/10 R \T1/ptm/m /n/10 2.15.0) to use Underfull \hbox (badness 10000) in paragraph at lines 4707--4714 \T1/fi4/m/sl/10 c("Depends", "Imports", "LinkingTo", "Suggests") \T1/ptm/m/n/10 for \T1/fi4/m/sl/10 pkgs \T1/ptm/m/n/10 and Underfull \hbox (badness 2103) in paragraph at lines 4707--4714 \T1/fi4/m/sl/10 c("Depends", "Imports", "LinkingTo") \T1/ptm/m/n/10 for added d e-pen-den-cies: this Underfull \hbox (badness 10000) in paragraph at lines 4748--4751 []\T1/ptm/m/n/10 (not used on Win-dows) anal-o-gous to \T1/fi4/m/sl/10 configur e.args \T1/ptm/m/n/10 for flag [1841] Underfull \hbox (badness 10000) in paragraph at lines 4772--4775 []\T1/ptm/m/n/10 an op-tional char-ac-ter vec-tor of ad-di-tional op-tion(s) to be Underfull \hbox (badness 10000) in paragraph at lines 4772--4775 \T1/ptm/m/n/10 passed to \T1/fi4/m/sl/10 R CMD INSTALL \T1/ptm/m/n/10 for a sou rce pack-age in-stall. E.g. [1842] Underfull \hbox (badness 10000) in paragraph at lines 4883--4888 [][][]\T1/fi4/m/sl/10 update.packages[][][]\T1/ptm/m/n/10 , [][]\T1/fi4/m/sl/10 available.packages[][][]\T1/ptm/m/n/10 , [][]\T1/fi4/m/sl/10 download.packages [][][]\T1/ptm/m/n/10 , [][]\T1/fi4/m/sl/10 installed.packages[][][]\T1/ptm/m/n/ 10 , [1843] [1844] [1845] [1846] [1847] [1848] [1849] [1850] [1851] [1852] [1853] [1854] [1855] [1856] [1857] [1858] [1859] [1860] Underfull \hbox (badness 10000) in paragraph at lines 6009--6011 []\T1/fi4/m/sl/10 packageVersion() \T1/ptm/m/n/10 is a con-ve-nience short-cut, al-low-ing things like Underfull \hbox (badness 2310) in paragraph at lines 6014--6019 []\T1/ptm/m/n/10 If a `\T1/fi4/m/sl/10 DESCRIPTION\T1/ptm/m/n/10 ' file for the given pack-age is found and can suc-cess-fully be read, [1861] [1862] Underfull \hbox (badness 10000) in paragraph at lines 6120--6123 []\T1/ptm/m/n/10 a data frame with columns as the \T1/ptm/m/it/10 ma-trix \T1/p tm/m/n/10 re-turned by Underfull \hbox (badness 10000) in paragraph at lines 6120--6123 [][]\T1/fi4/m/sl/10 available.packages[][][] \T1/ptm/m/n/10 plus \T1/fi4/m/sl/1 0 "Status"\T1/ptm/m/n/10 , a fac-tor with lev-els [1863] [1864] [1865] [1866] [1867] [1868] [1869] [1870] [1871] [1872] [1873] [1874] [1875] [1876] [1877] Underfull \hbox (badness 1163) in paragraph at lines 7106--7109 []\T1/ptm/m/n/10 the to-ken that was (or, is to be) com-pleted, as set by the l ast call to [1878] [1879] Underfull \hbox (badness 1097) in paragraph at lines 7257--7260 []\T1/ptm/m/n/10 The name \T1/fi4/m/sl/10 "clipboard" \T1/ptm/m/n/10 may also b e used on Win-dows, in which case [1880] [1881] Underfull \hbox (badness 3000) in paragraph at lines 7385--7390 [][][]\T1/fi4/m/sl/10 scan[][][]\T1/ptm/m/n/10 , [][]\T1/fi4/m/sl/10 type.conve rt[][][]\T1/ptm/m/n/10 , [][]\T1/fi4/m/sl/10 read.fwf[][][] \T1/ptm/m/n/10 for read-ing \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ixed \T1/ptm/m/it/10 w\T1/ptm/m/n/10 i dth \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ormatted in-put; [][]\T1/fi4/m/sl/10 read.t able[][][]\T1/ptm/m/n/10 ; [1882] [1883] [1884] [1885] [1886] [1887] [1888] [1889] [1890] Underfull \hbox (badness 2134) in paragraph at lines 7944--7949 [][][]\T1/fi4/m/sl/10 scan[][][]\T1/ptm/m/n/10 , [][]\T1/fi4/m/sl/10 type.conve rt[][][]\T1/ptm/m/n/10 , [][]\T1/fi4/m/sl/10 read.fwf[][][] \T1/ptm/m/n/10 for read-ing \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ixed \T1/ptm/m/it/10 w\T1/ptm/m/n/10 i dth \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ormatted in-put; [][]\T1/fi4/m/sl/10 write. table[][][]\T1/ptm/m/n/10 ; [1891] [1892] [1893] [1894] [1895] [1896] [1897] [1898] [1899] [1900] [1901] [1902] [1903] [1904] [1905] Underfull \hbox (badness 10000) in paragraph at lines 8862--8864 [][][]$\T1/fi4/m/sl/10 http : / / en . wikipedia . org / wiki / Ctags$[][]\T1/p tm/m/n/10 , [][]$\T1/fi4/m/sl/10 http : / / www . gnu . org / software / emacs / [1906] [1907] [1908] Underfull \hbox (badness 10000) in paragraph at lines 9040--9044 []\T1/ptm/m/n/10 The de-fault for \T1/fi4/m/sl/10 stylepath \T1/ptm/m/n/10 is n ow taken from the en-vi-ron-ment vari-able Underfull \hbox (badness 10000) in paragraph at lines 9071--9077 []\T1/ptm/m/n/10 If you wish to over-ride this de-fault be-hav-ior en-tirely, y ou can add a [1909] [1910] Underfull \hbox (badness 2096) in paragraph at lines 9185--9188 []\T1/ptm/m/n/10 logical (\T1/fi4/m/sl/10 FALSE\T1/ptm/m/n/10 ), in-di-cat-ing whether PNG fig-ures should be gen-er-ated. Ig-nored if Underfull \hbox (badness 1527) in paragraph at lines 9189--9192 []\T1/ptm/m/n/10 logical (\T1/fi4/m/sl/10 FALSE\T1/ptm/m/n/10 ), in-di-cat-ing whether JPEG fig-ures should be gen-er-ated. Ig-nored if Underfull \hbox (badness 1009) in paragraph at lines 9256--9267 []\T1/ptm/m/n/10 Before each code chunk is eval-u-ated, zero or more hook func- tions can be ex-e-cuted. If [1911] [1912] [1913] [1914] [1915] [1916] Underfull \hbox (badness 2635) in paragraph at lines 9557--9560 []\T1/ptm/m/n/10 Repository `\T1/fi4/m/sl/10 CRAN\T1/ptm/m/n/10 ' is treated sp e-cially: the value is taken from the cur-rent set-ting of [1917] [1918] [1919] [1920] [1921] Underfull \hbox (badness 5970) in paragraph at lines 9920--9923 []\T1/ptm/m/n/10 the page width to be used. The de-fault is the cur-rently ac-t ive [1922] Underfull \hbox (badness 1910) in paragraph at lines 9931--9940 \T1/ptm/m/n/10 strictly, one of the val-ues \T1/fi4/m/sl/10 c("no", "cut", "wra p")\T1/ptm/m/n/10 . De-faults to the [1923] [1924] [1925] [1926] Underfull \hbox (badness 2213) in paragraph at lines 10215--10222 []\T1/ptm/m/n/10 If \T1/fi4/m/sl/10 syntax = NULL \T1/ptm/m/n/10 (the de-fault) then the avail-able syn-tax ob-jects are con-sulted in turn, Underfull \hbox (badness 1688) in paragraph at lines 10215--10222 \T1/ptm/m/n/10 and se-lected if their \T1/fi4/m/sl/10 extension \T1/ptm/m/n/10 com-po-nent matches (as a reg-exp) the file name. Ob- [1927] [1928] [1929] Underfull \hbox (badness 10000) in paragraph at lines 10434--10437 [][][]$\T1/fi4/m/sl/10 http : / / en . wikipedia . org / wiki / Tar _ (file _ f ormat)$[][]\T1/ptm/m/n/10 , [][]$\T1/fi4/m/sl/10 http : / / pubs . opengroup . org / Underfull \hbox (badness 2245) in paragraph at lines 10434--10437 \T1/fi4/m/sl/10 onlinepubs / 9699919799 / utilities / pax . html # tag _ 20 _ 9 2 _ 13 _ 06$[][] \T1/ptm/m/n/10 for the way the POSIX [1930] [1931] [1932] [1933] [1934] [1935] [1936] [1937] Underfull \hbox (badness 10000) in paragraph at lines 10928--10930 []\T1/ptm/m/n/10 Arguments such as \T1/fi4/m/sl/10 destdir \T1/ptm/m/n/10 and \ T1/fi4/m/sl/10 dependencies \T1/ptm/m/n/10 to be passed to Underfull \hbox (badness 1052) in paragraph at lines 10931--10933 []\T1/ptm/m/n/10 character, in-di-cat-ing the type of pack-age to down-load and in-stall. See [1938] Underfull \hbox (badness 10000) in paragraph at lines 10961--10966 []\T1/ptm/m/n/10 For how the list of suit-able avail-able pack-ages is de-ter-m ined Underfull \hbox (badness 10000) in paragraph at lines 10961--10966 \T1/ptm/m/n/10 see [][]\T1/fi4/m/sl/10 available.packages[][][]\T1/ptm/m/n/10 . \T1/fi4/m/sl/10 available = NULL \T1/ptm/m/n/10 make a call to Underfull \hbox (badness 6961) in paragraph at lines 10961--10966 \T1/fi4/m/sl/10 available.packages(contriburl = contriburl, method = method) \T 1/ptm/m/n/10 and hence by de- Underfull \hbox (badness 10000) in paragraph at lines 10990--10993 [][][]\T1/fi4/m/sl/10 install.packages[][][]\T1/ptm/m/n/10 , [][]\T1/fi4/m/sl/1 0 available.packages[][][]\T1/ptm/m/n/10 , [][]\T1/fi4/m/sl/10 download.package s[][][]\T1/ptm/m/n/10 , [][]\T1/fi4/m/sl/10 installed.packages[][][]\T1/ptm/m/n /10 , [1939] [1940] Underfull \hbox (badness 10000) in paragraph at lines 11083--11088 []\T1/ptm/m/n/10 Characters in a URL other than the 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fixed one pdfTeX warning (dest): name{Rfn.clusterMap} has been referenced but does not ex ist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.chron} has been referenced but does not exist, replaced by a fixed one {/usr/share/texlive/texmf-dist/fonts/enc/dvips/inconsolata/fi4-ts1.enc}{/usr/sh are/texlive/texmf-dist/fonts/enc/dvips/base/8r.enc}{/usr/share/texlive/texmf-di st/fonts/enc/dvips/inconsolata/fi4-ec.enc} Output written on refman.pdf (2043 pages, 5349740 bytes). Transcript written on refman.log. TEXINPUTS=".:$TEXINPUTS" LC_COLLATE=C /usr/bin/texi2dvi --texinfo="@set UseExternalXrefs " --pdf R-FAQ.texi This is pdfTeX, Version 3.1415926-2.4-1.40.13 (TeX Live 2012/Debian) restricted \write18 enabled. entering extended mode (/«PKGBUILDDIR»/doc/manual/R-FAQ.t2d/pdf/xtr/R-FAQ.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2008-04-18.10]: pdf, fonts, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (./epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) (/usr/share/texmf/tex/texinfo/txi-en.tex) [1{/var/lib/texmf/fonts/map/pdftex/up dmap/pdftex.map}] [-1] Chapter 1 Cross reference values unknown; you must run TeX again. Chapter 2 [1] [2] [3] [4] [5] Underfull \hbox (badness 3158) in paragraph at lines 563--576 []@textrm Debian pack-ages, main-tained by Dirk Ed-del-buet-tel, have long been part of Underfull \hbox (badness 10000) in paragraph at lines 591--593 []@textrm See [][]@texttt http://cran.r-project.org/bin/linux/suse/README.html[ ][][] @textrm for in-for-ma-tion [6] Underfull \hbox (badness 10000) in paragraph at lines 674--677 []@textrm John M. Cham-bers (2008), ``Soft-ware for Data Anal-y-sis: Pro- Underfull \hbox (badness 8132) in paragraph at lines 674--677 @textrm gram-ming with R''. Springer, New York, ISBN 978-0-387-75935-7, Underfull \hbox (badness 10000) in paragraph at lines 682--685 []@textrm Robert Gen-tle-man (2008), ``R Pro-gram-ming for Bioin-for-mat-ics'' . Underfull \hbox (badness 7379) in paragraph at lines 682--685 @textrm Chap-man & Hall/CRC, Boca Ra-ton, FL, ISBN 978-1-420-06367-7, Underfull \hbox (badness 2846) in paragraph at lines 701--704 []@textrm William N. Ven-ables and Brian D. Rip-ley (2002), ``Mod-ern Ap-plied Underfull \hbox (badness 10000) in paragraph at lines 701--704 @textrm Statis-tics with S'' (4th edi-tion). Springer, ISBN 0-387-95457-0, [7] [8] Underfull \hbox (badness 3386) in paragraph at lines 878--885 @textrm Pol-icy[][], up-load to [][]@texttt ftp://CRAN.R-project.org/incoming/[ ][][] @textrm and send an email to [9] [10] Chapter 3 [11] [12] [13] [14] [15] [16] [17] [18] Overfull \hbox (5.53629pt too wide) in paragraph at lines 1612--1615 []@textrm See also [][]@texttt http://en.wikipedia.org/wiki/R_programming_langu age#Commercialized_ Chapter 4 [19] [20] Chapter 5 [21] [22] [23] [24] [25] Chapter 6 [26] [27] Chapter 7 [28] [29] [30] [31] [32] [33] [34] [35] [36] [37] [38] [39] [40] Underfull \hbox (badness 4217) in paragraph at lines 3326--3337 @texttt doku.php?id=tips:graphics-base:2yaxes[][][] @textrm for more in-for-ma- tion, in-clud-ing strong [41] [42] Chapter 8 [43] Chapter 9 [44] [45] Chapter 10 [46] [47] [48] ) (see the transcript file for additional information) Output written on R-FAQ.pdf (50 pages, 363689 bytes). Transcript written on R-FAQ.log. This is pdfTeX, Version 3.1415926-2.4-1.40.13 (TeX Live 2012/Debian) restricted \write18 enabled. entering extended mode (/«PKGBUILDDIR»/doc/manual/R-FAQ.t2d/pdf/xtr/R-FAQ.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2008-04-18.10]: pdf, fonts, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (./epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) (./R-FAQ.aux) (/usr/share/texmf/tex/texinfo/txi-en.tex) [1{/var/lib/texmf/fonts/map/pdftex/up dmap/pdftex.map}] (./R-FAQ.toc [-1] [-2]) [-3] (./R-FAQ.toc) (./R-FAQ.toc) Chapter 1 Chapter 2 [1] [2] [3] [4] [5] Underfull \hbox (badness 3158) in paragraph at lines 563--576 []@textrm Debian pack-ages, main-tained by Dirk Ed-del-buet-tel, have long been part of Underfull \hbox (badness 10000) in paragraph at lines 591--593 []@textrm See [][]@texttt http://cran.r-project.org/bin/linux/suse/README.html[ ][][] @textrm for in-for-ma-tion [6] Underfull \hbox (badness 10000) in paragraph at lines 674--677 []@textrm John M. Cham-bers (2008), ``Soft-ware for Data Anal-y-sis: Pro- Underfull \hbox (badness 8132) in paragraph at lines 674--677 @textrm gram-ming with R''. Springer, New York, ISBN 978-0-387-75935-7, Underfull \hbox (badness 10000) in paragraph at lines 682--685 []@textrm Robert Gen-tle-man (2008), ``R Pro-gram-ming for Bioin-for-mat-ics'' . Underfull \hbox (badness 7379) in paragraph at lines 682--685 @textrm Chap-man & Hall/CRC, Boca Ra-ton, FL, ISBN 978-1-420-06367-7, Underfull \hbox (badness 2846) in paragraph at lines 701--704 []@textrm William N. Ven-ables and Brian D. Rip-ley (2002), ``Mod-ern Ap-plied Underfull \hbox (badness 10000) in paragraph at lines 701--704 @textrm Statis-tics with S'' (4th edi-tion). Springer, ISBN 0-387-95457-0, [7] [8] Underfull \hbox (badness 3386) in paragraph at lines 878--885 @textrm Pol-icy[][], up-load to [][]@texttt ftp://CRAN.R-project.org/incoming/[ ][][] @textrm and send an email to [9] [10] Chapter 3 [11] [12] [13] [14] [15] [16] [17] [18] Overfull \hbox (5.53629pt too wide) in paragraph at lines 1612--1615 []@textrm See also [][]@texttt http://en.wikipedia.org/wiki/R_programming_langu age#Commercialized_ Chapter 4 [19] [20] Chapter 5 [21] [22] [23] [24] [25] Chapter 6 [26] [27] Chapter 7 [28] [29] [30] [31] [32] [33] [34] [35] [36] [37] [38] [39] [40] Underfull \hbox (badness 4217) in paragraph at lines 3326--3337 @texttt doku.php?id=tips:graphics-base:2yaxes[][][] @textrm for more in-for-ma- tion, in-clud-ing strong [41] [42] Chapter 8 [43] Chapter 9 [44] [45] Chapter 10 [46] [47] [48] ) (see the transcript file for additional information) Output written on R-FAQ.pdf (52 pages, 379411 bytes). Transcript written on R-FAQ.log. This is pdfTeX, Version 3.1415926-2.4-1.40.13 (TeX Live 2012/Debian) restricted \write18 enabled. entering extended mode (/«PKGBUILDDIR»/doc/manual/R-FAQ.t2d/pdf/xtr/R-FAQ.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2008-04-18.10]: pdf, fonts, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (./epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) (./R-FAQ.aux) (/usr/share/texmf/tex/texinfo/txi-en.tex) [1{/var/lib/texmf/fonts/map/pdftex/up dmap/pdftex.map}] (./R-FAQ.toc [-1] [-2]) [-3] (./R-FAQ.toc) (./R-FAQ.toc) Chapter 1 Chapter 2 [1] [2] [3] [4] [5] Underfull \hbox (badness 3158) in paragraph at lines 563--576 []@textrm Debian pack-ages, main-tained by Dirk Ed-del-buet-tel, have long been part of Underfull \hbox (badness 10000) in paragraph at lines 591--593 []@textrm See [][]@texttt http://cran.r-project.org/bin/linux/suse/README.html[ ][][] @textrm for in-for-ma-tion [6] Underfull \hbox (badness 10000) in paragraph at lines 674--677 []@textrm John M. Cham-bers (2008), ``Soft-ware for Data Anal-y-sis: Pro- Underfull \hbox (badness 8132) in paragraph at lines 674--677 @textrm gram-ming with R''. Springer, New York, ISBN 978-0-387-75935-7, Underfull \hbox (badness 10000) in paragraph at lines 682--685 []@textrm Robert Gen-tle-man (2008), ``R Pro-gram-ming for Bioin-for-mat-ics'' . Underfull \hbox (badness 7379) in paragraph at lines 682--685 @textrm Chap-man & Hall/CRC, Boca Ra-ton, FL, ISBN 978-1-420-06367-7, Underfull \hbox (badness 2846) in paragraph at lines 701--704 []@textrm William N. Ven-ables and Brian D. Rip-ley (2002), ``Mod-ern Ap-plied Underfull \hbox (badness 10000) in paragraph at lines 701--704 @textrm Statis-tics with S'' (4th edi-tion). Springer, ISBN 0-387-95457-0, [7] [8] Underfull \hbox (badness 3386) in paragraph at lines 878--885 @textrm Pol-icy[][], up-load to [][]@texttt ftp://CRAN.R-project.org/incoming/[ ][][] @textrm and send an email to [9] [10] Chapter 3 [11] [12] [13] [14] [15] [16] [17] [18] Overfull \hbox (5.53629pt too wide) in paragraph at lines 1612--1615 []@textrm See also [][]@texttt http://en.wikipedia.org/wiki/R_programming_langu age#Commercialized_ Chapter 4 [19] [20] Chapter 5 [21] [22] [23] [24] [25] Chapter 6 [26] [27] Chapter 7 [28] [29] [30] [31] [32] [33] [34] [35] [36] [37] [38] [39] [40] Underfull \hbox (badness 4217) in paragraph at lines 3326--3337 @texttt doku.php?id=tips:graphics-base:2yaxes[][][] @textrm for more in-for-ma- tion, in-clud-ing strong [41] [42] Chapter 8 [43] Chapter 9 [44] [45] Chapter 10 [46] [47] [48] ) (see the transcript file for additional information) Output written on R-FAQ.pdf (52 pages, 379411 bytes). Transcript written on R-FAQ.log. TEXINPUTS=".:$TEXINPUTS" LC_COLLATE=C /usr/bin/texi2dvi --texinfo="@set UseExternalXrefs " --pdf R-admin.texi This is pdfTeX, Version 3.1415926-2.4-1.40.13 (TeX Live 2012/Debian) restricted \write18 enabled. entering extended mode (/«PKGBUILDDIR»/doc/manual/R-admin.t2d/pdf/xtr/R-admin.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2008-04-18.10]: pdf, fonts, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (./epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) (./R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (./version.texi) [1{/var/lib/texmf/fonts/map/pdftex/updmap/pdftex.map}] [2] [-1] Chapter 1 [1] Chapter 2 [2] Cross reference values unknown; you must run TeX again. [3] [4] [5] [6] Underfull \hbox (badness 2103) in paragraph at lines 610--617 @textrm head-ers are not in-stalled into a sub-di-rec-tory you prob-a-bly want some-thing like [7] Underfull \hbox (badness 2762) in paragraph at lines 760--770 @textrm be the last in-stalled, but architecture-specific ver-sions will be ava il-able in e.g. [8] Underfull \hbox (badness 3965) in paragraph at lines 780--793 @textrm the ap-pro-pri-ate `@texttt bin[]@textrm '[] di-rec-tory, `@textttsl R_ HOME@texttt /bin/i386[]@textrm '[] or `@textttsl R_HOME@texttt /bin/x64[]@textr m '[]. For Overfull \hbox (28.38092pt too wide) in paragraph at lines 852--858 []@textrm One that may be use-ful when work-ing on R it-self is the op-tion `@t exttt --disable-byte-compilation[]@textrm '[], [9] Chapter 3 [10] [11] Underfull \hbox (badness 2970) in paragraph at lines 1035--1039 []@textrm or per-haps bet-ter, set the en-vi-ron-ment vari-able @texttt TAR_OP TIONS[] @textrm to the value Underfull \hbox (badness 10000) in paragraph at lines 1070--1079 []@textrm You need @texttt libpng[]@textrm , @texttt jpeg[] @textrm and @textt t libtiff[] @textrm sources (avail-able, e.g., from [12] Underfull \hbox (badness 10000) in paragraph at lines 1174--1178 []@textrm Running @texttt make[] @textrm in `@textttsl R_HOME@texttt /src/gnuwi n32/bitmap[]@textrm '[] or @texttt make bitmapdll[] @textrm in Underfull \hbox (badness 10000) in paragraph at lines 1174--1178 @textrm `@textttsl R_HOME@texttt /src/gnuwin32[]@textrm '[] should build `@text tt Rbitmap.dll[]@textrm '[] and in-stall it un-der Overfull \hbox (64.20622pt too wide) in paragraph at lines 1190--1196 @textrm braries built by Si-mon Ur-banek at [][]@texttt http://www.rforge.net/C airo/files/cairo-current-win.tar.gz[][][]@textrm . [13] [14] [15] Chapter 4 [16] Chapter 5 [17] Chapter 6 [18] Overfull \hbox (14.94176pt too wide) in paragraph at lines 1548--1548 []@texttt [1] "datasets" "utils" "grDevices" "graphics" "stats" "met hods"[] [19] [20] [21] Underfull \hbox (badness 10000) in paragraph at lines 1840--1844 []@textrm where there is a non-empty `@texttt configure.win[]@textrm '[] scrip t, or a file Underfull \hbox (badness 10000) in paragraph at lines 1840--1844 @textrm `@texttt src/Makefile.win[]@textrm '[] (with some ex-cep-tions where t he pack-age is Underfull \hbox (badness 8132) in paragraph at lines 1840--1844 @textrm known to have an architecture-independent `@texttt configure.win[]@tex trm '[], or if [22] [23] Overfull \hbox (51.96864pt too wide) in paragraph at lines 2011--2011 []@texttt R --arch @textttsl arch @texttt CMD check -l @textttsl lib-dir @text tt --extra-arch --install=check:@textttsl pkgname@texttt .log @textttsl pkg- [24] Overfull \hbox (50.70126pt too wide) in paragraph at lines 2031--2031 []@texttt .../bin/i386/Rcmd check -l @textttsl lib-dir @texttt --extra-arch -- install=check:@textttsl pkgname@texttt .log @textttsl pkg- Overfull \hbox (44.95258pt too wide) in paragraph at lines 2032--2032 []@texttt .../bin/x64/Rcmd check -l @textttsl lib-dir @texttt --extra-arch --i nstall=check:@textttsl pkgname@texttt .log @textttsl pkg- Chapter 7 [25] Underfull \hbox (badness 2393) in paragraph at lines 2102--2109 @texttt en.wikipedia.org/wiki/ISO_3166[][][]@textrm ). Some-times the com-bi-n a-tion of lan-guage [26] Underfull \hbox (badness 8170) in paragraph at lines 2150--2154 @textrm found at [][]@texttt http://msdn.microsoft.com/library/default.asp?url= /library/en-us/ [27] Chapter 8 [28] [29] Chapter 9 [30] [31] [32] Appendix A [33] [34] [35] Underfull \hbox (badness 10000) in paragraph at lines 2730--2732 [][][]@smallrm also known as @smalltt ttf-mscorefonts-installer[] @smallrm in t he De-bian/Ubuntu world: see also Underfull \hbox (badness 10000) in paragraph at lines 2754--2762 @textrm by `@texttt --with-system-zlib[]@textrm '[] (ver-sion 1.2.3 or later), `@texttt --with-system-bzlib[]@textrm '[] or [36] Underfull \hbox (badness 2951) in paragraph at lines 2785--2791 []@textrm The @texttt bitmap[] @textrm and @texttt dev2bitmap[] @textrm de-vice s and also @texttt embedFonts()[] @textrm use ghost-script Underfull \hbox (badness 2302) in paragraph at lines 2834--2840 @textrm JVM, which are stored in en-vi-ron-ment vari-able []@texttt R_JAVA_LD_L IBRARY_PATH[] @textrm in file [37] [38] [39] Underfull \hbox (badness 10000) in paragraph at lines 3062--3068 []@textrm For In-tel pro-ces-sors un-der Linux, there is In-tel's Math Ker-nel Li-brary Underfull \hbox (badness 10000) in paragraph at lines 3062--3068 @textrm ([][]@texttt http://www.intel.com/software/products/mkl/[][][]@textrm ) . You are strongly en-cour- Overfull \hbox (43.6852pt too wide) in paragraph at lines 3089--3089 []@texttt MKL="-L${MKL_LIB_PATH} -lmkl_gf_lp64 -lmkl_sequential -lmkl_lapack - lmkl_core"[] [40] Overfull \hbox (27.70651pt too wide) in paragraph at lines 3198--3198 []@texttt ln -s /opt/acml5.1.0/gfortran64_mp/lib/libacml_mp.so @textttsl R_HOM E@texttt /lib/libRblas.so[] [41] Appendix B [42] [43] [44] Underfull \hbox (badness 3428) in paragraph at lines 3448--3461 @textrm `@texttt -L/usr/local/lib64[]@textrm '[] on most 64-bit Linux OSes) and `@texttt -I/usr/local/include[]@textrm '[] [45] [46] Underfull \hbox (badness 3701) in paragraph at lines 3683--3687 []@textrm To com-pile a pro-fil-ing ver-sion of R, one might for ex-am-ple want to use [47] Appendix C [48] [49] [50] Underfull \hbox (badness 3029) in paragraph at lines 3864--3868 @textrm is ap-pro-pri-ate since most (but not all) soft-ware in-stalls its 64-b it li-braries in Underfull \hbox (badness 8151) in paragraph at lines 1--3924 []@textrm R has been built with Linux `@texttt ix86[]@textrm '[] and `@texttt x 86_64[]@textrm '[] C and C@texttt ++ @textrm com-pil-ers Underfull \hbox (badness 2951) in paragraph at lines 1--3924 @textrm ([][]@texttt http://clang.llvm.org[][][]@textrm , ver-sions 2.9 and 3.0 ) based on the Clang front-ends, [51] [52] [53] Overfull \hbox (24.05835pt too wide) in paragraph at lines 4151--4156 []@textrm With Xcode 4.2 and later you need to in-stall a pack-age named like [ ][]@texttt http://r.research.att.com/ [54] Overfull \hbox (2.58777pt too wide) in paragraph at lines 4231--4234 []@textrm A large se-lec-tion of Open Source soft-ware can be in-stalled from [ ][]@texttt http://www.opencsw.org[][][] [55] Overfull \hbox (14.94176pt too wide) in paragraph at lines 4277--4277 []@texttt PKG_CONFIG_PATH=/opt/csw/lib/sparcv9/pkgconfig:/usr/lib/sparcv9/pkgc onfig[] Underfull \hbox (badness 3000) in paragraph at lines 4327--4330 []@textrm You can tar-get spe-cific Sparc ar-chi-tec-tures for (slightly) highe r per-for-mance: [56] [57] [58] Underfull \hbox (badness 10000) in paragraph at lines 4531--4557 @textrm Ap-pli-ca-tions'' ([][]@texttt http://www-03.ibm.com/systems/power/soft ware/aix/linux/[][][]@textrm ) [59] [60] Underfull \hbox (badness 2486) in paragraph at lines 4701--4710 []@textrm It seems that @texttt gcc[] @textrm 3.4.x and later on `@texttt ix86[ ]@textrm '[] Linux de-feat at-tempts by the Appendix D [61] [62] Underfull \hbox (badness 2119) in paragraph at lines 4899--4902 []@textrm You may need to set the en-vi-ron-ment vari-able @texttt CYGWIN[] @te xtrm to a value in-clud-ing [63] (Function and variable index) [64] (Concept index) [65] (Environment variable index) [66] [67] ) (see the transcript file for additional information) Output written on R-admin.pdf (70 pages, 400469 bytes). Transcript written on R-admin.log. This is pdfTeX, Version 3.1415926-2.4-1.40.13 (TeX Live 2012/Debian) restricted \write18 enabled. entering extended mode (/«PKGBUILDDIR»/doc/manual/R-admin.t2d/pdf/xtr/R-admin.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2008-04-18.10]: pdf, fonts, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (./epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) (./R-admin.aux) (./R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (./version.texi) [1{/var/lib/texmf/fonts/map/pdftex/updmap/pdftex.map}] [2] (./R-admin.toc [-1] [-2]) [-3] (./R-admin.toc) (./R-admin.toc) Chapter 1 [1] Chapter 2 [2] [3] [4] [5] [6] Underfull \hbox (badness 2103) in paragraph at lines 610--617 @textrm head-ers are not in-stalled into a sub-di-rec-tory you prob-a-bly want some-thing like [7] Underfull \hbox (badness 2762) in paragraph at lines 760--770 @textrm be the last in-stalled, but architecture-specific ver-sions will be ava il-able in e.g. [8] Underfull \hbox (badness 3965) in paragraph at lines 780--793 @textrm the ap-pro-pri-ate `@texttt bin[]@textrm '[] di-rec-tory, `@textttsl R_ HOME@texttt /bin/i386[]@textrm '[] or `@textttsl R_HOME@texttt /bin/x64[]@textr m '[]. For Overfull \hbox (28.38092pt too wide) in paragraph at lines 852--858 []@textrm One that may be use-ful when work-ing on R it-self is the op-tion `@t exttt --disable-byte-compilation[]@textrm '[], [9] Chapter 3 [10] [11] Underfull \hbox (badness 2970) in paragraph at lines 1035--1039 []@textrm or per-haps bet-ter, set the en-vi-ron-ment vari-able @texttt TAR_OP TIONS[] @textrm to the value Underfull \hbox (badness 10000) in paragraph at lines 1070--1079 []@textrm You need @texttt libpng[]@textrm , @texttt jpeg[] @textrm and @textt t libtiff[] @textrm sources (avail-able, e.g., from [12] Underfull \hbox (badness 10000) in paragraph at lines 1174--1178 []@textrm Running @texttt make[] @textrm in `@textttsl R_HOME@texttt /src/gnuwi n32/bitmap[]@textrm '[] or @texttt make bitmapdll[] @textrm in Underfull \hbox (badness 10000) in paragraph at lines 1174--1178 @textrm `@textttsl R_HOME@texttt /src/gnuwin32[]@textrm '[] should build `@text tt Rbitmap.dll[]@textrm '[] and in-stall it un-der Overfull \hbox (64.20622pt too wide) in paragraph at lines 1190--1196 @textrm braries built by Si-mon Ur-banek at [][]@texttt http://www.rforge.net/C airo/files/cairo-current-win.tar.gz[][][]@textrm . [13] [14] [15] Chapter 4 [16] Chapter 5 [17] Chapter 6 [18] Overfull \hbox (14.94176pt too wide) in paragraph at lines 1548--1548 []@texttt [1] "datasets" "utils" "grDevices" "graphics" "stats" "met hods"[] [19] [20] [21] Underfull \hbox (badness 10000) in paragraph at lines 1840--1844 []@textrm where there is a non-empty `@texttt configure.win[]@textrm '[] scrip t, or a file Underfull \hbox (badness 10000) in paragraph at lines 1840--1844 @textrm `@texttt src/Makefile.win[]@textrm '[] (with some ex-cep-tions where t he pack-age is Underfull \hbox (badness 8132) in paragraph at lines 1840--1844 @textrm known to have an architecture-independent `@texttt configure.win[]@tex trm '[], or if [22] [23] Overfull \hbox (51.96864pt too wide) in paragraph at lines 2011--2011 []@texttt R --arch @textttsl arch @texttt CMD check -l @textttsl lib-dir @text tt --extra-arch --install=check:@textttsl pkgname@texttt .log @textttsl pkg- [24] Overfull \hbox (50.70126pt too wide) in paragraph at lines 2031--2031 []@texttt .../bin/i386/Rcmd check -l @textttsl lib-dir @texttt --extra-arch -- install=check:@textttsl pkgname@texttt .log @textttsl pkg- Overfull \hbox (44.95258pt too wide) in paragraph at lines 2032--2032 []@texttt .../bin/x64/Rcmd check -l @textttsl lib-dir @texttt --extra-arch --i nstall=check:@textttsl pkgname@texttt .log @textttsl pkg- Chapter 7 [25] Underfull \hbox (badness 2393) in paragraph at lines 2102--2109 @texttt en.wikipedia.org/wiki/ISO_3166[][][]@textrm ). Some-times the com-bi-n a-tion of lan-guage [26] Underfull \hbox (badness 8170) in paragraph at lines 2150--2154 @textrm found at [][]@texttt http://msdn.microsoft.com/library/default.asp?url= /library/en-us/ [27] Chapter 8 [28] [29] Chapter 9 [30] [31] [32] Appendix A [33] [34] [35] Underfull \hbox (badness 10000) in paragraph at lines 2730--2732 [][][]@smallrm also known as @smalltt ttf-mscorefonts-installer[] @smallrm in t he De-bian/Ubuntu world: see also Underfull \hbox (badness 10000) in paragraph at lines 2754--2762 @textrm by `@texttt --with-system-zlib[]@textrm '[] (ver-sion 1.2.3 or later), `@texttt --with-system-bzlib[]@textrm '[] or [36] Underfull \hbox (badness 2951) in paragraph at lines 2785--2791 []@textrm The @texttt bitmap[] @textrm and @texttt dev2bitmap[] @textrm de-vice s and also @texttt embedFonts()[] @textrm use ghost-script Underfull \hbox (badness 2302) in paragraph at lines 2834--2840 @textrm JVM, which are stored in en-vi-ron-ment vari-able []@texttt R_JAVA_LD_L IBRARY_PATH[] @textrm in file [37] [38] [39] Underfull \hbox (badness 10000) in paragraph at lines 3062--3068 []@textrm For In-tel pro-ces-sors un-der Linux, there is In-tel's Math Ker-nel Li-brary Underfull \hbox (badness 10000) in paragraph at lines 3062--3068 @textrm ([][]@texttt http://www.intel.com/software/products/mkl/[][][]@textrm ) . You are strongly en-cour- Overfull \hbox (43.6852pt too wide) in paragraph at lines 3089--3089 []@texttt MKL="-L${MKL_LIB_PATH} -lmkl_gf_lp64 -lmkl_sequential -lmkl_lapack - lmkl_core"[] [40] Overfull \hbox (27.70651pt too wide) in paragraph at lines 3198--3198 []@texttt ln -s /opt/acml5.1.0/gfortran64_mp/lib/libacml_mp.so @textttsl R_HOM E@texttt /lib/libRblas.so[] [41] Appendix B [42] [43] [44] Underfull \hbox (badness 3428) in paragraph at lines 3448--3461 @textrm `@texttt -L/usr/local/lib64[]@textrm '[] on most 64-bit Linux OSes) and `@texttt -I/usr/local/include[]@textrm '[] [45] [46] Underfull \hbox (badness 3701) in paragraph at lines 3683--3687 []@textrm To com-pile a pro-fil-ing ver-sion of R, one might for ex-am-ple want to use [47] Appendix C [48] [49] [50] Underfull \hbox (badness 3029) in paragraph at lines 3864--3868 @textrm is ap-pro-pri-ate since most (but not all) soft-ware in-stalls its 64-b it li-braries in Underfull \hbox (badness 8151) in paragraph at lines 1--3924 []@textrm R has been built with Linux `@texttt ix86[]@textrm '[] and `@texttt x 86_64[]@textrm '[] C and C@texttt ++ @textrm com-pil-ers Underfull \hbox (badness 2951) in paragraph at lines 1--3924 @textrm ([][]@texttt http://clang.llvm.org[][][]@textrm , ver-sions 2.9 and 3.0 ) based on the Clang front-ends, [51] [52] [53] Overfull \hbox (24.05835pt too wide) in paragraph at lines 4151--4156 []@textrm With Xcode 4.2 and later you need to in-stall a pack-age named like [ ][]@texttt http://r.research.att.com/ [54] Overfull \hbox (2.58777pt too wide) in paragraph at lines 4231--4234 []@textrm A large se-lec-tion of Open Source soft-ware can be in-stalled from [ ][]@texttt http://www.opencsw.org[][][] [55] Overfull \hbox (14.94176pt too wide) in paragraph at lines 4277--4277 []@texttt PKG_CONFIG_PATH=/opt/csw/lib/sparcv9/pkgconfig:/usr/lib/sparcv9/pkgc onfig[] Underfull \hbox (badness 3000) in paragraph at lines 4327--4330 []@textrm You can tar-get spe-cific Sparc ar-chi-tec-tures for (slightly) highe r per-for-mance: [56] [57] [58] Underfull \hbox (badness 10000) in paragraph at lines 4531--4557 @textrm Ap-pli-ca-tions'' ([][]@texttt http://www-03.ibm.com/systems/power/soft ware/aix/linux/[][][]@textrm ) [59] [60] Underfull \hbox (badness 2486) in paragraph at lines 4701--4710 []@textrm It seems that @texttt gcc[] @textrm 3.4.x and later on `@texttt ix86[ ]@textrm '[] Linux de-feat at-tempts by the Appendix D [61] [62] Underfull \hbox (badness 2119) in paragraph at lines 4899--4902 []@textrm You may need to set the en-vi-ron-ment vari-able @texttt CYGWIN[] @te xtrm to a value in-clud-ing [63] (Function and variable index) [64] (./R-admin.vrs) (Concept index) [65] (./R-admin.cps) (Environment variable index) [66] (./R-admin.ens) [67] ) (see the transcript file for additional information) Output written on R-admin.pdf (72 pages, 445236 bytes). Transcript written on R-admin.log. This is pdfTeX, Version 3.1415926-2.4-1.40.13 (TeX Live 2012/Debian) restricted \write18 enabled. entering extended mode (/«PKGBUILDDIR»/doc/manual/R-admin.t2d/pdf/xtr/R-admin.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2008-04-18.10]: pdf, fonts, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (./epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) (./R-admin.aux) (./R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (./version.texi) [1{/var/lib/texmf/fonts/map/pdftex/updmap/pdftex.map}] [2] (./R-admin.toc [-1] [-2]) [-3] (./R-admin.toc) (./R-admin.toc) Chapter 1 [1] Chapter 2 [2] [3] [4] [5] [6] Underfull \hbox (badness 2103) in paragraph at lines 610--617 @textrm head-ers are not in-stalled into a sub-di-rec-tory you prob-a-bly want some-thing like [7] Underfull \hbox (badness 2762) in paragraph at lines 760--770 @textrm be the last in-stalled, but architecture-specific ver-sions will be ava il-able in e.g. [8] Underfull \hbox (badness 3965) in paragraph at lines 780--793 @textrm the ap-pro-pri-ate `@texttt bin[]@textrm '[] di-rec-tory, `@textttsl R_ HOME@texttt /bin/i386[]@textrm '[] or `@textttsl R_HOME@texttt /bin/x64[]@textr m '[]. For Overfull \hbox (28.38092pt too wide) in paragraph at lines 852--858 []@textrm One that may be use-ful when work-ing on R it-self is the op-tion `@t exttt --disable-byte-compilation[]@textrm '[], [9] Chapter 3 [10] [11] Underfull \hbox (badness 2970) in paragraph at lines 1035--1039 []@textrm or per-haps bet-ter, set the en-vi-ron-ment vari-able @texttt TAR_OP TIONS[] @textrm to the value Underfull \hbox (badness 10000) in paragraph at lines 1070--1079 []@textrm You need @texttt libpng[]@textrm , @texttt jpeg[] @textrm and @textt t libtiff[] @textrm sources (avail-able, e.g., from [12] Underfull \hbox (badness 10000) in paragraph at lines 1174--1178 []@textrm Running @texttt make[] @textrm in `@textttsl R_HOME@texttt /src/gnuwi n32/bitmap[]@textrm '[] or @texttt make bitmapdll[] @textrm in Underfull \hbox (badness 10000) in paragraph at lines 1174--1178 @textrm `@textttsl R_HOME@texttt /src/gnuwin32[]@textrm '[] should build `@text tt Rbitmap.dll[]@textrm '[] and in-stall it un-der Overfull \hbox (64.20622pt too wide) in paragraph at lines 1190--1196 @textrm braries built by Si-mon Ur-banek at [][]@texttt http://www.rforge.net/C airo/files/cairo-current-win.tar.gz[][][]@textrm . [13] [14] [15] Chapter 4 [16] Chapter 5 [17] Chapter 6 [18] Overfull \hbox (14.94176pt too wide) in paragraph at lines 1548--1548 []@texttt [1] "datasets" "utils" "grDevices" "graphics" "stats" "met hods"[] [19] [20] [21] Underfull \hbox (badness 10000) in paragraph at lines 1840--1844 []@textrm where there is a non-empty `@texttt configure.win[]@textrm '[] scrip t, or a file Underfull \hbox (badness 10000) in paragraph at lines 1840--1844 @textrm `@texttt src/Makefile.win[]@textrm '[] (with some ex-cep-tions where t he pack-age is Underfull \hbox (badness 8132) in paragraph at lines 1840--1844 @textrm known to have an architecture-independent `@texttt configure.win[]@tex trm '[], or if [22] [23] Overfull \hbox (51.96864pt too wide) in paragraph at lines 2011--2011 []@texttt R --arch @textttsl arch @texttt CMD check -l @textttsl lib-dir @text tt --extra-arch --install=check:@textttsl pkgname@texttt .log @textttsl pkg- [24] Overfull \hbox (50.70126pt too wide) in paragraph at lines 2031--2031 []@texttt .../bin/i386/Rcmd check -l @textttsl lib-dir @texttt --extra-arch -- install=check:@textttsl pkgname@texttt .log @textttsl pkg- Overfull \hbox (44.95258pt too wide) in paragraph at lines 2032--2032 []@texttt .../bin/x64/Rcmd check -l @textttsl lib-dir @texttt --extra-arch --i nstall=check:@textttsl pkgname@texttt .log @textttsl pkg- Chapter 7 [25] Underfull \hbox (badness 2393) in paragraph at lines 2102--2109 @texttt en.wikipedia.org/wiki/ISO_3166[][][]@textrm ). Some-times the com-bi-n a-tion of lan-guage [26] Underfull \hbox (badness 8170) in paragraph at lines 2150--2154 @textrm found at [][]@texttt http://msdn.microsoft.com/library/default.asp?url= /library/en-us/ [27] Chapter 8 [28] [29] Chapter 9 [30] [31] [32] Appendix A [33] [34] [35] Underfull \hbox (badness 10000) in paragraph at lines 2730--2732 [][][]@smallrm also known as @smalltt ttf-mscorefonts-installer[] @smallrm in t he De-bian/Ubuntu world: see also Underfull \hbox (badness 10000) in paragraph at lines 2754--2762 @textrm by `@texttt --with-system-zlib[]@textrm '[] (ver-sion 1.2.3 or later), `@texttt --with-system-bzlib[]@textrm '[] or [36] Underfull \hbox (badness 2951) in paragraph at lines 2785--2791 []@textrm The @texttt bitmap[] @textrm and @texttt dev2bitmap[] @textrm de-vice s and also @texttt embedFonts()[] @textrm use ghost-script Underfull \hbox (badness 2302) in paragraph at lines 2834--2840 @textrm JVM, which are stored in en-vi-ron-ment vari-able []@texttt R_JAVA_LD_L IBRARY_PATH[] @textrm in file [37] [38] [39] Underfull \hbox (badness 10000) in paragraph at lines 3062--3068 []@textrm For In-tel pro-ces-sors un-der Linux, there is In-tel's Math Ker-nel Li-brary Underfull \hbox (badness 10000) in paragraph at lines 3062--3068 @textrm ([][]@texttt http://www.intel.com/software/products/mkl/[][][]@textrm ) . You are strongly en-cour- Overfull \hbox (43.6852pt too wide) in paragraph at lines 3089--3089 []@texttt MKL="-L${MKL_LIB_PATH} -lmkl_gf_lp64 -lmkl_sequential -lmkl_lapack - lmkl_core"[] [40] Overfull \hbox (27.70651pt too wide) in paragraph at lines 3198--3198 []@texttt ln -s /opt/acml5.1.0/gfortran64_mp/lib/libacml_mp.so @textttsl R_HOM E@texttt /lib/libRblas.so[] [41] Appendix B [42] [43] [44] Underfull \hbox (badness 3428) in paragraph at lines 3448--3461 @textrm `@texttt -L/usr/local/lib64[]@textrm '[] on most 64-bit Linux OSes) and `@texttt -I/usr/local/include[]@textrm '[] [45] [46] Underfull \hbox (badness 3701) in paragraph at lines 3683--3687 []@textrm To com-pile a pro-fil-ing ver-sion of R, one might for ex-am-ple want to use [47] Appendix C [48] [49] [50] Underfull \hbox (badness 3029) in paragraph at lines 3864--3868 @textrm is ap-pro-pri-ate since most (but not all) soft-ware in-stalls its 64-b it li-braries in Underfull \hbox (badness 8151) in paragraph at lines 1--3924 []@textrm R has been built with Linux `@texttt ix86[]@textrm '[] and `@texttt x 86_64[]@textrm '[] C and C@texttt ++ @textrm com-pil-ers Underfull \hbox (badness 2951) in paragraph at lines 1--3924 @textrm ([][]@texttt http://clang.llvm.org[][][]@textrm , ver-sions 2.9 and 3.0 ) based on the Clang front-ends, [51] [52] [53] Overfull \hbox (24.05835pt too wide) in paragraph at lines 4151--4156 []@textrm With Xcode 4.2 and later you need to in-stall a pack-age named like [ ][]@texttt http://r.research.att.com/ [54] Overfull \hbox (2.58777pt too wide) in paragraph at lines 4231--4234 []@textrm A large se-lec-tion of Open Source soft-ware can be in-stalled from [ ][]@texttt http://www.opencsw.org[][][] [55] Overfull \hbox (14.94176pt too wide) in paragraph at lines 4277--4277 []@texttt PKG_CONFIG_PATH=/opt/csw/lib/sparcv9/pkgconfig:/usr/lib/sparcv9/pkgc onfig[] Underfull \hbox (badness 3000) in paragraph at lines 4327--4330 []@textrm You can tar-get spe-cific Sparc ar-chi-tec-tures for (slightly) highe r per-for-mance: [56] [57] [58] Underfull \hbox (badness 10000) in paragraph at lines 4531--4557 @textrm Ap-pli-ca-tions'' ([][]@texttt http://www-03.ibm.com/systems/power/soft ware/aix/linux/[][][]@textrm ) [59] [60] Underfull \hbox (badness 2486) in paragraph at lines 4701--4710 []@textrm It seems that @texttt gcc[] @textrm 3.4.x and later on `@texttt ix86[ ]@textrm '[] Linux de-feat at-tempts by the Appendix D [61] [62] Underfull \hbox (badness 2119) in paragraph at lines 4899--4902 []@textrm You may need to set the en-vi-ron-ment vari-able @texttt CYGWIN[] @te xtrm to a value in-clud-ing [63] (Function and variable index) [64] (./R-admin.vrs) (Concept index) [65] (./R-admin.cps) (Environment variable index) [66] (./R-admin.ens) [67] ) (see the transcript file for additional information) Output written on R-admin.pdf (72 pages, 445236 bytes). Transcript written on R-admin.log. TEXINPUTS=".:$TEXINPUTS" LC_COLLATE=C /usr/bin/texi2dvi --texinfo="@set UseExternalXrefs " --pdf R-data.texi This is pdfTeX, Version 3.1415926-2.4-1.40.13 (TeX Live 2012/Debian) restricted \write18 enabled. entering extended mode (/«PKGBUILDDIR»/doc/manual/R-data.t2d/pdf/xtr/R-data.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2008-04-18.10]: pdf, fonts, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (./epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) (./R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (./version.texi) [1{/var/lib/texmf/fonts/map/pdftex/updmap/pdftex.map}] [2] [-1] (Acknowledgements) Overfull \hbox (8.53186pt too wide) in paragraph at lines 96--96 [][]@textbf dataframes2xls[][]| Overfull \hbox (2.70708pt too wide) in paragraph at lines 107--107 [][]@textbf RPostgreSQL[][]| Overfull \hbox (2.49414pt too wide) in paragraph at lines 114--114 [][]@textbf xlsReadWrite[][]| Chapter 1 [1] Cross reference values unknown; you must run TeX again. Underfull \hbox (badness 3128) in paragraph at lines 198--200 [][][]@smallrm Currently not avail-able from that repos-i-tory but as a source pack-age for down-load from [2] Underfull \hbox (badness 2343) in paragraph at lines 248--258 []@textrm `BOMs' (Byte Or-der Marks, [][]@texttt http://en.wikipedia.org/wiki/B yte_order_mark[][][]@textrm ) [3] [4] [5] Chapter 2 [6] [7] [8] [9] [10] [11] [12] Chapter 3 [13] [14] Chapter 4 [15] [16] [17] [18] Underfull \hbox (badness 3989) in paragraph at lines 1354--1358 []@textrm Package [][]@textbf RMongo[][] @textrm pro-vides an R in-ter-face to a Java client for `Mon-goDB' Underfull \hbox (badness 10000) in paragraph at lines 1354--1358 @textrm ([][]@texttt http://en.wikipedia.org/wiki/MongoDB[][][]@textrm ) data-b ases, which are queried us-ing [19] Overfull \hbox (9.3377pt too wide) in paragraph at lines 1492--1496 []@textrm On Mac OS X the Ac-tual Tech-nolo-gies ([][]@texttt http://www.actual technologies.com/product_ [20] [21] Chapter 5 [22] Underfull \hbox (badness 10000) in paragraph at lines 1752--1758 []@textrm Packages [][]@textbf hdf5[][]@textrm , [][]@textbf h5r[][]@textrm , B io-con-duc-tor's @textbf rhdf5@textrm , [][]@textbf RNetCDF[][]@textrm , [][]@t extbf ncdf[][] @textrm and [][]@textbf ncdf4[][] @textrm on Underfull \hbox (badness 10000) in paragraph at lines 1752--1758 @reducedrm CRAN @textrm pro-vide in-ter-faces to @reducedrm NASA@textrm 's HDF5 (Hi-er-ar-chi-cal Data For-mat, see Chapter 6 [23] [24] [25] [26] [27] Chapter 7 [28] Underfull \hbox (badness 2538) in paragraph at lines 2211--2218 @textrm ap-pli-ca-tions to call meth-ods, or op-er-a-tions, in server ob-jects run-ning in other Chapter 8 [29] Underfull \hbox (badness 4739) in paragraph at lines 2266--2275 []@textrm If you do not have Ex-cel, many other pro-grams are able to read such Underfull \hbox (badness 10000) in paragraph at lines 2266--2275 @textrm am-ple Gnu-meric ([][]@texttt http://www.gnome.org/projects/gnumeric/[] [][]@textrm ) and OpenOf-fice Appendix A [30] Overfull \hbox (65.74289pt too wide) in paragraph at lines 2357--2360 @textrm B. D. Rip-ley (2001) Con-nec-tions. @texttt \@textit R News@textrm , @t extbf 1/1@textrm , 16--7. @texttt \[][]http://www.r-project.org/doc/Rnews/Rnews _ (Function and variable index) [31] (Concept index) [32] [33] ) (see the transcript file for additional information) Output written on R-data.pdf (36 pages, 264806 bytes). Transcript written on R-data.log. This is pdfTeX, Version 3.1415926-2.4-1.40.13 (TeX Live 2012/Debian) restricted \write18 enabled. entering extended mode (/«PKGBUILDDIR»/doc/manual/R-data.t2d/pdf/xtr/R-data.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2008-04-18.10]: pdf, fonts, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (./epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) (./R-data.aux ) (./R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (./version.texi) [1{/var/lib/texmf/fonts/map/pdftex/updmap/pdftex.map}] [2] (./R-data.toc [-1]) [-2] (./R-data.toc) (./R-data.toc) (Acknowledgements) Overfull \hbox (8.53186pt too wide) in paragraph at lines 96--96 [][]@textbf dataframes2xls[][]| Overfull \hbox (2.70708pt too wide) in paragraph at lines 107--107 [][]@textbf RPostgreSQL[][]| Overfull \hbox (2.49414pt too wide) in paragraph at lines 114--114 [][]@textbf xlsReadWrite[][]| Chapter 1 [1] Underfull \hbox (badness 3128) in paragraph at lines 198--200 [][][]@smallrm Currently not avail-able from that repos-i-tory but as a source pack-age for down-load from [2] Underfull \hbox (badness 2343) in paragraph at lines 248--258 []@textrm `BOMs' (Byte Or-der Marks, [][]@texttt http://en.wikipedia.org/wiki/B yte_order_mark[][][]@textrm ) [3] [4] [5] Chapter 2 [6] [7] [8] [9] [10] [11] [12] Chapter 3 [13] [14] Chapter 4 [15] [16] [17] [18] Underfull \hbox (badness 3989) in paragraph at lines 1354--1358 []@textrm Package [][]@textbf RMongo[][] @textrm pro-vides an R in-ter-face to a Java client for `Mon-goDB' Underfull \hbox (badness 10000) in paragraph at lines 1354--1358 @textrm ([][]@texttt http://en.wikipedia.org/wiki/MongoDB[][][]@textrm ) data-b ases, which are queried us-ing [19] Overfull \hbox (9.3377pt too wide) in paragraph at lines 1492--1496 []@textrm On Mac OS X the Ac-tual Tech-nolo-gies ([][]@texttt http://www.actual technologies.com/product_ [20] [21] Chapter 5 [22] Underfull \hbox (badness 10000) in paragraph at lines 1752--1758 []@textrm Packages [][]@textbf hdf5[][]@textrm , [][]@textbf h5r[][]@textrm , B io-con-duc-tor's @textbf rhdf5@textrm , [][]@textbf RNetCDF[][]@textrm , [][]@t extbf ncdf[][] @textrm and [][]@textbf ncdf4[][] @textrm on Underfull \hbox (badness 10000) in paragraph at lines 1752--1758 @reducedrm CRAN @textrm pro-vide in-ter-faces to @reducedrm NASA@textrm 's HDF5 (Hi-er-ar-chi-cal Data For-mat, see Chapter 6 [23] [24] [25] [26] [27] Chapter 7 [28] Underfull \hbox (badness 2538) in paragraph at lines 2211--2218 @textrm ap-pli-ca-tions to call meth-ods, or op-er-a-tions, in server ob-jects run-ning in other Chapter 8 [29] Underfull \hbox (badness 4739) in paragraph at lines 2266--2275 []@textrm If you do not have Ex-cel, many other pro-grams are able to read such Underfull \hbox (badness 10000) in paragraph at lines 2266--2275 @textrm am-ple Gnu-meric ([][]@texttt http://www.gnome.org/projects/gnumeric/[] [][]@textrm ) and OpenOf-fice Appendix A [30] Overfull \hbox (65.74289pt too wide) in paragraph at lines 2357--2360 @textrm B. D. Rip-ley (2001) Con-nec-tions. @texttt \@textit R News@textrm , @t extbf 1/1@textrm , 16--7. @texttt \[][]http://www.r-project.org/doc/Rnews/Rnews _ (Function and variable index) [31] (./R-data.vrs [32]) (Concept index) [33] (./R-data.cps) [34] ) (see the transcript file for additional information) Output written on R-data.pdf (38 pages, 304722 bytes). Transcript written on R-data.log. This is pdfTeX, Version 3.1415926-2.4-1.40.13 (TeX Live 2012/Debian) restricted \write18 enabled. entering extended mode (/«PKGBUILDDIR»/doc/manual/R-data.t2d/pdf/xtr/R-data.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2008-04-18.10]: pdf, fonts, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (./epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) (./R-data.aux ) (./R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (./version.texi) [1{/var/lib/texmf/fonts/map/pdftex/updmap/pdftex.map}] [2] (./R-data.toc [-1]) [-2] (./R-data.toc) (./R-data.toc) (Acknowledgements) Overfull \hbox (8.53186pt too wide) in paragraph at lines 96--96 [][]@textbf dataframes2xls[][]| Overfull \hbox (2.70708pt too wide) in paragraph at lines 107--107 [][]@textbf RPostgreSQL[][]| Overfull \hbox (2.49414pt too wide) in paragraph at lines 114--114 [][]@textbf xlsReadWrite[][]| Chapter 1 [1] Underfull \hbox (badness 3128) in paragraph at lines 198--200 [][][]@smallrm Currently not avail-able from that repos-i-tory but as a source pack-age for down-load from [2] Underfull \hbox (badness 2343) in paragraph at lines 248--258 []@textrm `BOMs' (Byte Or-der Marks, [][]@texttt http://en.wikipedia.org/wiki/B yte_order_mark[][][]@textrm ) [3] [4] [5] Chapter 2 [6] [7] [8] [9] [10] [11] [12] Chapter 3 [13] [14] Chapter 4 [15] [16] [17] [18] Underfull \hbox (badness 3989) in paragraph at lines 1354--1358 []@textrm Package [][]@textbf RMongo[][] @textrm pro-vides an R in-ter-face to a Java client for `Mon-goDB' Underfull \hbox (badness 10000) in paragraph at lines 1354--1358 @textrm ([][]@texttt http://en.wikipedia.org/wiki/MongoDB[][][]@textrm ) data-b ases, which are queried us-ing [19] Overfull \hbox (9.3377pt too wide) in paragraph at lines 1492--1496 []@textrm On Mac OS X the Ac-tual Tech-nolo-gies ([][]@texttt http://www.actual technologies.com/product_ [20] [21] Chapter 5 [22] Underfull \hbox (badness 10000) in paragraph at lines 1752--1758 []@textrm Packages [][]@textbf hdf5[][]@textrm , [][]@textbf h5r[][]@textrm , B io-con-duc-tor's @textbf rhdf5@textrm , [][]@textbf RNetCDF[][]@textrm , [][]@t extbf ncdf[][] @textrm and [][]@textbf ncdf4[][] @textrm on Underfull \hbox (badness 10000) in paragraph at lines 1752--1758 @reducedrm CRAN @textrm pro-vide in-ter-faces to @reducedrm NASA@textrm 's HDF5 (Hi-er-ar-chi-cal Data For-mat, see Chapter 6 [23] [24] [25] [26] [27] Chapter 7 [28] Underfull \hbox (badness 2538) in paragraph at lines 2211--2218 @textrm ap-pli-ca-tions to call meth-ods, or op-er-a-tions, in server ob-jects run-ning in other Chapter 8 [29] Underfull \hbox (badness 4739) in paragraph at lines 2266--2275 []@textrm If you do not have Ex-cel, many other pro-grams are able to read such Underfull \hbox (badness 10000) in paragraph at lines 2266--2275 @textrm am-ple Gnu-meric ([][]@texttt http://www.gnome.org/projects/gnumeric/[] [][]@textrm ) and OpenOf-fice Appendix A [30] Overfull \hbox (65.74289pt too wide) in paragraph at lines 2357--2360 @textrm B. D. Rip-ley (2001) Con-nec-tions. @texttt \@textit R News@textrm , @t extbf 1/1@textrm , 16--7. @texttt \[][]http://www.r-project.org/doc/Rnews/Rnews _ (Function and variable index) [31] (./R-data.vrs [32]) (Concept index) [33] (./R-data.cps) [34] ) (see the transcript file for additional information) Output written on R-data.pdf (38 pages, 304714 bytes). Transcript written on R-data.log. TEXINPUTS=".:$TEXINPUTS" LC_COLLATE=C /usr/bin/texi2dvi --texinfo="@set UseExternalXrefs " --pdf R-exts.texi This is pdfTeX, Version 3.1415926-2.4-1.40.13 (TeX Live 2012/Debian) restricted \write18 enabled. entering extended mode (/«PKGBUILDDIR»/doc/manual/R-exts.t2d/pdf/xtr/R-exts.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2008-04-18.10]: pdf, fonts, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (./epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) (./R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (./version.texi) [1{/var/lib/texmf/fonts/map/pdftex/updmap/pdftex.map}] [2] [-1] (Acknowledgements) Chapter 1 [1] Cross reference values unknown; you must run TeX again. [2] [3] Underfull \hbox (badness 3049) in paragraph at lines 342--354 [][]@texttt http://www.debian.org/doc/debian-policy/ch-controlfields.html[][][] @textrm : R does not [4] Underfull \hbox (badness 3826) in paragraph at lines 383--400 []@textrm The names of ab-bre-vi-a-tions of free or open source soft-ware (FOS S, e.g., Underfull \hbox (badness 2608) in paragraph at lines 383--400 @textrm soft-ware (see [][]@texttt http://www.opensource.org/licenses/bsd-lice nse.php[][][]@textrm ) li-censes [5] [6] Underfull \hbox (badness 3118) in paragraph at lines 556--560 []@textrm Packages that need to be at-tached to suc-cess-fully load the pack-a ge us-ing [7] [8] [9] Underfull \hbox (badness 2057) in paragraph at lines 737--745 @textrm (a saved im-age of R ob-jects: please use suit-able com-pres-sion as su g-gested by [10] [11] [12] [13] [14] [15] [16] [17] [18] [19] [20] [21] Overfull \hbox (67.78206pt too wide) in paragraph at lines 1686--1686 []@smalltt SOURCES = $(wildcard data/*.cpp network/*.cpp utils/*.cpp model/*.c pp model/*/*.cpp model/*/*/*.cpp)[] Overfull \hbox (53.60722pt too wide) in paragraph at lines 1688--1688 []@smalltt OBJECTS = siena07utilities.o siena07internals.o siena07setup.o sien a07models.o $(SOURCES:.cpp=.o)[] [22] [23] Overfull \hbox (16.92342pt too wide) in paragraph at lines 1826--1826 []@smalltt dnl for 64-bit ODBC need SQL[U]LEN, and it is unclear where they ar e defined.[] [24] [25] Overfull \hbox (8.1238pt too wide) in paragraph at lines 1924--1926 [][][]@smallrm On sys-tems which use sub-architectures, architecture-specific v er-sions such as `@smalltt ~/.R/check.Renviron.i386[]@smallrm '[] [26] [27] Underfull \hbox (badness 3919) in paragraph at lines 2091--2097 @textrm de-fined$@textsy i$ @textrm [Writ-ing R doc-u-men-ta-tion files], page $@textsy h$@textrm un-de-fined$@textsy i$[][]@textrm , for in-for-ma-tion Underfull \hbox (badness 2662) in paragraph at lines 2091--2097 @textrm `@texttt tests/Examples/@textttsl pkg@texttt -Ex.Rout.save[]@textrm '[ ], the out-put of run-ning the ex-am-ples is Underfull \hbox (badness 2617) in paragraph at lines 2125--2136 @textrm re-made in a copy of the pack-age sources in the `@texttt vign_test[]@ textrm '[] sub-di-rec-tory [28] Underfull \hbox (badness 3291) in paragraph at lines 2181--2193 []@textbf Multiple sub-architectures: @textrm On sys-tems which sup-port mul-t i-ple sub- [29] [30] [31] [32] [33] [34] Underfull \hbox (badness 2951) in paragraph at lines 2649--2653 []@textrm Read through the PDF man-ual that was pro-duced by @texttt R CMD che ck[] @textrm at [35] [36] [37] [38] [39] [40] [41] [42] [43] Overfull \hbox (55.18257pt too wide) in paragraph at lines 3379--3379 []@texttt exportMethods(coef, confint, logLik, plot, profile, summary, show, u pdate, vcov)[] [44] [45] [46] [47] Overfull \hbox (14.94176pt too wide) in paragraph at lines 3695--3695 []@texttt "latin1=en_US:latin2=pl_PL:UTF-8=en_US.UTF-8:latin9=fr_FR.iso885915@ euro"[] [48] [49] Underfull \hbox (badness 2401) in paragraph at lines 3833--3838 []@textrm The pro-ce-dures make use of @texttt msgfmt[] @textrm and @texttt xge ttext[] @textrm which are part of @reducedrm GNU Underfull \hbox (badness 4403) in paragraph at lines 3833--3838 @textrm bi-na-ries at the @reducedrm GNU @textrm archive mir-rors and pack-aged with the @texttt poEdit[] @textrm pack-age [50] [51] [52] [53] Overfull \hbox (26.43913pt too wide) in paragraph at lines 4133--4133 []@texttt msgfmt -c -o share/locale/it/LC_MESSAGES/RGui.mo $R_SRC_HOME/po/RGui -it.gmo[] Chapter 2 [54] [55] [56] [57] [58] [59] [60] [61] [62] [63] [64] [65] [66] [67] Underfull \hbox (badness 10000) in paragraph at lines 5176--5183 []@textrm The two com-monly used sim-ple forms are @texttt \figure{@textttsl fi lename@texttt }[] @textrm and [68] Underfull \hbox (badness 7595) in paragraph at lines 5336--5344 []@textrm Occasionally the best con-tent for one out-put for-mat is dif-fer-ent from the Underfull \hbox (badness 7796) in paragraph at lines 5336--5344 @textrm best con-tent for an-other. For this sit-u-a-tion, the @texttt \if{@tex tttsl format@texttt }{@textttsl text@texttt }[] @textrm or [69] Underfull \hbox (badness 3503) in paragraph at lines 5353--5359 []@textrm The @texttt \out{@textttsl literal@texttt }[] @textrm macro would usu -ally be used within the @textsl text @textrm part of [70] [71] Underfull \hbox (badness 6526) in paragraph at lines 5553--5558 @textrm command, and this needs to be matched by a suit-able in-vo-ca-tion of t he Underfull \hbox (badness 4096) in paragraph at lines 5553--5558 @texttt \usepackage{inputenc}[] @textrm com-mand. The R util-ity @texttt R CMD Rd2pdf[] @textrm looks at the [72] Overfull \hbox (25.21587pt too wide) in paragraph at lines 5625--5628 []@textrm Another is the Eclipse IDE with the Stat-ET plu-gin ([][]@texttt http ://www.walware.de/goto/statet[][][]@textrm ), Chapter 3 [73] [74] [75] [76] [77] Overfull \hbox (71.38544pt too wide) in paragraph at lines 6006--6009 []@textrm Options in-clude us-ing @texttt sprof[] @textrm for a shared ob-ject, and @texttt oprofile[] @textrm (see [][]@texttt http://oprofile.sourceforge.ne t/[][][]@textrm ) [78] [79] Underfull \hbox (badness 10000) in paragraph at lines 6097--6101 @textrm and @texttt Shark[] @textrm (see [][]@texttt http://developer.apple.com /tools/sharkoptimize.html[][][] @textrm and Chapter 4 [80] [81] [82] Overfull \hbox (14.94176pt too wide) in paragraph at lines 6303--6303 []@texttt evaluation nested too deeply: infinite recursion / options(expressio ns=)?[] [83] Overfull \hbox (25.25755pt too wide) in paragraph at lines 6343--6343 []@smalltt Message: Error: no valid set of coefficients has been found: pleas e supply starting values[] [84] Overfull \hbox (20.53261pt too wide) in paragraph at lines 6447--6447 []@smalltt debugging in: glm.fit(x = X, y = Y, weights = weights, start = star t, etastart = etastart,[] Overfull \hbox (38.96663pt too wide) in paragraph at lines 6477--6486 []@texttt debug[] @textrm can be used for hid-den func-tions and S3 meth-ods by e.g. @texttt debug(stats:::predict.Arima)[]@textrm . [85] [86] Underfull \hbox (badness 3601) in paragraph at lines 6601--6607 @textrm plat-form, or Mac OS 10.5/6/7 on `@texttt i386[]@textrm '[] or `@texttt x86_64[]@textrm '[] you can use @texttt valgrind[] [87] [88] Overfull \hbox (14.94176pt too wide) in paragraph at lines 6726--6726 [] @texttt 2: possibleExtends(class(sloti), classi, ClassDef2 = getClassDef(cl assi,[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 6729--6729 [] @texttt 4: stopifnot(validObject(cu <- as(tu, "dtCMatrix")), validObject(t( cu)),[] [89] Overfull \hbox (26.43913pt too wide) in paragraph at lines 6796--6796 []@texttt #5 0xb7d6c0a5 in do_random2 (call=0x94bf7d4, op=0x92580e8, args=0x9 698f98,[] [90] [91] Chapter 5 [92] [93] [94] [95] [96] [97] [98] [99] [100] [101] [102] Overfull \hbox (135.6642pt too wide) in paragraph at lines 7816--7816 []@texttt PKGB_PATH=`echo 'cat(system.file("libs", .Platform$r_arch, package=" packB", mustWork=TRUE))' \[] Overfull \hbox (135.6642pt too wide) in paragraph at lines 7829--7829 []@texttt PKGB_PATH=`echo 'cat(system.file("libs", .Platform$r_arch, package=" packB", mustWork=TRUE))' \[] [103] Overfull \hbox (37.93651pt too wide) in paragraph at lines 7850--7850 []@texttt PKGB_PATH=`echo 'library(packB); cat(system.file("libs", package="pa ckB"))' \[] Overfull \hbox (59.61772pt too wide) in paragraph at lines 7899--7899 []@texttt PKGB_PATH=`echo 'library(packB); cat(system.file("libs", package="pa ckB"))' \[] [104] [105] [106] [107] [108] [109] [110] [111] [112] [113] Overfull \hbox (14.94176pt too wide) in paragraph at lines 8643--8643 [] @texttt if(ign == NA_LOGICAL) error("'ignore_quotes' must be TRUE or FAL SE");[] [114] Underfull \hbox (badness 10000) in paragraph at lines 8704--8706 []@textrm Functions @texttt any_duplicated[] @textrm and @texttt any_duplicated 3[] @textrm are fast ver-sions of R's [115] [116] [117] [118] [119] [120] [121] [122] Overfull \hbox (14.94176pt too wide) in paragraph at lines 9362--9362 [] @texttt PROTECT(gradient = allocMatrix(REALSXP, LENGTH(ans), LENGTH(thet a)));[] [123] Overfull \hbox (14.94176pt too wide) in paragraph at lines 9367--9367 [] @texttt for(i = 0, start = 0; i < LENGTH(theta); i++, start += LENGTH(an s)) {[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 9368--9368 [] @texttt PROTECT(par = findVar(install(CHAR(STRING_ELT(theta, i))), r ho));[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 9422--9422 [] @texttt PROTECT(gradient = allocMatrix(REALSXP, LENGTH(ans), LENGTH(thet a)));[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 9432--9432 [] @texttt for(i = 0, start = 0; i < LENGTH(theta); i++, start += LENGTH(an s)) {[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 9433--9433 [] @texttt PROTECT(par = findVar(install(CHAR(STRING_ELT(theta, i))), r ho));[] [124] Overfull \hbox (26.43913pt too wide) in paragraph at lines 9531--9531 [] @texttt cmdexpr = PROTECT(R_ParseVector(cmdSexp, -1, &status, R_NilV alue));[] [125] [126] Overfull \hbox (14.94176pt too wide) in paragraph at lines 9655--9655 []@texttt void R_RegisterCFinalizerEx(SEXP s, R_CFinalizer_t fun, Rboolean one xit);[] [127] Overfull \hbox (43.6852pt too wide) in paragraph at lines 9732--9732 [] @texttt ptr = R_MakeExternalPtr(thisHandle, install("RODBC_channel"), R_ NilValue);[] [128] Overfull \hbox (14.94176pt too wide) in paragraph at lines 9814--9814 []@texttt typedef enum {CE_NATIVE, CE_UTF8, CE_LATIN1, CE_SYMBOL, CE_ANY} cety pe_t;[] [129] Chapter 6 [130] [131] [132] [133] [134] [135] [136] [137] [138] [139] [140] [141] [142] [143] [144] [145] [146] Underfull \hbox (badness 6332) in paragraph at lines 11252--11255 []@textrm The header files which R in-stalls are in di-rec-tory `@textttsl R_IN CLUDE_DIR[]@textrm '[] (de-fault [147] Underfull \hbox (badness 10000) in paragraph at lines 11308--11310 @textrm definitions for ex-ports from `@texttt R.dll[]@textrm '[] on Underfull \hbox (badness 10000) in paragraph at lines 11313--11318 []@textrm The graph-ics sys-tems are ex-posed in head-ers `@texttt R_ext/Graphi csEngine.h[]@textrm '[], Chapter 7 [148] [149] Chapter 8 [150] Underfull \hbox (badness 2213) in paragraph at lines 11555--11560 []@textrm Setting @texttt LD_LIBRARY_PATH[] @textrm to in-clude the di-rec-to- ries used in link-ing R. This [151] [152] Overfull \hbox (20.69044pt too wide) in paragraph at lines 11695--11695 []@texttt extern int (*ptr_R_ReadConsole)(const char *, unsigned char *, int, int);[] [153] [154] [155] Underfull \hbox (badness 2547) in paragraph at lines 11931--11938 @texttt modules/internet/nanoftp.c[]@textrm '[], `@texttt src/modules/internet /nanohttp.c[]@textrm '[] and `@texttt src/ [156] [157] Underfull \hbox (badness 10000) in paragraph at lines 12044--12053 []@textrm There is a (D)COM server called @texttt StatConnector[] @textrm writ -ten by Thomas Underfull \hbox (badness 10000) in paragraph at lines 12044--12053 @textrm Baier avail-able via [][]@texttt http://cran.r-project.org/other-softw are.html[][][] @textrm or Underfull \hbox (badness 2343) in paragraph at lines 12044--12053 [][]@texttt http://sunsite.univie.ac.at/rcom/[][][]@textrm , which works with pack-age [][]@textbf rscproxy[][] @textrm to Underfull \hbox (badness 5091) in paragraph at lines 12054--12059 @textrm Its phi-los-o-phy is dis-cussed in [][]@texttt http://www.omegahat.org /RDCOMServer/Docs/ [158] [159] Underfull \hbox (badness 2671) in paragraph at lines 12190--12197 @textrm may be avail-able from the Win-dows Reg-istry: it will be in @texttt H KEY_LOCAL_ Underfull \hbox (badness 4084) in paragraph at lines 12190--12197 @texttt MACHINE\Software\R-core\R\InstallPath[] @textrm from an ad-min-is-tra- tive in-stall and [160] [161] (Function and variable index) [162] (Concept index) [163] [164] ) (see the transcript file for additional information) Output written on R-exts.pdf (167 pages, 754102 bytes). Transcript written on R-exts.log. This is pdfTeX, Version 3.1415926-2.4-1.40.13 (TeX Live 2012/Debian) restricted \write18 enabled. entering extended mode (/«PKGBUILDDIR»/doc/manual/R-exts.t2d/pdf/xtr/R-exts.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2008-04-18.10]: pdf, fonts, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (./epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) (./R-exts.aux ) (./R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (./version.texi) [1{/var/lib/texmf/fonts/map/pdftex/updmap/pdftex.map}] [2] (./R-exts.toc [-1] [-2] [-3]) [-4] (./R-exts.toc) (./R-exts.toc) (Acknowledgements) Chapter 1 [1] [2] [3] Underfull \hbox (badness 3049) in paragraph at lines 342--354 [][]@texttt http://www.debian.org/doc/debian-policy/ch-controlfields.html[][][] @textrm : R does not [4] Underfull \hbox (badness 3826) in paragraph at lines 383--400 []@textrm The names of ab-bre-vi-a-tions of free or open source soft-ware (FOS S, e.g., Underfull \hbox (badness 2608) in paragraph at lines 383--400 @textrm soft-ware (see [][]@texttt http://www.opensource.org/licenses/bsd-lice nse.php[][][]@textrm ) li-censes [5] [6] Underfull \hbox (badness 3118) in paragraph at lines 556--560 []@textrm Packages that need to be at-tached to suc-cess-fully load the pack-a ge us-ing [7] [8] [9] Underfull \hbox (badness 2057) in paragraph at lines 737--745 @textrm (a saved im-age of R ob-jects: please use suit-able com-pres-sion as su g-gested by [10] [11] [12] [13] [14] [15] [16] [17] [18] [19] [20] [21] Overfull \hbox (67.78206pt too wide) in paragraph at lines 1686--1686 []@smalltt SOURCES = $(wildcard data/*.cpp network/*.cpp utils/*.cpp model/*.c pp model/*/*.cpp model/*/*/*.cpp)[] Overfull \hbox (53.60722pt too wide) in paragraph at lines 1688--1688 []@smalltt OBJECTS = siena07utilities.o siena07internals.o siena07setup.o sien a07models.o $(SOURCES:.cpp=.o)[] [22] [23] Overfull \hbox (16.92342pt too wide) in paragraph at lines 1826--1826 []@smalltt dnl for 64-bit ODBC need SQL[U]LEN, and it is unclear where they ar e defined.[] [24] [25] Overfull \hbox (8.1238pt too wide) in paragraph at lines 1924--1926 [][][]@smallrm On sys-tems which use sub-architectures, architecture-specific v er-sions such as `@smalltt ~/.R/check.Renviron.i386[]@smallrm '[] [26] [27] Underfull \hbox (badness 2617) in paragraph at lines 2125--2136 @textrm re-made in a copy of the pack-age sources in the `@texttt vign_test[]@ textrm '[] sub-di-rec-tory [28] Underfull \hbox (badness 3291) in paragraph at lines 2181--2193 []@textbf Multiple sub-architectures: @textrm On sys-tems which sup-port mul-t i-ple sub- [29] [30] [31] [32] [33] [34] Underfull \hbox (badness 2951) in paragraph at lines 2649--2653 []@textrm Read through the PDF man-ual that was pro-duced by @texttt R CMD che ck[] @textrm at [35] [36] [37] [38] [39] [40] [41] [42] [43] Overfull \hbox (55.18257pt too wide) in paragraph at lines 3379--3379 []@texttt exportMethods(coef, confint, logLik, plot, profile, summary, show, u pdate, vcov)[] [44] [45] [46] [47] Overfull \hbox (14.94176pt too wide) in paragraph at lines 3695--3695 []@texttt "latin1=en_US:latin2=pl_PL:UTF-8=en_US.UTF-8:latin9=fr_FR.iso885915@ euro"[] [48] [49] Underfull \hbox (badness 2401) in paragraph at lines 3833--3838 []@textrm The pro-ce-dures make use of @texttt msgfmt[] @textrm and @texttt xge ttext[] @textrm which are part of @reducedrm GNU Underfull \hbox (badness 4403) in paragraph at lines 3833--3838 @textrm bi-na-ries at the @reducedrm GNU @textrm archive mir-rors and pack-aged with the @texttt poEdit[] @textrm pack-age [50] [51] [52] Overfull \hbox (26.43913pt too wide) in paragraph at lines 4133--4133 []@texttt msgfmt -c -o share/locale/it/LC_MESSAGES/RGui.mo $R_SRC_HOME/po/RGui -it.gmo[] [53] Chapter 2 [54] [55] [56] [57] [58] [59] [60] [61] [62] [63] [64] [65] [66] [67] Underfull \hbox (badness 10000) in paragraph at lines 5176--5183 []@textrm The two com-monly used sim-ple forms are @texttt \figure{@textttsl fi lename@texttt }[] @textrm and [68] Underfull \hbox (badness 7595) in paragraph at lines 5336--5344 []@textrm Occasionally the best con-tent for one out-put for-mat is dif-fer-ent from the Underfull \hbox (badness 7796) in paragraph at lines 5336--5344 @textrm best con-tent for an-other. For this sit-u-a-tion, the @texttt \if{@tex tttsl format@texttt }{@textttsl text@texttt }[] @textrm or [69] Underfull \hbox (badness 3503) in paragraph at lines 5353--5359 []@textrm The @texttt \out{@textttsl literal@texttt }[] @textrm macro would usu -ally be used within the @textsl text @textrm part of [70] [71] Underfull \hbox (badness 6526) in paragraph at lines 5553--5558 @textrm command, and this needs to be matched by a suit-able in-vo-ca-tion of t he Underfull \hbox (badness 4096) in paragraph at lines 5553--5558 @texttt \usepackage{inputenc}[] @textrm com-mand. The R util-ity @texttt R CMD Rd2pdf[] @textrm looks at the [72] Overfull \hbox (25.21587pt too wide) in paragraph at lines 5625--5628 []@textrm Another is the Eclipse IDE with the Stat-ET plu-gin ([][]@texttt http ://www.walware.de/goto/statet[][][]@textrm ), Chapter 3 [73] [74] [75] [76] [77] Overfull \hbox (71.38544pt too wide) in paragraph at lines 6006--6009 []@textrm Options in-clude us-ing @texttt sprof[] @textrm for a shared ob-ject, and @texttt oprofile[] @textrm (see [][]@texttt http://oprofile.sourceforge.ne t/[][][]@textrm ) [78] [79] Underfull \hbox (badness 10000) in paragraph at lines 6097--6101 @textrm and @texttt Shark[] @textrm (see [][]@texttt http://developer.apple.com /tools/sharkoptimize.html[][][] @textrm and Chapter 4 [80] [81] [82] Overfull \hbox (14.94176pt too wide) in paragraph at lines 6303--6303 []@texttt evaluation nested too deeply: infinite recursion / options(expressio ns=)?[] [83] Overfull \hbox (25.25755pt too wide) in paragraph at lines 6343--6343 []@smalltt Message: Error: no valid set of coefficients has been found: pleas e supply starting values[] [84] Overfull \hbox (20.53261pt too wide) in paragraph at lines 6447--6447 []@smalltt debugging in: glm.fit(x = X, y = Y, weights = weights, start = star t, etastart = etastart,[] Overfull \hbox (38.96663pt too wide) in paragraph at lines 6477--6486 []@texttt debug[] @textrm can be used for hid-den func-tions and S3 meth-ods by e.g. @texttt debug(stats:::predict.Arima)[]@textrm . [85] [86] Underfull \hbox (badness 3601) in paragraph at lines 6601--6607 @textrm plat-form, or Mac OS 10.5/6/7 on `@texttt i386[]@textrm '[] or `@texttt x86_64[]@textrm '[] you can use @texttt valgrind[] [87] [88] Overfull \hbox (14.94176pt too wide) in paragraph at lines 6726--6726 [] @texttt 2: possibleExtends(class(sloti), classi, ClassDef2 = getClassDef(cl assi,[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 6729--6729 [] @texttt 4: stopifnot(validObject(cu <- as(tu, "dtCMatrix")), validObject(t( cu)),[] [89] Overfull \hbox (26.43913pt too wide) in paragraph at lines 6796--6796 []@texttt #5 0xb7d6c0a5 in do_random2 (call=0x94bf7d4, op=0x92580e8, args=0x9 698f98,[] [90] [91] Chapter 5 [92] [93] [94] [95] [96] [97] [98] [99] [100] [101] [102] Overfull \hbox (135.6642pt too wide) in paragraph at lines 7816--7816 []@texttt PKGB_PATH=`echo 'cat(system.file("libs", .Platform$r_arch, package=" packB", mustWork=TRUE))' \[] Overfull \hbox (135.6642pt too wide) in paragraph at lines 7829--7829 []@texttt PKGB_PATH=`echo 'cat(system.file("libs", .Platform$r_arch, package=" packB", mustWork=TRUE))' \[] [103] Overfull \hbox (37.93651pt too wide) in paragraph at lines 7850--7850 []@texttt PKGB_PATH=`echo 'library(packB); cat(system.file("libs", package="pa ckB"))' \[] Overfull \hbox (59.61772pt too wide) in paragraph at lines 7899--7899 []@texttt PKGB_PATH=`echo 'library(packB); cat(system.file("libs", package="pa ckB"))' \[] [104] [105] [106] [107] [108] [109] [110] [111] [112] [113] Overfull \hbox (14.94176pt too wide) in paragraph at lines 8643--8643 [] @texttt if(ign == NA_LOGICAL) error("'ignore_quotes' must be TRUE or FAL SE");[] [114] Underfull \hbox (badness 10000) in paragraph at lines 8704--8706 []@textrm Functions @texttt any_duplicated[] @textrm and @texttt any_duplicated 3[] @textrm are fast ver-sions of R's [115] [116] [117] [118] [119] [120] [121] [122] Overfull \hbox (14.94176pt too wide) in paragraph at lines 9362--9362 [] @texttt PROTECT(gradient = allocMatrix(REALSXP, LENGTH(ans), LENGTH(thet a)));[] [123] Overfull \hbox (14.94176pt too wide) in paragraph at lines 9367--9367 [] @texttt for(i = 0, start = 0; i < LENGTH(theta); i++, start += LENGTH(an s)) {[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 9368--9368 [] @texttt PROTECT(par = findVar(install(CHAR(STRING_ELT(theta, i))), r ho));[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 9422--9422 [] @texttt PROTECT(gradient = allocMatrix(REALSXP, LENGTH(ans), LENGTH(thet a)));[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 9432--9432 [] @texttt for(i = 0, start = 0; i < LENGTH(theta); i++, start += LENGTH(an s)) {[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 9433--9433 [] @texttt PROTECT(par = findVar(install(CHAR(STRING_ELT(theta, i))), r ho));[] [124] Overfull \hbox (26.43913pt too wide) in paragraph at lines 9531--9531 [] @texttt cmdexpr = PROTECT(R_ParseVector(cmdSexp, -1, &status, R_NilV alue));[] [125] [126] Overfull \hbox (14.94176pt too wide) in paragraph at lines 9655--9655 []@texttt void R_RegisterCFinalizerEx(SEXP s, R_CFinalizer_t fun, Rboolean one xit);[] [127] Overfull \hbox (43.6852pt too wide) in paragraph at lines 9732--9732 [] @texttt ptr = R_MakeExternalPtr(thisHandle, install("RODBC_channel"), R_ NilValue);[] [128] Overfull \hbox (14.94176pt too wide) in paragraph at lines 9814--9814 []@texttt typedef enum {CE_NATIVE, CE_UTF8, CE_LATIN1, CE_SYMBOL, CE_ANY} cety pe_t;[] [129] Chapter 6 [130] [131] [132] [133] [134] [135] [136] [137] [138] [139] [140] [141] [142] [143] [144] [145] [146] Underfull \hbox (badness 6332) in paragraph at lines 11252--11255 []@textrm The header files which R in-stalls are in di-rec-tory `@textttsl R_IN CLUDE_DIR[]@textrm '[] (de-fault [147] Underfull \hbox (badness 10000) in paragraph at lines 11308--11310 @textrm definitions for ex-ports from `@texttt R.dll[]@textrm '[] on Underfull \hbox (badness 10000) in paragraph at lines 11313--11318 []@textrm The graph-ics sys-tems are ex-posed in head-ers `@texttt R_ext/Graphi csEngine.h[]@textrm '[], Chapter 7 [148] [149] Chapter 8 [150] Underfull \hbox (badness 2213) in paragraph at lines 11555--11560 []@textrm Setting @texttt LD_LIBRARY_PATH[] @textrm to in-clude the di-rec-to- ries used in link-ing R. This [151] [152] Overfull \hbox (20.69044pt too wide) in paragraph at lines 11695--11695 []@texttt extern int (*ptr_R_ReadConsole)(const char *, unsigned char *, int, int);[] [153] [154] [155] Underfull \hbox (badness 2547) in paragraph at lines 11931--11938 @texttt modules/internet/nanoftp.c[]@textrm '[], `@texttt src/modules/internet /nanohttp.c[]@textrm '[] and `@texttt src/ [156] [157] Underfull \hbox (badness 10000) in paragraph at lines 12044--12053 []@textrm There is a (D)COM server called @texttt StatConnector[] @textrm writ -ten by Thomas Underfull \hbox (badness 10000) in paragraph at lines 12044--12053 @textrm Baier avail-able via [][]@texttt http://cran.r-project.org/other-softw are.html[][][] @textrm or Underfull \hbox (badness 2343) in paragraph at lines 12044--12053 [][]@texttt http://sunsite.univie.ac.at/rcom/[][][]@textrm , which works with pack-age [][]@textbf rscproxy[][] @textrm to Underfull \hbox (badness 5091) in paragraph at lines 12054--12059 @textrm Its phi-los-o-phy is dis-cussed in [][]@texttt http://www.omegahat.org /RDCOMServer/Docs/ [158] [159] Underfull \hbox (badness 2671) in paragraph at lines 12190--12197 @textrm may be avail-able from the Win-dows Reg-istry: it will be in @texttt H KEY_LOCAL_ Underfull \hbox (badness 4084) in paragraph at lines 12190--12197 @texttt MACHINE\Software\R-core\R\InstallPath[] @textrm from an ad-min-is-tra- tive in-stall and [160] [161] (Function and variable index) [162] (./R-exts.vrs [163] [164]) (Concept index) [165] (./R-exts.cps [166]) [167] ) (see the transcript file for additional information) Output written on R-exts.pdf (173 pages, 813461 bytes). Transcript written on R-exts.log. This is pdfTeX, Version 3.1415926-2.4-1.40.13 (TeX Live 2012/Debian) restricted \write18 enabled. entering extended mode (/«PKGBUILDDIR»/doc/manual/R-exts.t2d/pdf/xtr/R-exts.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2008-04-18.10]: pdf, fonts, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (./epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) (./R-exts.aux ) (./R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (./version.texi) [1{/var/lib/texmf/fonts/map/pdftex/updmap/pdftex.map}] [2] (./R-exts.toc [-1] [-2] [-3]) [-4] (./R-exts.toc) (./R-exts.toc) (Acknowledgements) Chapter 1 [1] [2] [3] Underfull \hbox (badness 3049) in paragraph at lines 342--354 [][]@texttt http://www.debian.org/doc/debian-policy/ch-controlfields.html[][][] @textrm : R does not [4] Underfull \hbox (badness 3826) in paragraph at lines 383--400 []@textrm The names of ab-bre-vi-a-tions of free or open source soft-ware (FOS S, e.g., Underfull \hbox (badness 2608) in paragraph at lines 383--400 @textrm soft-ware (see [][]@texttt http://www.opensource.org/licenses/bsd-lice nse.php[][][]@textrm ) li-censes [5] [6] Underfull \hbox (badness 3118) in paragraph at lines 556--560 []@textrm Packages that need to be at-tached to suc-cess-fully load the pack-a ge us-ing [7] [8] [9] Underfull \hbox (badness 2057) in paragraph at lines 737--745 @textrm (a saved im-age of R ob-jects: please use suit-able com-pres-sion as su g-gested by [10] [11] [12] [13] [14] [15] [16] [17] [18] [19] [20] [21] Overfull \hbox (67.78206pt too wide) in paragraph at lines 1686--1686 []@smalltt SOURCES = $(wildcard data/*.cpp network/*.cpp utils/*.cpp model/*.c pp model/*/*.cpp model/*/*/*.cpp)[] Overfull \hbox (53.60722pt too wide) in paragraph at lines 1688--1688 []@smalltt OBJECTS = siena07utilities.o siena07internals.o siena07setup.o sien a07models.o $(SOURCES:.cpp=.o)[] [22] [23] Overfull \hbox (16.92342pt too wide) in paragraph at lines 1826--1826 []@smalltt dnl for 64-bit ODBC need SQL[U]LEN, and it is unclear where they ar e defined.[] [24] [25] Overfull \hbox (8.1238pt too wide) in paragraph at lines 1924--1926 [][][]@smallrm On sys-tems which use sub-architectures, architecture-specific v er-sions such as `@smalltt ~/.R/check.Renviron.i386[]@smallrm '[] [26] [27] Underfull \hbox (badness 2617) in paragraph at lines 2125--2136 @textrm re-made in a copy of the pack-age sources in the `@texttt vign_test[]@ textrm '[] sub-di-rec-tory [28] Underfull \hbox (badness 3291) in paragraph at lines 2181--2193 []@textbf Multiple sub-architectures: @textrm On sys-tems which sup-port mul-t i-ple sub- [29] [30] [31] [32] [33] [34] Underfull \hbox (badness 2951) in paragraph at lines 2649--2653 []@textrm Read through the PDF man-ual that was pro-duced by @texttt R CMD che ck[] @textrm at [35] [36] [37] [38] [39] [40] [41] [42] [43] Overfull \hbox (55.18257pt too wide) in paragraph at lines 3379--3379 []@texttt exportMethods(coef, confint, logLik, plot, profile, summary, show, u pdate, vcov)[] [44] [45] [46] [47] Overfull \hbox (14.94176pt too wide) in paragraph at lines 3695--3695 []@texttt "latin1=en_US:latin2=pl_PL:UTF-8=en_US.UTF-8:latin9=fr_FR.iso885915@ euro"[] [48] [49] Underfull \hbox (badness 2401) in paragraph at lines 3833--3838 []@textrm The pro-ce-dures make use of @texttt msgfmt[] @textrm and @texttt xge ttext[] @textrm which are part of @reducedrm GNU Underfull \hbox (badness 4403) in paragraph at lines 3833--3838 @textrm bi-na-ries at the @reducedrm GNU @textrm archive mir-rors and pack-aged with the @texttt poEdit[] @textrm pack-age [50] [51] [52] Overfull \hbox (26.43913pt too wide) in paragraph at lines 4133--4133 []@texttt msgfmt -c -o share/locale/it/LC_MESSAGES/RGui.mo $R_SRC_HOME/po/RGui -it.gmo[] [53] Chapter 2 [54] [55] [56] [57] [58] [59] [60] [61] [62] [63] [64] [65] [66] [67] Underfull \hbox (badness 10000) in paragraph at lines 5176--5183 []@textrm The two com-monly used sim-ple forms are @texttt \figure{@textttsl fi lename@texttt }[] @textrm and [68] Underfull \hbox (badness 7595) in paragraph at lines 5336--5344 []@textrm Occasionally the best con-tent for one out-put for-mat is dif-fer-ent from the Underfull \hbox (badness 7796) in paragraph at lines 5336--5344 @textrm best con-tent for an-other. For this sit-u-a-tion, the @texttt \if{@tex tttsl format@texttt }{@textttsl text@texttt }[] @textrm or [69] Underfull \hbox (badness 3503) in paragraph at lines 5353--5359 []@textrm The @texttt \out{@textttsl literal@texttt }[] @textrm macro would usu -ally be used within the @textsl text @textrm part of [70] [71] Underfull \hbox (badness 6526) in paragraph at lines 5553--5558 @textrm command, and this needs to be matched by a suit-able in-vo-ca-tion of t he Underfull \hbox (badness 4096) in paragraph at lines 5553--5558 @texttt \usepackage{inputenc}[] @textrm com-mand. The R util-ity @texttt R CMD Rd2pdf[] @textrm looks at the [72] Overfull \hbox (25.21587pt too wide) in paragraph at lines 5625--5628 []@textrm Another is the Eclipse IDE with the Stat-ET plu-gin ([][]@texttt http ://www.walware.de/goto/statet[][][]@textrm ), Chapter 3 [73] [74] [75] [76] [77] Overfull \hbox (71.38544pt too wide) in paragraph at lines 6006--6009 []@textrm Options in-clude us-ing @texttt sprof[] @textrm for a shared ob-ject, and @texttt oprofile[] @textrm (see [][]@texttt http://oprofile.sourceforge.ne t/[][][]@textrm ) [78] [79] Underfull \hbox (badness 10000) in paragraph at lines 6097--6101 @textrm and @texttt Shark[] @textrm (see [][]@texttt http://developer.apple.com /tools/sharkoptimize.html[][][] @textrm and Chapter 4 [80] [81] [82] Overfull \hbox (14.94176pt too wide) in paragraph at lines 6303--6303 []@texttt evaluation nested too deeply: infinite recursion / options(expressio ns=)?[] [83] Overfull \hbox (25.25755pt too wide) in paragraph at lines 6343--6343 []@smalltt Message: Error: no valid set of coefficients has been found: pleas e supply starting values[] [84] Overfull \hbox (20.53261pt too wide) in paragraph at lines 6447--6447 []@smalltt debugging in: glm.fit(x = X, y = Y, weights = weights, start = star t, etastart = etastart,[] Overfull \hbox (38.96663pt too wide) in paragraph at lines 6477--6486 []@texttt debug[] @textrm can be used for hid-den func-tions and S3 meth-ods by e.g. @texttt debug(stats:::predict.Arima)[]@textrm . [85] [86] Underfull \hbox (badness 3601) in paragraph at lines 6601--6607 @textrm plat-form, or Mac OS 10.5/6/7 on `@texttt i386[]@textrm '[] or `@texttt x86_64[]@textrm '[] you can use @texttt valgrind[] [87] [88] Overfull \hbox (14.94176pt too wide) in paragraph at lines 6726--6726 [] @texttt 2: possibleExtends(class(sloti), classi, ClassDef2 = getClassDef(cl assi,[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 6729--6729 [] @texttt 4: stopifnot(validObject(cu <- as(tu, "dtCMatrix")), validObject(t( cu)),[] [89] Overfull \hbox (26.43913pt too wide) in paragraph at lines 6796--6796 []@texttt #5 0xb7d6c0a5 in do_random2 (call=0x94bf7d4, op=0x92580e8, args=0x9 698f98,[] [90] [91] Chapter 5 [92] [93] [94] [95] [96] [97] [98] [99] [100] [101] [102] Overfull \hbox (135.6642pt too wide) in paragraph at lines 7816--7816 []@texttt PKGB_PATH=`echo 'cat(system.file("libs", .Platform$r_arch, package=" packB", mustWork=TRUE))' \[] Overfull \hbox (135.6642pt too wide) in paragraph at lines 7829--7829 []@texttt PKGB_PATH=`echo 'cat(system.file("libs", .Platform$r_arch, package=" packB", mustWork=TRUE))' \[] [103] Overfull \hbox (37.93651pt too wide) in paragraph at lines 7850--7850 []@texttt PKGB_PATH=`echo 'library(packB); cat(system.file("libs", package="pa ckB"))' \[] Overfull \hbox (59.61772pt too wide) in paragraph at lines 7899--7899 []@texttt PKGB_PATH=`echo 'library(packB); cat(system.file("libs", package="pa ckB"))' \[] [104] [105] [106] [107] [108] [109] [110] [111] [112] [113] Overfull \hbox (14.94176pt too wide) in paragraph at lines 8643--8643 [] @texttt if(ign == NA_LOGICAL) error("'ignore_quotes' must be TRUE or FAL SE");[] [114] Underfull \hbox (badness 10000) in paragraph at lines 8704--8706 []@textrm Functions @texttt any_duplicated[] @textrm and @texttt any_duplicated 3[] @textrm are fast ver-sions of R's [115] [116] [117] [118] [119] [120] [121] [122] Overfull \hbox (14.94176pt too wide) in paragraph at lines 9362--9362 [] @texttt PROTECT(gradient = allocMatrix(REALSXP, LENGTH(ans), LENGTH(thet a)));[] [123] Overfull \hbox (14.94176pt too wide) in paragraph at lines 9367--9367 [] @texttt for(i = 0, start = 0; i < LENGTH(theta); i++, start += LENGTH(an s)) {[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 9368--9368 [] @texttt PROTECT(par = findVar(install(CHAR(STRING_ELT(theta, i))), r ho));[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 9422--9422 [] @texttt PROTECT(gradient = allocMatrix(REALSXP, LENGTH(ans), LENGTH(thet a)));[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 9432--9432 [] @texttt for(i = 0, start = 0; i < LENGTH(theta); i++, start += LENGTH(an s)) {[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 9433--9433 [] @texttt PROTECT(par = findVar(install(CHAR(STRING_ELT(theta, i))), r ho));[] [124] Overfull \hbox (26.43913pt too wide) in paragraph at lines 9531--9531 [] @texttt cmdexpr = PROTECT(R_ParseVector(cmdSexp, -1, &status, R_NilV alue));[] [125] [126] Overfull \hbox (14.94176pt too wide) in paragraph at lines 9655--9655 []@texttt void R_RegisterCFinalizerEx(SEXP s, R_CFinalizer_t fun, Rboolean one xit);[] [127] Overfull \hbox (43.6852pt too wide) in paragraph at lines 9732--9732 [] @texttt ptr = R_MakeExternalPtr(thisHandle, install("RODBC_channel"), R_ NilValue);[] [128] Overfull \hbox (14.94176pt too wide) in paragraph at lines 9814--9814 []@texttt typedef enum {CE_NATIVE, CE_UTF8, CE_LATIN1, CE_SYMBOL, CE_ANY} cety pe_t;[] [129] Chapter 6 [130] [131] [132] [133] [134] [135] [136] [137] [138] [139] [140] [141] [142] [143] [144] [145] [146] Underfull \hbox (badness 6332) in paragraph at lines 11252--11255 []@textrm The header files which R in-stalls are in di-rec-tory `@textttsl R_IN CLUDE_DIR[]@textrm '[] (de-fault [147] Underfull \hbox (badness 10000) in paragraph at lines 11308--11310 @textrm definitions for ex-ports from `@texttt R.dll[]@textrm '[] on Underfull \hbox (badness 10000) in paragraph at lines 11313--11318 []@textrm The graph-ics sys-tems are ex-posed in head-ers `@texttt R_ext/Graphi csEngine.h[]@textrm '[], Chapter 7 [148] [149] Chapter 8 [150] Underfull \hbox (badness 2213) in paragraph at lines 11555--11560 []@textrm Setting @texttt LD_LIBRARY_PATH[] @textrm to in-clude the di-rec-to- ries used in link-ing R. This [151] [152] Overfull \hbox (20.69044pt too wide) in paragraph at lines 11695--11695 []@texttt extern int (*ptr_R_ReadConsole)(const char *, unsigned char *, int, int);[] [153] [154] [155] Underfull \hbox (badness 2547) in paragraph at lines 11931--11938 @texttt modules/internet/nanoftp.c[]@textrm '[], `@texttt src/modules/internet /nanohttp.c[]@textrm '[] and `@texttt src/ [156] [157] Underfull \hbox (badness 10000) in paragraph at lines 12044--12053 []@textrm There is a (D)COM server called @texttt StatConnector[] @textrm writ -ten by Thomas Underfull \hbox (badness 10000) in paragraph at lines 12044--12053 @textrm Baier avail-able via [][]@texttt http://cran.r-project.org/other-softw are.html[][][] @textrm or Underfull \hbox (badness 2343) in paragraph at lines 12044--12053 [][]@texttt http://sunsite.univie.ac.at/rcom/[][][]@textrm , which works with pack-age [][]@textbf rscproxy[][] @textrm to Underfull \hbox (badness 5091) in paragraph at lines 12054--12059 @textrm Its phi-los-o-phy is dis-cussed in [][]@texttt http://www.omegahat.org /RDCOMServer/Docs/ [158] [159] Underfull \hbox (badness 2671) in paragraph at lines 12190--12197 @textrm may be avail-able from the Win-dows Reg-istry: it will be in @texttt H KEY_LOCAL_ Underfull \hbox (badness 4084) in paragraph at lines 12190--12197 @texttt MACHINE\Software\R-core\R\InstallPath[] @textrm from an ad-min-is-tra- tive in-stall and [160] [161] (Function and variable index) [162] (./R-exts.vrs [163] [164]) (Concept index) [165] (./R-exts.cps [166]) [167] ) (see the transcript file for additional information) Output written on R-exts.pdf (173 pages, 813420 bytes). Transcript written on R-exts.log. This is pdfTeX, Version 3.1415926-2.4-1.40.13 (TeX Live 2012/Debian) restricted \write18 enabled. entering extended mode (/«PKGBUILDDIR»/doc/manual/R-exts.t2d/pdf/xtr/R-exts.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2008-04-18.10]: pdf, fonts, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (./epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) (./R-exts.aux ) (./R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (./version.texi) [1{/var/lib/texmf/fonts/map/pdftex/updmap/pdftex.map}] [2] (./R-exts.toc [-1] [-2] [-3]) [-4] (./R-exts.toc) (./R-exts.toc) (Acknowledgements) Chapter 1 [1] [2] [3] Underfull \hbox (badness 3049) in paragraph at lines 342--354 [][]@texttt http://www.debian.org/doc/debian-policy/ch-controlfields.html[][][] @textrm : R does not [4] Underfull \hbox (badness 3826) in paragraph at lines 383--400 []@textrm The names of ab-bre-vi-a-tions of free or open source soft-ware (FOS S, e.g., Underfull \hbox (badness 2608) in paragraph at lines 383--400 @textrm soft-ware (see [][]@texttt http://www.opensource.org/licenses/bsd-lice nse.php[][][]@textrm ) li-censes [5] [6] Underfull \hbox (badness 3118) in paragraph at lines 556--560 []@textrm Packages that need to be at-tached to suc-cess-fully load the pack-a ge us-ing [7] [8] [9] Underfull \hbox (badness 2057) in paragraph at lines 737--745 @textrm (a saved im-age of R ob-jects: please use suit-able com-pres-sion as su g-gested by [10] [11] [12] [13] [14] [15] [16] [17] [18] [19] [20] [21] Overfull \hbox (67.78206pt too wide) in paragraph at lines 1686--1686 []@smalltt SOURCES = $(wildcard data/*.cpp network/*.cpp utils/*.cpp model/*.c pp model/*/*.cpp model/*/*/*.cpp)[] Overfull \hbox (53.60722pt too wide) in paragraph at lines 1688--1688 []@smalltt OBJECTS = siena07utilities.o siena07internals.o siena07setup.o sien a07models.o $(SOURCES:.cpp=.o)[] [22] [23] Overfull \hbox (16.92342pt too wide) in paragraph at lines 1826--1826 []@smalltt dnl for 64-bit ODBC need SQL[U]LEN, and it is unclear where they ar e defined.[] [24] [25] Overfull \hbox (8.1238pt too wide) in paragraph at lines 1924--1926 [][][]@smallrm On sys-tems which use sub-architectures, architecture-specific v er-sions such as `@smalltt ~/.R/check.Renviron.i386[]@smallrm '[] [26] [27] Underfull \hbox (badness 2617) in paragraph at lines 2125--2136 @textrm re-made in a copy of the pack-age sources in the `@texttt vign_test[]@ textrm '[] sub-di-rec-tory [28] Underfull \hbox (badness 3291) in paragraph at lines 2181--2193 []@textbf Multiple sub-architectures: @textrm On sys-tems which sup-port mul-t i-ple sub- [29] [30] [31] [32] [33] [34] Underfull \hbox (badness 2951) in paragraph at lines 2649--2653 []@textrm Read through the PDF man-ual that was pro-duced by @texttt R CMD che ck[] @textrm at [35] [36] [37] [38] [39] [40] [41] [42] [43] Overfull \hbox (55.18257pt too wide) in paragraph at lines 3379--3379 []@texttt exportMethods(coef, confint, logLik, plot, profile, summary, show, u pdate, vcov)[] [44] [45] [46] [47] Overfull \hbox (14.94176pt too wide) in paragraph at lines 3695--3695 []@texttt "latin1=en_US:latin2=pl_PL:UTF-8=en_US.UTF-8:latin9=fr_FR.iso885915@ euro"[] [48] [49] Underfull \hbox (badness 2401) in paragraph at lines 3833--3838 []@textrm The pro-ce-dures make use of @texttt msgfmt[] @textrm and @texttt xge ttext[] @textrm which are part of @reducedrm GNU Underfull \hbox (badness 4403) in paragraph at lines 3833--3838 @textrm bi-na-ries at the @reducedrm GNU @textrm archive mir-rors and pack-aged with the @texttt poEdit[] @textrm pack-age [50] [51] [52] Overfull \hbox (26.43913pt too wide) in paragraph at lines 4133--4133 []@texttt msgfmt -c -o share/locale/it/LC_MESSAGES/RGui.mo $R_SRC_HOME/po/RGui -it.gmo[] [53] Chapter 2 [54] [55] [56] [57] [58] [59] [60] [61] [62] [63] [64] [65] [66] [67] Underfull \hbox (badness 10000) in paragraph at lines 5176--5183 []@textrm The two com-monly used sim-ple forms are @texttt \figure{@textttsl fi lename@texttt }[] @textrm and [68] Underfull \hbox (badness 7595) in paragraph at lines 5336--5344 []@textrm Occasionally the best con-tent for one out-put for-mat is dif-fer-ent from the Underfull \hbox (badness 7796) in paragraph at lines 5336--5344 @textrm best con-tent for an-other. For this sit-u-a-tion, the @texttt \if{@tex tttsl format@texttt }{@textttsl text@texttt }[] @textrm or [69] Underfull \hbox (badness 3503) in paragraph at lines 5353--5359 []@textrm The @texttt \out{@textttsl literal@texttt }[] @textrm macro would usu -ally be used within the @textsl text @textrm part of [70] [71] Underfull \hbox (badness 6526) in paragraph at lines 5553--5558 @textrm command, and this needs to be matched by a suit-able in-vo-ca-tion of t he Underfull \hbox (badness 4096) in paragraph at lines 5553--5558 @texttt \usepackage{inputenc}[] @textrm com-mand. The R util-ity @texttt R CMD Rd2pdf[] @textrm looks at the [72] Overfull \hbox (25.21587pt too wide) in paragraph at lines 5625--5628 []@textrm Another is the Eclipse IDE with the Stat-ET plu-gin ([][]@texttt http ://www.walware.de/goto/statet[][][]@textrm ), Chapter 3 [73] [74] [75] [76] [77] Overfull \hbox (71.38544pt too wide) in paragraph at lines 6006--6009 []@textrm Options in-clude us-ing @texttt sprof[] @textrm for a shared ob-ject, and @texttt oprofile[] @textrm (see [][]@texttt http://oprofile.sourceforge.ne t/[][][]@textrm ) [78] [79] Underfull \hbox (badness 10000) in paragraph at lines 6097--6101 @textrm and @texttt Shark[] @textrm (see [][]@texttt http://developer.apple.com /tools/sharkoptimize.html[][][] @textrm and Chapter 4 [80] [81] [82] Overfull \hbox (14.94176pt too wide) in paragraph at lines 6303--6303 []@texttt evaluation nested too deeply: infinite recursion / options(expressio ns=)?[] [83] Overfull \hbox (25.25755pt too wide) in paragraph at lines 6343--6343 []@smalltt Message: Error: no valid set of coefficients has been found: pleas e supply starting values[] [84] Overfull \hbox (20.53261pt too wide) in paragraph at lines 6447--6447 []@smalltt debugging in: glm.fit(x = X, y = Y, weights = weights, start = star t, etastart = etastart,[] Overfull \hbox (38.96663pt too wide) in paragraph at lines 6477--6486 []@texttt debug[] @textrm can be used for hid-den func-tions and S3 meth-ods by e.g. @texttt debug(stats:::predict.Arima)[]@textrm . [85] [86] Underfull \hbox (badness 3601) in paragraph at lines 6601--6607 @textrm plat-form, or Mac OS 10.5/6/7 on `@texttt i386[]@textrm '[] or `@texttt x86_64[]@textrm '[] you can use @texttt valgrind[] [87] [88] Overfull \hbox (14.94176pt too wide) in paragraph at lines 6726--6726 [] @texttt 2: possibleExtends(class(sloti), classi, ClassDef2 = getClassDef(cl assi,[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 6729--6729 [] @texttt 4: stopifnot(validObject(cu <- as(tu, "dtCMatrix")), validObject(t( cu)),[] [89] Overfull \hbox (26.43913pt too wide) in paragraph at lines 6796--6796 []@texttt #5 0xb7d6c0a5 in do_random2 (call=0x94bf7d4, op=0x92580e8, args=0x9 698f98,[] [90] [91] Chapter 5 [92] [93] [94] [95] [96] [97] [98] [99] [100] [101] [102] Overfull \hbox (135.6642pt too wide) in paragraph at lines 7816--7816 []@texttt PKGB_PATH=`echo 'cat(system.file("libs", .Platform$r_arch, package=" packB", mustWork=TRUE))' \[] Overfull \hbox (135.6642pt too wide) in paragraph at lines 7829--7829 []@texttt PKGB_PATH=`echo 'cat(system.file("libs", .Platform$r_arch, package=" packB", mustWork=TRUE))' \[] [103] Overfull \hbox (37.93651pt too wide) in paragraph at lines 7850--7850 []@texttt PKGB_PATH=`echo 'library(packB); cat(system.file("libs", package="pa ckB"))' \[] Overfull \hbox (59.61772pt too wide) in paragraph at lines 7899--7899 []@texttt PKGB_PATH=`echo 'library(packB); cat(system.file("libs", package="pa ckB"))' \[] [104] [105] [106] [107] [108] [109] [110] [111] [112] [113] Overfull \hbox (14.94176pt too wide) in paragraph at lines 8643--8643 [] @texttt if(ign == NA_LOGICAL) error("'ignore_quotes' must be TRUE or FAL SE");[] [114] Underfull \hbox (badness 10000) in paragraph at lines 8704--8706 []@textrm Functions @texttt any_duplicated[] @textrm and @texttt any_duplicated 3[] @textrm are fast ver-sions of R's [115] [116] [117] [118] [119] [120] [121] [122] Overfull \hbox (14.94176pt too wide) in paragraph at lines 9362--9362 [] @texttt PROTECT(gradient = allocMatrix(REALSXP, LENGTH(ans), LENGTH(thet a)));[] [123] Overfull \hbox (14.94176pt too wide) in paragraph at lines 9367--9367 [] @texttt for(i = 0, start = 0; i < LENGTH(theta); i++, start += LENGTH(an s)) {[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 9368--9368 [] @texttt PROTECT(par = findVar(install(CHAR(STRING_ELT(theta, i))), r ho));[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 9422--9422 [] @texttt PROTECT(gradient = allocMatrix(REALSXP, LENGTH(ans), LENGTH(thet a)));[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 9432--9432 [] @texttt for(i = 0, start = 0; i < LENGTH(theta); i++, start += LENGTH(an s)) {[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 9433--9433 [] @texttt PROTECT(par = findVar(install(CHAR(STRING_ELT(theta, i))), r ho));[] [124] Overfull \hbox (26.43913pt too wide) in paragraph at lines 9531--9531 [] @texttt cmdexpr = PROTECT(R_ParseVector(cmdSexp, -1, &status, R_NilV alue));[] [125] [126] Overfull \hbox (14.94176pt too wide) in paragraph at lines 9655--9655 []@texttt void R_RegisterCFinalizerEx(SEXP s, R_CFinalizer_t fun, Rboolean one xit);[] [127] Overfull \hbox (43.6852pt too wide) in paragraph at lines 9732--9732 [] @texttt ptr = R_MakeExternalPtr(thisHandle, install("RODBC_channel"), R_ NilValue);[] [128] Overfull \hbox (14.94176pt too wide) in paragraph at lines 9814--9814 []@texttt typedef enum {CE_NATIVE, CE_UTF8, CE_LATIN1, CE_SYMBOL, CE_ANY} cety pe_t;[] [129] Chapter 6 [130] [131] [132] [133] [134] [135] [136] [137] [138] [139] [140] [141] [142] [143] [144] [145] [146] Underfull \hbox (badness 6332) in paragraph at lines 11252--11255 []@textrm The header files which R in-stalls are in di-rec-tory `@textttsl R_IN CLUDE_DIR[]@textrm '[] (de-fault [147] Underfull \hbox (badness 10000) in paragraph at lines 11308--11310 @textrm definitions for ex-ports from `@texttt R.dll[]@textrm '[] on Underfull \hbox (badness 10000) in paragraph at lines 11313--11318 []@textrm The graph-ics sys-tems are ex-posed in head-ers `@texttt R_ext/Graphi csEngine.h[]@textrm '[], Chapter 7 [148] [149] Chapter 8 [150] Underfull \hbox (badness 2213) in paragraph at lines 11555--11560 []@textrm Setting @texttt LD_LIBRARY_PATH[] @textrm to in-clude the di-rec-to- ries used in link-ing R. This [151] [152] Overfull \hbox (20.69044pt too wide) in paragraph at lines 11695--11695 []@texttt extern int (*ptr_R_ReadConsole)(const char *, unsigned char *, int, int);[] [153] [154] [155] Underfull \hbox (badness 2547) in paragraph at lines 11931--11938 @texttt modules/internet/nanoftp.c[]@textrm '[], `@texttt src/modules/internet /nanohttp.c[]@textrm '[] and `@texttt src/ [156] [157] Underfull \hbox (badness 10000) in paragraph at lines 12044--12053 []@textrm There is a (D)COM server called @texttt StatConnector[] @textrm writ -ten by Thomas Underfull \hbox (badness 10000) in paragraph at lines 12044--12053 @textrm Baier avail-able via [][]@texttt http://cran.r-project.org/other-softw are.html[][][] @textrm or Underfull \hbox (badness 2343) in paragraph at lines 12044--12053 [][]@texttt http://sunsite.univie.ac.at/rcom/[][][]@textrm , which works with pack-age [][]@textbf rscproxy[][] @textrm to Underfull \hbox (badness 5091) in paragraph at lines 12054--12059 @textrm Its phi-los-o-phy is dis-cussed in [][]@texttt http://www.omegahat.org /RDCOMServer/Docs/ [158] [159] Underfull \hbox (badness 2671) in paragraph at lines 12190--12197 @textrm may be avail-able from the Win-dows Reg-istry: it will be in @texttt H KEY_LOCAL_ Underfull \hbox (badness 4084) in paragraph at lines 12190--12197 @texttt MACHINE\Software\R-core\R\InstallPath[] @textrm from an ad-min-is-tra- tive in-stall and [160] [161] (Function and variable index) [162] (./R-exts.vrs [163] [164]) (Concept index) [165] (./R-exts.cps [166]) [167] ) (see the transcript file for additional information) Output written on R-exts.pdf (173 pages, 813420 bytes). Transcript written on R-exts.log. TEXINPUTS=".:$TEXINPUTS" LC_COLLATE=C /usr/bin/texi2dvi --texinfo="@set UseExternalXrefs " --pdf R-intro.texi This is pdfTeX, Version 3.1415926-2.4-1.40.13 (TeX Live 2012/Debian) restricted \write18 enabled. entering extended mode (/«PKGBUILDDIR»/doc/manual/R-intro.t2d/pdf/xtr/R-intro.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2008-04-18.10]: pdf, fonts, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (./epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) (./R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (./version.texi) [1{/var/lib/texmf/fonts/map/pdftex/updmap/pdftex.map}] [2] [-1] (Preface) Cross reference values unknown; you must run TeX again. Chapter 1 [1] [2] [3] [4] [5] Chapter 2 [6] [7] [8] [9] [10] [11] Chapter 3 [12] [13] [14] Chapter 4 [15] [16] Chapter 5 [17] [18] [19] [20] [21] [22] [23] [24] [25] [26] Chapter 6 [27] [28] [29] [30] Chapter 7 [31] [32] [33] Chapter 8 [34] [35] [36] <./images/hist.pdf> <./images/ecdf.pdf> [37] <./images/QQ.pdf> [38] <./images/ice.pdf> [39] [40] Chapter 9 [41] [42] Chapter 10 [43] [44] [45] [46] [47] [48] [49] [50] [51] Chapter 11 [52] [53] [54] [55] [56] [57] [58] [59] [60] [61] [62] [63] [64] [65] Chapter 12 [66] [67] [68] [69] [70] Overfull \hbox (26.43913pt too wide) in paragraph at lines 5738--5738 []@texttt > text(x, y, expression(paste(bgroup("(", atop(n, x), ")"), p^x, q^{ n-x})))[] [71] [72] [73] [74] [75] <./images/fig11.pdf> [76] <./images/fig12.pdf> [77] [78] Underfull \hbox (badness 3240) in paragraph at lines 6220--6223 []@textrm More com-pli-cated ar-range-ments of mul-ti-ple fig-ures can be pro-d uced by the [79] [80] Underfull \hbox (badness 7832) in paragraph at lines 6409--6412 @textrm and these can be ac-cessed from R via the pack-age [][]@textbf rggobi[] []@textrm , de-scribed at Chapter 13 [81] Underfull \hbox (badness 10000) in paragraph at lines 6444--6449 []@textrm Users con-nected to the In-ter-net can use the @texttt install.packag es()[] @textrm and [82] Appendix A [83] [84] [85] [86] Appendix B [87] [88] [89] [90] [91] [92] [93] [94] Appendix C [95] [96] Appendix D [97] Appendix E [98] Appendix F [99] [100] ) (see the transcript file for additional information)< /usr/share/texlive/texmf-dist/fonts/type1/public/amsfonts/cm/cmtt10.pfb> Output written on R-intro.pdf (103 pages, 572646 bytes). Transcript written on R-intro.log. This is pdfTeX, Version 3.1415926-2.4-1.40.13 (TeX Live 2012/Debian) restricted \write18 enabled. entering extended mode (/«PKGBUILDDIR»/doc/manual/R-intro.t2d/pdf/xtr/R-intro.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2008-04-18.10]: pdf, fonts, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (./epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) (./R-intro.aux) (./R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (./version.texi) [1{/var/lib/texmf/fonts/map/pdftex/updmap/pdftex.map}] [2] (./R-intro.toc [-1] [-2] [-3]) [-4] (./R-intro.toc) (./R-intro.toc) (Preface) Chapter 1 [1] [2] [3] [4] [5] Chapter 2 [6] [7] [8] [9] [10] [11] Chapter 3 [12] [13] [14] Chapter 4 [15] [16] Chapter 5 [17] [18] [19] [20] [21] [22] [23] [24] [25] [26] Chapter 6 [27] [28] [29] [30] Chapter 7 [31] [32] [33] Chapter 8 [34] [35] [36] <./images/hist.pdf> <./images/ecdf.pdf> [37] <./images/QQ.pdf> [38] <./images/ice.pdf> [39] [40] Chapter 9 [41] [42] Chapter 10 [43] [44] [45] [46] [47] [48] [49] [50] [51] Chapter 11 [52] [53] [54] [55] [56] [57] [58] [59] [60] [61] [62] [63] [64] [65] Chapter 12 [66] [67] [68] [69] [70] Overfull \hbox (26.43913pt too wide) in paragraph at lines 5738--5738 []@texttt > text(x, y, expression(paste(bgroup("(", atop(n, x), ")"), p^x, q^{ n-x})))[] [71] [72] [73] [74] [75] <./images/fig11.pdf> [76] <./images/fig12.pdf> [77] [78] Underfull \hbox (badness 3240) in paragraph at lines 6220--6223 []@textrm More com-pli-cated ar-range-ments of mul-ti-ple fig-ures can be pro-d uced by the [79] [80] Underfull \hbox (badness 7832) in paragraph at lines 6409--6412 @textrm and these can be ac-cessed from R via the pack-age [][]@textbf rggobi[] []@textrm , de-scribed at Chapter 13 [81] Underfull \hbox (badness 10000) in paragraph at lines 6444--6449 []@textrm Users con-nected to the In-ter-net can use the @texttt install.packag es()[] @textrm and [82] Appendix A [83] [84] [85] [86] Appendix B [87] [88] [89] [90] [91] [92] [93] [94] Appendix C [95] [96] Appendix D [97] (./R-intro.vrs [98] [99]) Appendix E [100] (./R-intro.cps [101]) Appendix F [102] [103] ) (see the transcript file for additional information) Output written on R-intro.pdf (109 pages, 622142 bytes). Transcript written on R-intro.log. This is pdfTeX, Version 3.1415926-2.4-1.40.13 (TeX Live 2012/Debian) restricted \write18 enabled. entering extended mode (/«PKGBUILDDIR»/doc/manual/R-intro.t2d/pdf/xtr/R-intro.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2008-04-18.10]: pdf, fonts, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (./epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) (./R-intro.aux) (./R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (./version.texi) [1{/var/lib/texmf/fonts/map/pdftex/updmap/pdftex.map}] [2] (./R-intro.toc [-1] [-2] [-3]) [-4] (./R-intro.toc) (./R-intro.toc) (Preface) Chapter 1 [1] [2] [3] [4] [5] Chapter 2 [6] [7] [8] [9] [10] [11] Chapter 3 [12] [13] [14] Chapter 4 [15] [16] Chapter 5 [17] [18] [19] [20] [21] [22] [23] [24] [25] [26] Chapter 6 [27] [28] [29] [30] Chapter 7 [31] [32] [33] Chapter 8 [34] [35] [36] <./images/hist.pdf> <./images/ecdf.pdf> [37] <./images/QQ.pdf> [38] <./images/ice.pdf> [39] [40] Chapter 9 [41] [42] Chapter 10 [43] [44] [45] [46] [47] [48] [49] [50] [51] Chapter 11 [52] [53] [54] [55] [56] [57] [58] [59] [60] [61] [62] [63] [64] [65] Chapter 12 [66] [67] [68] [69] [70] Overfull \hbox (26.43913pt too wide) in paragraph at lines 5738--5738 []@texttt > text(x, y, expression(paste(bgroup("(", atop(n, x), ")"), p^x, q^{ n-x})))[] [71] [72] [73] [74] [75] <./images/fig11.pdf> [76] <./images/fig12.pdf> [77] [78] Underfull \hbox (badness 3240) in paragraph at lines 6220--6223 []@textrm More com-pli-cated ar-range-ments of mul-ti-ple fig-ures can be pro-d uced by the [79] [80] Underfull \hbox (badness 7832) in paragraph at lines 6409--6412 @textrm and these can be ac-cessed from R via the pack-age [][]@textbf rggobi[] []@textrm , de-scribed at Chapter 13 [81] Underfull \hbox (badness 10000) in paragraph at lines 6444--6449 []@textrm Users con-nected to the In-ter-net can use the @texttt install.packag es()[] @textrm and [82] Appendix A [83] [84] [85] [86] Appendix B [87] [88] [89] [90] [91] [92] [93] [94] Appendix C [95] [96] Appendix D [97] (./R-intro.vrs [98] [99]) Appendix E [100] (./R-intro.cps [101]) Appendix F [102] [103] ) (see the transcript file for additional information) Output written on R-intro.pdf (109 pages, 622120 bytes). Transcript written on R-intro.log. TEXINPUTS=".:$TEXINPUTS" LC_COLLATE=C /usr/bin/texi2dvi --texinfo="@set UseExternalXrefs " --pdf R-ints.texi This is pdfTeX, Version 3.1415926-2.4-1.40.13 (TeX Live 2012/Debian) restricted \write18 enabled. entering extended mode (/«PKGBUILDDIR»/doc/manual/R-ints.t2d/pdf/xtr/R-ints.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2008-04-18.10]: pdf, fonts, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (./epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) (./R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (./version.texi) [1{/var/lib/texmf/fonts/map/pdftex/updmap/pdftex.map}] [2] [-1] Chapter 1 [1] [2] [3] [4] [5] [6] [7] [8] [9] [10] [11] [12] [13] Underfull \hbox (badness 4859) in paragraph at lines 1129--1138 @textrm level by @texttt saveRDS[]@textrm /@texttt readRDS[] @textrm (and their ear-lier `in-ter-nal' dot-name ver-sions) and [14] [15] [16] [17] [18] [19] [20] [21] [22] [23] Overfull \hbox (5.29526pt too wide) in paragraph at lines 1935--1940 []@textrm Lazy-load data-bases are cre-ated by the code in `@texttt src/library /tools/R/makeLazyLoad.R[]@textrm '[]: Chapter 2 [24] [25] [26] [27] Overfull \hbox (0.64153pt too wide) in paragraph at lines 2279--2286 []@textrm Those prim-i-tives which are in @texttt .GenericArgsEnv[] @textrm are checked (via `@texttt tests/primitives.R[]@textrm '[]) Chapter 3 [28] [29] Chapter 4 [30] [31] Chapter 5 [32] [33] Chapter 6 [34] Overfull \hbox (0.6417pt too wide) in paragraph at lines 2666--2669 []@textrm Some notes on the changes for 1.4.0 can be found at [][]@texttt http: //www.stat.auckland.ac.nz/ Underfull \hbox (badness 10000) in paragraph at lines 2666--2669 @texttt ~paul/R/basegraph.html[][][] @textrm and [][]@texttt http://www.stat.au ckland.ac.nz/~paul/R/ [35] [36] [37] [38] [39] [40] [41] Underfull \hbox (badness 5832) in paragraph at lines 3219--3235 []@textrm Users may use @texttt grDevices::setGraphicsEventEnv[] @textrm to set the @texttt eventEnv[] @textrm en- Underfull \hbox (badness 2556) in paragraph at lines 3219--3235 @textrm vi-ron-ment in the de-vice driver to hold event han-dlers. When the use r calls [42] [43] [44] Underfull \hbox (badness 2245) in paragraph at lines 3446--3450 []@textrm The base sys-tem state is con-tained in @texttt baseSystemState[] @te xtrm struc-ture de-fined in [45] Chapter 7 [46] [47] [48] [49] [50] Underfull \hbox (badness 10000) in paragraph at lines 3718--3726 @textrm to us-ing @texttt skipWith = TRUE[]@textrm , @texttt suppressPartialMa tchArgs = FALSE[] @textrm and Chapter 8 [51] Underfull \hbox (badness 2088) in paragraph at lines 3820--3829 @textsl Pro-gram-ming En-vi-ron-ment @textrm by Brian W. Kernighan & Rob Pike. Note in [52] Chapter 9 [53] Chapter 10 [54] Chapter 11 [55] (Function and variable index) [56] (Concept index) [57] [58] ) (see the transcript file for additional information) Output written on R-ints.pdf (61 pages, 350451 bytes). Transcript written on R-ints.log. This is pdfTeX, Version 3.1415926-2.4-1.40.13 (TeX Live 2012/Debian) restricted \write18 enabled. entering extended mode (/«PKGBUILDDIR»/doc/manual/R-ints.t2d/pdf/xtr/R-ints.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2008-04-18.10]: pdf, fonts, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (./epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) (./R-ints.aux ) (./R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (./version.texi) [1{/var/lib/texmf/fonts/map/pdftex/updmap/pdftex.map}] [2] (./R-ints.toc [-1]) [-2] (./R-ints.toc) (./R-ints.toc) Chapter 1 [1] [2] [3] [4] [5] [6] [7] [8] [9] [10] [11] [12] [13] Underfull \hbox (badness 4859) in paragraph at lines 1129--1138 @textrm level by @texttt saveRDS[]@textrm /@texttt readRDS[] @textrm (and their ear-lier `in-ter-nal' dot-name ver-sions) and [14] [15] [16] [17] [18] [19] [20] [21] [22] [23] Overfull \hbox (5.29526pt too wide) in paragraph at lines 1935--1940 []@textrm Lazy-load data-bases are cre-ated by the code in `@texttt src/library /tools/R/makeLazyLoad.R[]@textrm '[]: Chapter 2 [24] [25] [26] [27] Overfull \hbox (0.64153pt too wide) in paragraph at lines 2279--2286 []@textrm Those prim-i-tives which are in @texttt .GenericArgsEnv[] @textrm are checked (via `@texttt tests/primitives.R[]@textrm '[]) Chapter 3 [28] [29] Chapter 4 [30] [31] Chapter 5 [32] [33] Chapter 6 [34] Overfull \hbox (0.6417pt too wide) in paragraph at lines 2666--2669 []@textrm Some notes on the changes for 1.4.0 can be found at [][]@texttt http: //www.stat.auckland.ac.nz/ Underfull \hbox (badness 10000) in paragraph at lines 2666--2669 @texttt ~paul/R/basegraph.html[][][] @textrm and [][]@texttt http://www.stat.au ckland.ac.nz/~paul/R/ [35] [36] [37] [38] [39] [40] [41] Underfull \hbox (badness 5832) in paragraph at lines 3219--3235 []@textrm Users may use @texttt grDevices::setGraphicsEventEnv[] @textrm to set the @texttt eventEnv[] @textrm en- Underfull \hbox (badness 2556) in paragraph at lines 3219--3235 @textrm vi-ron-ment in the de-vice driver to hold event han-dlers. When the use r calls [42] [43] [44] Underfull \hbox (badness 2245) in paragraph at lines 3446--3450 []@textrm The base sys-tem state is con-tained in @texttt baseSystemState[] @te xtrm struc-ture de-fined in [45] Chapter 7 [46] [47] [48] [49] [50] Underfull \hbox (badness 10000) in paragraph at lines 3718--3726 @textrm to us-ing @texttt skipWith = TRUE[]@textrm , @texttt suppressPartialMa tchArgs = FALSE[] @textrm and Chapter 8 [51] Underfull \hbox (badness 2088) in paragraph at lines 3820--3829 @textsl Pro-gram-ming En-vi-ron-ment @textrm by Brian W. Kernighan & Rob Pike. Note in [52] Chapter 9 [53] Chapter 10 [54] Chapter 11 [55] (Function and variable index) [56] (./R-ints.vrs [57]) (Concept index) [58] (./R-ints.cps) [59] ) (see the transcript file for additional information) Output written on R-ints.pdf (63 pages, 396700 bytes). Transcript written on R-ints.log. This is pdfTeX, Version 3.1415926-2.4-1.40.13 (TeX Live 2012/Debian) restricted \write18 enabled. entering extended mode (/«PKGBUILDDIR»/doc/manual/R-ints.t2d/pdf/xtr/R-ints.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2008-04-18.10]: pdf, fonts, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (./epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) (./R-ints.aux ) (./R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (./version.texi) [1{/var/lib/texmf/fonts/map/pdftex/updmap/pdftex.map}] [2] (./R-ints.toc [-1]) [-2] (./R-ints.toc) (./R-ints.toc) Chapter 1 [1] [2] [3] [4] [5] [6] [7] [8] [9] [10] [11] [12] [13] Underfull \hbox (badness 4859) in paragraph at lines 1129--1138 @textrm level by @texttt saveRDS[]@textrm /@texttt readRDS[] @textrm (and their ear-lier `in-ter-nal' dot-name ver-sions) and [14] [15] [16] [17] [18] [19] [20] [21] [22] [23] Overfull \hbox (5.29526pt too wide) in paragraph at lines 1935--1940 []@textrm Lazy-load data-bases are cre-ated by the code in `@texttt src/library /tools/R/makeLazyLoad.R[]@textrm '[]: Chapter 2 [24] [25] [26] [27] Overfull \hbox (0.64153pt too wide) in paragraph at lines 2279--2286 []@textrm Those prim-i-tives which are in @texttt .GenericArgsEnv[] @textrm are checked (via `@texttt tests/primitives.R[]@textrm '[]) Chapter 3 [28] [29] Chapter 4 [30] [31] Chapter 5 [32] [33] Chapter 6 [34] Overfull \hbox (0.6417pt too wide) in paragraph at lines 2666--2669 []@textrm Some notes on the changes for 1.4.0 can be found at [][]@texttt http: //www.stat.auckland.ac.nz/ Underfull \hbox (badness 10000) in paragraph at lines 2666--2669 @texttt ~paul/R/basegraph.html[][][] @textrm and [][]@texttt http://www.stat.au ckland.ac.nz/~paul/R/ [35] [36] [37] [38] [39] [40] [41] Underfull \hbox (badness 5832) in paragraph at lines 3219--3235 []@textrm Users may use @texttt grDevices::setGraphicsEventEnv[] @textrm to set the @texttt eventEnv[] @textrm en- Underfull \hbox (badness 2556) in paragraph at lines 3219--3235 @textrm vi-ron-ment in the de-vice driver to hold event han-dlers. When the use r calls [42] [43] [44] Underfull \hbox (badness 2245) in paragraph at lines 3446--3450 []@textrm The base sys-tem state is con-tained in @texttt baseSystemState[] @te xtrm struc-ture de-fined in [45] Chapter 7 [46] [47] [48] [49] [50] Underfull \hbox (badness 10000) in paragraph at lines 3718--3726 @textrm to us-ing @texttt skipWith = TRUE[]@textrm , @texttt suppressPartialMa tchArgs = FALSE[] @textrm and Chapter 8 [51] Underfull \hbox (badness 2088) in paragraph at lines 3820--3829 @textsl Pro-gram-ming En-vi-ron-ment @textrm by Brian W. Kernighan & Rob Pike. Note in [52] Chapter 9 [53] Chapter 10 [54] Chapter 11 [55] (Function and variable index) [56] (./R-ints.vrs [57]) (Concept index) [58] (./R-ints.cps) [59] ) (see the transcript file for additional information) Output written on R-ints.pdf (63 pages, 396706 bytes). Transcript written on R-ints.log. TEXINPUTS=".:$TEXINPUTS" LC_COLLATE=C /usr/bin/texi2dvi --texinfo="@set UseExternalXrefs " --pdf R-lang.texi This is pdfTeX, Version 3.1415926-2.4-1.40.13 (TeX Live 2012/Debian) restricted \write18 enabled. entering extended mode (/«PKGBUILDDIR»/doc/manual/R-lang.t2d/pdf/xtr/R-lang.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2008-04-18.10]: pdf, fonts, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (./epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) (./R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (./version.texi) [1{/var/lib/texmf/fonts/map/pdftex/updmap/pdftex.map}] [2] [-1] Chapter 1 Chapter 2 [1] [2] Cross reference values unknown; you must run TeX again. Overfull \hbox (8.41086pt too wide) in paragraph at lines 300--301 @textbf storage.mode| [3] [4] [5] [6] [7] [8] Chapter 3 [9] [10] [11] [12] [13] [14] [15] [16] [17] [18] [19] [20] [21] [22] [23] Chapter 4 [24] [25] [26] [27] [28] Chapter 5 [29] [30] [31] [32] [33] [34] Chapter 6 [35] [36] [37] [38] [39] [40] [41] [42] Chapter 7 [43] [44] Chapter 8 [45] [46] Chapter 9 [47] [48] [49] Chapter 10 [50] [51] [52] Underfull \hbox (badness 3623) in paragraph at lines 4329--4331 []@textrm Up-to-date in-for-ma-tion on the cur-rently ac-cepted for-mats can be found by [53] [54] [55] [56] [57] (Function and Variable Index) [58] (Concept Index) [59] Appendix A [60] [61] ) (see the transcript file for additional information) Output written on R-lang.pdf (64 pages, 330301 bytes). Transcript written on R-lang.log. This is pdfTeX, Version 3.1415926-2.4-1.40.13 (TeX Live 2012/Debian) restricted \write18 enabled. entering extended mode (/«PKGBUILDDIR»/doc/manual/R-lang.t2d/pdf/xtr/R-lang.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2008-04-18.10]: pdf, fonts, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (./epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) (./R-lang.aux ) (./R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (./version.texi) [1{/var/lib/texmf/fonts/map/pdftex/updmap/pdftex.map}] [2] (./R-lang.toc [-1] [-2]) [-3] (./R-lang.toc) (./R-lang.toc) Chapter 1 Chapter 2 [1] [2] Overfull \hbox (8.41086pt too wide) in paragraph at lines 300--301 @textbf storage.mode| [3] [4] [5] [6] [7] [8] Chapter 3 [9] [10] [11] [12] [13] [14] [15] [16] [17] [18] [19] [20] [21] [22] [23] Chapter 4 [24] [25] [26] [27] [28] Chapter 5 [29] [30] [31] [32] [33] [34] Chapter 6 [35] [36] [37] [38] [39] [40] [41] [42] Chapter 7 [43] [44] Chapter 8 [45] [46] Chapter 9 [47] [48] [49] Chapter 10 [50] [51] [52] Underfull \hbox (badness 3623) in paragraph at lines 4329--4331 []@textrm Up-to-date in-for-ma-tion on the cur-rently ac-cepted for-mats can be found by [53] [54] [55] [56] [57] (Function and Variable Index) [58] (./R-lang.vrs [59]) (Concept Index) [60] (./R-lang.cps) Appendix A [61] [62] ) (see the transcript file for additional information) Output written on R-lang.pdf (67 pages, 378809 bytes). Transcript written on R-lang.log. This is pdfTeX, Version 3.1415926-2.4-1.40.13 (TeX Live 2012/Debian) restricted \write18 enabled. entering extended mode (/«PKGBUILDDIR»/doc/manual/R-lang.t2d/pdf/xtr/R-lang.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2008-04-18.10]: pdf, fonts, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (./epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) (./R-lang.aux ) (./R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (./version.texi) [1{/var/lib/texmf/fonts/map/pdftex/updmap/pdftex.map}] [2] (./R-lang.toc [-1] [-2]) [-3] (./R-lang.toc) (./R-lang.toc) Chapter 1 Chapter 2 [1] [2] Overfull \hbox (8.41086pt too wide) in paragraph at lines 300--301 @textbf storage.mode| [3] [4] [5] [6] [7] [8] Chapter 3 [9] [10] [11] [12] [13] [14] [15] [16] [17] [18] [19] [20] [21] [22] [23] Chapter 4 [24] [25] [26] [27] [28] Chapter 5 [29] [30] [31] [32] [33] [34] Chapter 6 [35] [36] [37] [38] [39] [40] [41] [42] Chapter 7 [43] [44] Chapter 8 [45] [46] Chapter 9 [47] [48] [49] Chapter 10 [50] [51] [52] Underfull \hbox (badness 3623) in paragraph at lines 4329--4331 []@textrm Up-to-date in-for-ma-tion on the cur-rently ac-cepted for-mats can be found by [53] [54] [55] [56] [57] (Function and Variable Index) [58] (./R-lang.vrs [59]) (Concept Index) [60] (./R-lang.cps) Appendix A [61] [62] ) (see the transcript file for additional information) Output written on R-lang.pdf (67 pages, 378804 bytes). Transcript written on R-lang.log. installing R manuals in PDF format ... make[2]: Leaving directory `/«PKGBUILDDIR»/doc/manual' make[1]: Leaving directory `/«PKGBUILDDIR»' make prefix=/«PKGBUILDDIR»/debian/r-base-core/usr \ infodir=/«PKGBUILDDIR»/debian/r-base-core/usr/share/info install-info make[1]: Entering directory `/«PKGBUILDDIR»' make[2]: Entering directory `/«PKGBUILDDIR»/doc/manual' /usr/bin/makeinfo --enable-encoding -D UseExternalXrefs -I. R-FAQ.texi /usr/bin/makeinfo --enable-encoding -D UseExternalXrefs -I. R-admin.texi /usr/bin/makeinfo --enable-encoding -D UseExternalXrefs -I. R-data.texi /usr/bin/makeinfo --enable-encoding -D UseExternalXrefs -I. R-exts.texi /usr/bin/makeinfo --enable-encoding -D UseExternalXrefs -I. R-intro.texi /usr/bin/makeinfo --enable-encoding -D UseExternalXrefs -I. R-ints.texi /usr/bin/makeinfo --enable-encoding -D UseExternalXrefs -I. R-lang.texi mkdir -p -- /«PKGBUILDDIR»/debian/r-base-core/usr/share/info /usr/bin/install -c -m 644 "./dir" "/«PKGBUILDDIR»/debian/r-base-core/usr/share/info" installing R info pages ... updating '/«PKGBUILDDIR»/debian/r-base-core/usr/share/info/dir' ... install-info: warning: don't call programs like install-info with an absolute path, install-info: warning: /usr/sbin/install-info provided by dpkg is deprecated and will go away soon; install-info: warning: its replacement lives in /usr/bin/. install-info: warning: nothing done since /usr/bin/install-info doesn't exist, install-info: warning: you might want to install an info-browser package. install-info: warning: don't call programs like install-info with an absolute path, install-info: warning: /usr/sbin/install-info provided by dpkg is deprecated and will go away soon; install-info: warning: its replacement lives in /usr/bin/. install-info: warning: nothing done since /usr/bin/install-info doesn't exist, install-info: warning: you might want to install an info-browser package. install-info: warning: don't call programs like install-info with an absolute path, install-info: warning: /usr/sbin/install-info provided by dpkg is deprecated and will go away soon; install-info: warning: its replacement lives in /usr/bin/. install-info: warning: nothing done since /usr/bin/install-info doesn't exist, install-info: warning: you might want to install an info-browser package. install-info: warning: don't call programs like install-info with an absolute path, install-info: warning: /usr/sbin/install-info provided by dpkg is deprecated and will go away soon; install-info: warning: its replacement lives in /usr/bin/. install-info: warning: nothing done since /usr/bin/install-info doesn't exist, install-info: warning: you might want to install an info-browser package. install-info: warning: don't call programs like install-info with an absolute path, install-info: warning: /usr/sbin/install-info provided by dpkg is deprecated and will go away soon; install-info: warning: its replacement lives in /usr/bin/. install-info: warning: nothing done since /usr/bin/install-info doesn't exist, install-info: warning: you might want to install an info-browser package. install-info: warning: don't call programs like install-info with an absolute path, install-info: warning: /usr/sbin/install-info provided by dpkg is deprecated and will go away soon; install-info: warning: its replacement lives in /usr/bin/. install-info: warning: nothing done since /usr/bin/install-info doesn't exist, install-info: warning: you might want to install an info-browser package. install-info: warning: don't call programs like install-info with an absolute path, install-info: warning: /usr/sbin/install-info provided by dpkg is deprecated and will go away soon; install-info: warning: its replacement lives in /usr/bin/. install-info: warning: nothing done since /usr/bin/install-info doesn't exist, install-info: warning: you might want to install an info-browser package. make[2]: Leaving directory `/«PKGBUILDDIR»/doc/manual' make[1]: Leaving directory `/«PKGBUILDDIR»' dh_movefiles --sourcedir=debian/r-base-core -pr-doc-pdf dh_movefiles --sourcedir=debian/r-base-core -pr-doc-html touch install-indep-stamp gunzip -9v /«PKGBUILDDIR»/debian/r-base-core/usr/share/info/*.gz /«PKGBUILDDIR»/debian/r-base-core/usr/share/info/R-FAQ.info.gz: 66.9% -- replaced with /«PKGBUILDDIR»/debian/r-base-core/usr/share/info/R-FAQ.info /«PKGBUILDDIR»/debian/r-base-core/usr/share/info/R-admin.info.gz: 68.2% -- replaced with /«PKGBUILDDIR»/debian/r-base-core/usr/share/info/R-admin.info /«PKGBUILDDIR»/debian/r-base-core/usr/share/info/R-data.info.gz: 70.3% -- replaced with /«PKGBUILDDIR»/debian/r-base-core/usr/share/info/R-data.info /«PKGBUILDDIR»/debian/r-base-core/usr/share/info/R-exts.info-1.gz: 66.8% -- replaced with /«PKGBUILDDIR»/debian/r-base-core/usr/share/info/R-exts.info-1 /«PKGBUILDDIR»/debian/r-base-core/usr/share/info/R-exts.info-2.gz: 71.8% -- replaced with /«PKGBUILDDIR»/debian/r-base-core/usr/share/info/R-exts.info-2 /«PKGBUILDDIR»/debian/r-base-core/usr/share/info/R-exts.info.gz: 65.3% -- replaced with /«PKGBUILDDIR»/debian/r-base-core/usr/share/info/R-exts.info /«PKGBUILDDIR»/debian/r-base-core/usr/share/info/R-intro.info.gz: 70.0% -- replaced with /«PKGBUILDDIR»/debian/r-base-core/usr/share/info/R-intro.info /«PKGBUILDDIR»/debian/r-base-core/usr/share/info/R-ints.info.gz: 67.4% -- replaced with /«PKGBUILDDIR»/debian/r-base-core/usr/share/info/R-ints.info /«PKGBUILDDIR»/debian/r-base-core/usr/share/info/R-lang.info.gz: 71.2% -- replaced with /«PKGBUILDDIR»/debian/r-base-core/usr/share/info/R-lang.info dh_movefiles --sourcedir=debian/r-base-core -pr-doc-info rm -vf /«PKGBUILDDIR»/debian/r-doc-info/usr/share/info/dir \ /«PKGBUILDDIR»/debian/r-doc-info/usr/share/info/dir.old removed `/«PKGBUILDDIR»/debian/r-doc-info/usr/share/info/dir' dh_installdirs -pr-mathlib usr/include usr/lib \ usr/share/lintian/overrides \ usr/lib/pkgconfig dh_movefiles --sourcedir=debian/r-base-core -pr-mathlib (cd /«PKGBUILDDIR»/debian/r-mathlib/usr/lib; \ ls -l ; \ mv -v libRmath.so libRmath.so.1.0.0; \ ln -sv libRmath.so.1.0.0 libRmath.so.1; \ ln -sv libRmath.so.1 libRmath.so) total 1504 -rw-rw-r-- 1 root root 966788 Jul 30 21:40 libRmath.a -rwxrwxr-x 1 root root 557007 Jul 30 21:40 libRmath.so drwxr-xr-x 2 root root 4096 Jul 30 21:58 pkgconfig `libRmath.so' -> `libRmath.so.1.0.0' `libRmath.so.1' -> `libRmath.so.1.0.0' `libRmath.so' -> `libRmath.so.1' install -m 0644 src/include/Rmath.h \ /«PKGBUILDDIR»/debian/r-mathlib/usr/include install -m 0644 debian/Rprofile.site /«PKGBUILDDIR»/debian/r-base-core/etc/R install -m 0644 debian/Renviron.site /«PKGBUILDDIR»/debian/r-base-core/etc/R (cd /«PKGBUILDDIR»/debian/r-base-core/usr/lib/R/etc; \ cat /«PKGBUILDDIR»/debian/Renviron-R_LIBS.patch | patch --verbose; \ mv Makeconf repositories ldpaths ../../../../etc/R/; \ mv Renviron Renviron.ucf; \ ln -s /etc/R/Makeconf .; \ ln -s /etc/R/Renviron .; \ ln -s /etc/R/Renviron.site .; \ ln -s /etc/R/Rprofile.site .; \ ln -s /etc/R/ldpaths .; \ ln -s /etc/R/repositories . ) Hmm... Looks like a unified diff to me... The text leading up to this was: -------------------------- |--- Renviron.orig 2003-04-04 06:52:22.000000000 -0500 |+++ Renviron 2003-04-04 06:49:05.000000000 -0500 -------------------------- Patching file Renviron using Plan A... Hunk #1 succeeded at 43 with fuzz 2 (offset 10 lines). done (cd /«PKGBUILDDIR»/debian/r-base-core/usr/lib/R/bin; \ cat /«PKGBUILDDIR»/debian/javareconf.patch | patch --verbose ) Hmm... Looks like a unified diff to me... The text leading up to this was: -------------------------- |--- javareconf.orig 2008-08-25 06:26:13.000000000 -0500 |+++ javareconf 2008-08-25 06:30:49.000000000 -0500 -------------------------- Patching file javareconf using Plan A... Hunk #1 succeeded at 359 with fuzz 2 (offset 67 lines). done install -m 0644 debian/R.bash_completion \ debian/r-base-core/etc/bash_completion.d/R (cd /«PKGBUILDDIR»/debian/r-base-core/usr/lib/; \ ln -sv R/lib/libR.so . ) `./libR.so' -> `R/lib/libR.so' # edd 21 Jun 2012 add icon and desktop file from Philip Johnson's patch (cd debian/icon-class-patch && munpack rlogo_icon.png.mpack) rlogo_icon.png (application/octet-stream) install -m 0644 debian/icon-class-patch/rlogo_icon.png \ debian/r-base-core/usr/share/icons/hicolor/48x48/apps install -m 0644 debian/icon-class-patch/R.desktop \ debian/r-base-core/usr/share/applications rm debian/icon-class-patch/rlogo_icon.png touch install-arch-stamp *** binary-arch *** dh_testdir -a dh_testroot -a dh_installdocs -pr-base-core NEWS ONEWS OONEWS README \ debian/README.Atlas \ debian/README.mathlib dh_installdocs -pr-mathlib NEWS ONEWS OONEWS README \ debian/README.mathlib dh_installdocs -pr-base-core-dbg dh_installexamples -pr-mathlib src/nmath/standalone/test.c dh_installmenu -a # (cd /«PKGBUILDDIR»/debian/r-base-core/usr/share/doc/r-base-core && ln -s ../../../lib/R/doc .) (cd /«PKGBUILDDIR»/debian/r-base-core/usr/share/doc/r-base-core && ln -s ../../R/doc .) (cd /«PKGBUILDDIR»/debian/r-base-core/usr/share/doc/r-base-core && ln -s ../../../lib/R/library .) install -p -m 0644 debian/r-base-core.lintian \ /«PKGBUILDDIR»/debian/r-base-core/usr/share/lintian/overrides/r-base-core install -p -m 0644 debian/r-recommended.lintian \ /«PKGBUILDDIR»/debian/r-recommended/usr/share/lintian/overrides/r-recommended install -p -m 0644 debian/r-mathlib.lintian \ /«PKGBUILDDIR»/debian/r-mathlib/usr/share/lintian/overrides/r-mathlib install -p -m 0644 debian/r-base-core-dbg.lintian \ /«PKGBUILDDIR»/debian/r-base-core-dbg/usr/share/lintian/overrides/r-base-core-dbg dh_installchangelogs -a -k NEWS dh_strip --sourcedir=/«PKGBUILDDIR»/debian/r-base-core --dbg-package=r-base-core-dbg Unknown option: sourcedir dh_strip --sourcedir=/«PKGBUILDDIR»/debian/r-mathlib Unknown option: sourcedir dh_compress -a dh_fixperms -a dh_link -a dh_makeshlibs -a dh_installdeb -a dh_perl -a dh_shlibdeps -a -l /«PKGBUILDDIR»/debian/r-base-core/usr/lib/R/lib dpkg-shlibdeps: warning: Can't extract name and version from library name `libR.so' dpkg-shlibdeps: warning: Can't extract name and version from library name `libR.so' dpkg-shlibdeps: warning: Can't extract name and version from library name `libR.so' dpkg-shlibdeps: warning: Can't extract name and version from library name `libR.so' dpkg-shlibdeps: warning: Can't extract name and version from library name `libR.so' dpkg-shlibdeps: warning: Can't extract name and version from library name `libR.so' dpkg-shlibdeps: warning: Can't extract name and version from library name `libR.so' dpkg-shlibdeps: warning: Can't extract name and version from library name `libR.so' dpkg-shlibdeps: warning: Can't extract name and version from library name `libR.so' dpkg-shlibdeps: warning: Can't extract name and version from library name `libR.so' dpkg-shlibdeps: warning: Can't extract name and version from library name `libR.so' dpkg-shlibdeps: warning: Can't extract name and version from library name `libR.so' dpkg-shlibdeps: warning: Can't extract name and version from library name `libR.so' dpkg-shlibdeps: warning: Can't extract name and version from library name `libR.so' dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/r-base-core/usr/lib/R/library/tcltk/libs/tcltk.so was not linked against libXss.so.1 (it uses none of the library's symbols). dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/r-base-core/usr/lib/R/library/tcltk/libs/tcltk.so was not linked against libXext.so.6 (it uses none of the library's symbols). dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/r-base-core/usr/lib/R/modules/R_X11.so was not linked against libICE.so.6 (it uses none of the library's symbols). dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/r-base-core/usr/lib/R/library/grDevices/libs/cairo.so debian/r-base-core/usr/lib/R/modules/R_X11.so were not linked against libglib-2.0.so.0 (they use none of the library's symbols). dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/r-base-core/usr/lib/R/modules/R_X11.so was not linked against libSM.so.6 (it uses none of the library's symbols). dpkg-shlibdeps: warning: symbol fmod used by debian/r-mathlib/usr/lib/libRmath.so.1.0.0 found in none of the libraries. dpkg-shlibdeps: warning: symbol trunc used by debian/r-mathlib/usr/lib/libRmath.so.1.0.0 found in none of the libraries. dpkg-shlibdeps: warning: symbol sincos used by debian/r-mathlib/usr/lib/libRmath.so.1.0.0 found in none of the libraries. dpkg-shlibdeps: warning: symbol sinh used by debian/r-mathlib/usr/lib/libRmath.so.1.0.0 found in none of the libraries. dpkg-shlibdeps: warning: symbol floor used by debian/r-mathlib/usr/lib/libRmath.so.1.0.0 found in none of the libraries. dpkg-shlibdeps: warning: symbol log10 used by debian/r-mathlib/usr/lib/libRmath.so.1.0.0 found in none of the libraries. dpkg-shlibdeps: warning: symbol pow used by debian/r-mathlib/usr/lib/libRmath.so.1.0.0 found in none of the libraries. dpkg-shlibdeps: warning: symbol expm1 used by debian/r-mathlib/usr/lib/libRmath.so.1.0.0 found in none of the libraries. dpkg-shlibdeps: warning: symbol exp used by debian/r-mathlib/usr/lib/libRmath.so.1.0.0 found in none of the libraries. dpkg-shlibdeps: warning: symbol lgamma used by debian/r-mathlib/usr/lib/libRmath.so.1.0.0 found in none of the libraries. dpkg-shlibdeps: warning: 9 other similar warnings have been skipped (use -v to see them all). dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/r-mathlib/usr/lib/libRmath.so.1.0.0 was not linked against libgomp.so.1 (it uses none of the library's symbols). dh_gencontrol -a dpkg-gencontrol: warning: Depends field of package r-base-core: unknown substitution variable ${perl:Depends} dpkg-gencontrol: warning: File::FcntlLock not available; using flock which is not NFS-safe dpkg-gencontrol: warning: File::FcntlLock not available; using flock which is not NFS-safe dpkg-gencontrol: warning: File::FcntlLock not available; using flock which is not NFS-safe dh_md5sums -a -X'usr/bin/R' -X'usr/bin/Rscript' \ -X'usr/lib/debug/usr/bin/Rscript' \ -X'usr/lib/R/bin/Rscript' \ -X'usr/lib/R/etc/Renviron.ucf' \ -XLibIndex -Xindex.txt \ -Xfunction.html -Xpackages.html dh_builddeb -a dpkg-deb: building package `r-base-core' in `../r-base-core_2.15.1-4_armhf.deb'. dpkg-deb: building package `r-mathlib' in `../r-mathlib_2.15.1-4_armhf.deb'. dpkg-deb: building package `r-base-core-dbg' in `../r-base-core-dbg_2.15.1-4_armhf.deb'. dpkg-genchanges -B -mbuildd >../r-base_2.15.1-4_armhf.changes dpkg-genchanges: arch-specific upload - not including arch-independent packages dpkg-genchanges: binary-only upload - not including any source code dpkg-source --after-build r-base-2.15.1 dpkg-buildpackage: binary only upload (no source included) ──────────────────────────────────────────────────────────────────────────────── Build finished at 20120730-1500 Finished ──────── I: Built successfully ┌──────────────────────────────────────────────────────────────────────────────┐ │ Changes │ └──────────────────────────────────────────────────────────────────────────────┘ r-base_2.15.1-4_armhf.changes: ────────────────────────────── Format: 1.8 Date: Sun, 15 Jul 2012 17:56:35 -0500 Source: r-base Binary: r-base r-base-core r-base-dev r-mathlib r-base-html r-doc-pdf r-doc-html r-doc-info r-recommended r-base-core-dbg Architecture: armhf Version: 2.15.1-4 Distribution: wheezy-staging Urgency: low Maintainer: buildd Changed-By: Dirk Eddelbuettel Description: r-base - GNU R statistical computation and graphics system r-base-core - GNU R core of statistical computation and graphics system r-base-core-dbg - GNU R debug symbols for statistical comp. language and environmen r-base-dev - GNU R installation of auxiliary GNU R packages r-base-html - GNU R html docs for statistical computing system functions r-doc-html - GNU R html manuals for statistical computing system r-doc-info - GNU R info manuals statistical computing system r-doc-pdf - GNU R pdf manuals for statistical computing system r-mathlib - GNU R standalone mathematics library r-recommended - GNU R collection of recommended packages [metapackage] Closes: 679180 Changes: r-base (2.15.1-4) unstable; urgency=low . * src/library/tools/R/install.R: Pass "perl = TRUE" parameter to sub() really passing it to sub and not to grep (Closes: #679180) Checksums-Sha1: 745b82d8d614dad13d8ec78743ba53762545d8f3 20497256 r-base-core_2.15.1-4_armhf.deb f39ab64f025dae1df71ea12fa96f5639eb848279 598322 r-mathlib_2.15.1-4_armhf.deb 66e1c041141a00dec15bd60e033484ca88e13657 2813004 r-base-core-dbg_2.15.1-4_armhf.deb Checksums-Sha256: 8d98d9c64f57ab27b9878375f599e5d3bec3c5acc4a2c0dd78a88fc46d6f2388 20497256 r-base-core_2.15.1-4_armhf.deb 8edb3e99f9e0f8955d92f9c1bc1af0677e69561c16337d7aa66c0d01d83bd621 598322 r-mathlib_2.15.1-4_armhf.deb 41842ce5c790c12bccbb278608775d9445fc37ff9887a54f9214298616e16519 2813004 r-base-core-dbg_2.15.1-4_armhf.deb Files: 3bf0218c61d6cc9b447c44d32c742fec 20497256 gnu-r optional r-base-core_2.15.1-4_armhf.deb 952de06fe9e6d8f629c08ffbde078b36 598322 gnu-r optional r-mathlib_2.15.1-4_armhf.deb d718acc1c0e20a4158dd7cec1bf22ee9 2813004 debug extra r-base-core-dbg_2.15.1-4_armhf.deb ┌──────────────────────────────────────────────────────────────────────────────┐ │ Package contents │ └──────────────────────────────────────────────────────────────────────────────┘ r-base-core_2.15.1-4_armhf.deb ────────────────────────────── new debian package, version 2.0. size 20497256 bytes: control archive=26979 bytes. 118 bytes, 6 lines conffiles 2737 bytes, 44 lines control 68513 bytes, 880 lines md5sums 2453 bytes, 73 lines * postinst #!/bin/sh 160 bytes, 5 lines * postrm #!/bin/sh 667 bytes, 34 lines * preinst #!/bin/sh 689 bytes, 26 lines * prerm #!/bin/sh 30 bytes, 1 lines shlibs Package: r-base-core Source: r-base Version: 2.15.1-4 Architecture: armhf Maintainer: Dirk Eddelbuettel Installed-Size: 30258 Depends: zip, unzip, libpaper-utils, xdg-utils, libblas3 | libblas.so.3 | libatlas3-base, libbz2-1.0, libc6 (>= 2.13-28), libcairo2 (>= 1.6.0), libgcc1 (>= 1:4.4.0), libgfortran3 (>= 4.3), libglib2.0-0 (>= 2.12.0), libgomp1 (>= 4.2.1), libice6 (>= 1:1.0.0), libjpeg8 (>= 8c), liblapack3 | liblapack.so.3 | libatlas3-base, liblzma5 (>= 5.1.1alpha+20120614), libpango1.0-0 (>= 1.14.0), libpcre3 (>= 8.10), libpng12-0 (>= 1.2.13-4), libreadline6 (>= 6.0), libsm6, libtiff4 (>> 3.9.5-3~), libx11-6, libxext6, libxss1, libxt6, tcl8.5 (>= 8.5.0), tk8.5 (>= 8.5.0), zlib1g (>= 1:1.1.4), ucf (>= 3.0) Recommends: r-recommended, r-base-dev, r-doc-html Suggests: ess, r-doc-info | r-doc-pdf, r-mathlib, r-base-html Conflicts: r-base-latex, r-cran-rcompgen, r-gnome Replaces: r-base (<= 1.4.1-1), r-base-latex (<= 2.9.2-4), r-cran-rcompgen (<= 0.1-17-1), r-gnome (<= 2.3.1), r-recommended (<< 1.9.0) Provides: r-base-latex, r-cran-rcompgen, r-gnome Section: gnu-r Priority: optional Homepage: http://www.r-project.org/ Description: GNU R core of statistical computation and graphics system R is a system for statistical computation and graphics. It consists of a language plus a run-time environment with graphics, a debugger, access to certain system functions, and the ability to run programs stored in script files. . The design of R has been heavily influenced by two existing languages: Becker, Chambers & Wilks' S and Sussman's Scheme. Whereas the resulting language is very similar in appearance to S, the underlying implementation and semantics are derived from Scheme. . The core of R is an interpreted computer language which allows branching and looping as well as modular programming using functions. Most of the user-visible functions in R are written in R. It is possible for the user to interface to procedures written in the C, C++, or FORTRAN languages for efficiency, and many of R's core functions do so. The R distribution contains functionality for a large number of statistical procedures and underlying applied math computations. There is also a large set of functions which provide a flexible graphical environment for creating various kinds of data presentations. . Additionally, over two thousand extension "packages" are available from CRAN, the Comprehensive R Archive Network, many also as Debian packages, named 'r-cran-'. . This package provides the core GNU R system from which only the optional documentation packages r-base-html, r-doc-html, r-doc-pdf and r-doc-info have been split off to somewhat reduce the size of this package. drwxr-xr-x root/root 0 2012-07-30 14:59 ./ drwxr-xr-x root/root 0 2012-07-30 14:40 ./usr/ drwxr-xr-x root/root 0 2012-07-30 14:58 ./usr/share/ drwxr-xr-x root/root 0 2012-07-30 14:40 ./usr/share/lintian/ drwxr-xr-x root/root 0 2012-07-30 14:58 ./usr/share/lintian/overrides/ -rw-r--r-- root/root 5978 2012-07-30 13:35 ./usr/share/lintian/overrides/r-base-core drwxr-xr-x root/root 0 2012-07-30 14:40 ./usr/share/man/ drwxr-xr-x root/root 0 2012-07-30 14:59 ./usr/share/man/man1/ -rw-r--r-- root/root 657 2012-07-30 14:40 ./usr/share/man/man1/Rscript.1.gz -rw-r--r-- root/root 2526 2012-07-30 14:40 ./usr/share/man/man1/R.1.gz drwxr-xr-x root/root 0 2012-07-30 14:40 ./usr/share/doc/ drwxr-xr-x root/root 0 2012-07-30 14:59 ./usr/share/doc/r-base-core/ -rw-r--r-- root/root 154390 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r-mathlib Source: r-base Version: 2.15.1-4 Architecture: armhf Maintainer: Dirk Eddelbuettel Installed-Size: 908 Depends: libc6 (>= 2.13-28), libgomp1 (>= 4.2.1) Recommends: r-base-core (= 2.15.1-4), r-base-dev (= 2.15.1-4) Section: gnu-r Priority: optional Homepage: http://www.r-project.org/ Description: GNU R standalone mathematics library R is a system for statistical computation and graphics. It consists of a language plus a run-time environment with graphics, a debugger, access to certain system functions, and the ability to run programs stored in script files. . The design of R has been heavily influenced by two existing languages: Becker, Chambers & Wilks' S and Sussman's Scheme. Whereas the resulting language is very similar in appearance to S, the underlying implementation and semantics are derived from Scheme. . The core of R is an interpreted computer language which allows branching and looping as well as modular programming using functions. Most of the user-visible functions in R are written in R. It is possible for the user to interface to procedures written in the C, C++, or FORTRAN languages for efficiency, and many of R's core functions do so. The R distribution contains functionality for a large number of statistical procedures and underlying applied math computations. There is also a large set of functions which provide a flexible graphical environment for creating various kinds of data presentations. . Additionally, over thousand extension "packages" are available from CRAN, the Comprehensive R Archive Network, many also as Debian packages, named 'r-cran-'. . 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It consists of a language plus a run-time environment with graphics, a debugger, access to certain system functions, and the ability to run programs stored in script files. . The design of R has been heavily influenced by two existing languages: Becker, Chambers & Wilks' S and Sussman's Scheme. Whereas the resulting language is very similar in appearance to S, the underlying implementation and semantics are derived from Scheme. . The core of R is an interpreted computer language which allows branching and looping as well as modular programming using functions. Most of the user-visible functions in R are written in R. It is possible for the user to interface to procedures written in the C, C++, or FORTRAN languages for efficiency, and many of R's core functions do so. The R distribution contains functionality for a large number of statistical procedures and underlying applied math computations. There is also a large set of functions which provide a flexible graphical environment for creating various kinds of data presentations. . Additionally, over thousand extension "packages" are available from CRAN, the Comprehensive R Archive Network, many also as Debian packages, named 'r-cran-'. . 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┌──────────────────────────────────────────────────────────────────────────────┐ │ Cleanup │ └──────────────────────────────────────────────────────────────────────────────┘ Purging /«BUILDDIR» Reading package lists... Building dependency tree... Reading state information... 0 upgraded, 0 newly installed, 0 to remove and 2 not upgraded. Reading package lists... Building dependency tree... Reading state information... The following packages will be REMOVED: bison* bsdmainutils* ca-certificates* ca-certificates-java* debhelper* ed* file* fontconfig* fontconfig-config* fonts-comfortaa* fonts-droid* fonts-freefont-otf* fonts-freefont-ttf* fonts-gfs-artemisia* fonts-gfs-complutum* fonts-gfs-didot* fonts-gfs-neohellenic* fonts-gfs-olga* fonts-gfs-solomos* fonts-inconsolata* fonts-junicode* fonts-linuxlibertine* fonts-oflb-asana-math* fonts-sil-gentium* fonts-sil-gentium-basic* fonts-stix* gettext* gettext-base* gfortran* gfortran-4.6* gir1.2-freedesktop* gir1.2-glib-2.0* gir1.2-pango-1.0* groff-base* html2text* intltool-debian* java-common* libasound2* libasprintf0c2* libasyncns0* libatk-wrapper-java* libatk-wrapper-java-jni* libatk1.0-0* libatk1.0-data* libaudit0* libavahi-client3* libavahi-common-data* libavahi-common3* libbison-dev* libblas-dev* libblas3* libbz2-dev* libcairo-gobject2* libcairo-script-interpreter2* libcairo2* libcairo2-dev* libcap2* libcroco3* libcups2* libdatrie1* libdbus-1-3* libelf1* libexpat1* libexpat1-dev* libffi5* libflac8* libfontconfig1* libfontconfig1-dev* libfontenc1* libfreetype6* libfreetype6-dev* libgcrypt11* libgdk-pixbuf2.0-0* libgdk-pixbuf2.0-common* libgettextpo0* libgfortran3* libgif4* libgirepository-1.0-1* libglib2.0-0* libglib2.0-bin* libglib2.0-data* libglib2.0-dev* libgnutls26* libgpg-error0* libgraphite3* libgssapi-krb5-2* libgtk2.0-0* libgtk2.0-common* libice-dev* libice6* libjasper1* libjbig-dev* libjbig0* libjpeg8* libjpeg8-dev* libjson0* libk5crypto3* libkeyutils1* libkpathsea6* libkrb5-3* libkrb5support0* liblapack-dev* liblapack3* liblcms1* liblzma-dev* libmagic1* libncurses5-dev* libncursesw5* libnspr4* libnss3* libnss3-1d* libogg0* libopenjpeg2* libp11-kit0* libpango1.0-0* libpango1.0-dev* libpaper-utils* libpaper1* libpcre3* libpcre3-dev* libpcrecpp0* libpcsclite1* libpipeline1* libpixman-1-0* libpixman-1-dev* libpng12-0* libpng12-dev* libpoppler19* libpopt0* libptexenc1* libpthread-stubs0* libpthread-stubs0-dev* libpulse0* libreadline-dev* libreadline6-dev* libsm-dev* libsm6* libsndfile1* libsqlite3-0* libssl1.0.0* libtasn1-3* libthai-data* libthai0* libtiff4* libtiff4-dev* libtiffxx0c2* libtinfo-dev* libunistring0* libvorbis0a* libvorbisenc2* libwrap0* libx11-6* libx11-data* libx11-dev* libx11-xcb1* libxau-dev* libxau6* libxaw7* libxcb-render0* libxcb-render0-dev* libxcb-shm0* libxcb-shm0-dev* libxcb1* libxcb1-dev* libxcomposite1* libxcursor1* libxdamage1* libxdmcp-dev* libxdmcp6* libxext-dev* libxext6* libxfixes3* libxfont1* libxft-dev* libxft2* libxi6* libxinerama1* libxkbfile1* libxml2* libxmu6* libxmuu1* libxpm4* libxrandr2* libxrender-dev* libxrender1* libxss-dev* libxss1* libxt-dev* libxt6* libxtst6* luatex* m4* man-db* mime-support* mpack* openjdk-6-jdk* openjdk-6-jre* openjdk-6-jre-headless* openjdk-6-jre-lib* openssl* otf-freefont* pkg-config* po-debconf* preview-latex-style* python* python-minimal* python2.7* python2.7-minimal* sbuild-build-depends-core-dummy* sbuild-build-depends-r-base-dummy* shared-mime-info* tcl8.5* tcl8.5-dev* tex-common* texi2html* texinfo* texlive-base* texlive-binaries* texlive-common* texlive-doc-base* texlive-extra-utils* texlive-fonts-extra* texlive-fonts-recommended* texlive-generic-recommended* texlive-latex-base* texlive-latex-extra* texlive-latex-recommended* texlive-pictures* tk8.5* tk8.5-dev* ttf-dejavu-core* ttf-dejavu-extra* ttf-freefont* ttf-marvosym* tzdata-java* x11-common* x11-xkb-utils* x11proto-core-dev* x11proto-input-dev* x11proto-kb-dev* x11proto-render-dev* x11proto-scrnsaver-dev* x11proto-xext-dev* xauth* xdg-utils* xfonts-base* xfonts-encodings* xfonts-utils* xkb-data* xorg-sgml-doctools* xserver-common* xtrans-dev* xvfb* zlib1g-dev* 0 upgraded, 0 newly installed, 254 to remove and 2 not upgraded. After this operation, 1006 MB disk space will be freed. (Reading database ... 56213 files and directories currently installed.) Removing sbuild-build-depends-r-base-dummy ... Removing bison ... Removing debhelper ... Removing man-db ... Purging configuration files for man-db ... Removing bsdmainutils ... Purging configuration files for bsdmainutils ... Removing openjdk-6-jdk:armhf ... Removing openjdk-6-jre:armhf ... Removing texlive-latex-extra ... Purging configuration files for texlive-latex-extra ... Removing texlive-pictures ... Purging configuration files for texlive-pictures ... Removing texlive-latex-recommended ... Purging configuration files for texlive-latex-recommended ... Removing texlive-latex-base ... Purging configuration files for texlive-latex-base ... Removing texlive-extra-utils ... Purging configuration files for texlive-extra-utils ... Removing texlive-generic-recommended ... Purging configuration files for texlive-generic-recommended ... Removing texlive-fonts-recommended ... Purging configuration files for texlive-fonts-recommended ... Removing texlive-fonts-extra ... Purging configuration files for texlive-fonts-extra ... Removing texlive-base ... Purging configuration files for texlive-base ... Removing texlive-binaries ... Removing ed ... Removing file ... Removing libpango1.0-dev ... Removing libatk-wrapper-java-jni:armhf ... Purging configuration files for libatk-wrapper-java-jni:armhf ... Removing libgtk2.0-0:armhf ... Purging configuration files for libgtk2.0-0:armhf ... Removing gir1.2-pango-1.0 ... Removing libpango1.0-0:armhf ... Purging configuration files for libpango1.0-0:armhf ... Removing fontconfig ... Purging configuration files for fontconfig ... Removing tk8.5-dev ... Removing tk8.5 ... Purging configuration files for tk8.5 ... Removing libxft-dev ... Removing libxft2:armhf ... Purging configuration files for libxft2:armhf ... Removing luatex ... Purging configuration files for luatex ... Removing libpoppler19:armhf ... Purging configuration files for libpoppler19:armhf ... Removing libcairo2-dev ... Removing libfontconfig1-dev ... Removing libcairo-script-interpreter2:armhf ... Purging configuration files for libcairo-script-interpreter2:armhf ... Removing gir1.2-freedesktop ... Removing libcairo-gobject2:armhf ... Purging configuration files for libcairo-gobject2:armhf ... Removing libcairo2:armhf ... Purging configuration files for libcairo2:armhf ... Removing libfontconfig1:armhf ... Purging configuration files for libfontconfig1:armhf ... Removing fontconfig-config ... Purging configuration files for fontconfig-config ... Removing fonts-comfortaa ... Removing fonts-droid ... Purging configuration files for fonts-droid ... Removing otf-freefont ... Removing fonts-freefont-otf ... Removing ttf-freefont ... Removing fonts-freefont-ttf ... Removing fonts-gfs-artemisia ... Removing fonts-gfs-complutum ... Removing fonts-gfs-didot ... Removing fonts-gfs-neohellenic ... Removing fonts-gfs-olga ... Removing fonts-gfs-solomos ... Removing fonts-inconsolata ... Removing fonts-junicode ... Purging configuration files for fonts-junicode ... Removing fonts-linuxlibertine ... Purging configuration files for fonts-linuxlibertine ... Removing fonts-oflb-asana-math ... Removing fonts-sil-gentium ... Removing fonts-sil-gentium-basic ... Removing fonts-stix ... Removing po-debconf ... Removing intltool-debian ... Removing gettext ... Removing gettext-base ... Removing gfortran ... Removing gfortran-4.6 ... Removing gir1.2-glib-2.0 ... Removing groff-base ... Purging configuration files for groff-base ... Removing html2text ... Purging configuration files for html2text ... Removing libasound2:armhf ... Purging configuration files for libasound2:armhf ... Removing libasprintf0c2:armhf ... Removing libpulse0:armhf ... Purging configuration files for libpulse0:armhf ... Removing libasyncns0:armhf ... Purging configuration files for libasyncns0:armhf ... Removing libatk-wrapper-java ... Removing libatk1.0-0:armhf ... Purging configuration files for libatk1.0-0:armhf ... Removing libatk1.0-data ... Removing xvfb ... Removing libaudit0 ... Purging configuration files for libaudit0 ... Removing libbison-dev:armhf ... Removing liblapack-dev ... Removing libblas-dev ... Removing liblapack3 ... Purging configuration files for liblapack3 ... Removing libblas3 ... Removing libbz2-dev:armhf ... Removing libcap2 ... Purging configuration files for libcap2 ... Removing libcroco3:armhf ... Purging configuration files for libcroco3:armhf ... Removing libthai0:armhf ... Purging configuration files for libthai0:armhf ... Removing libdatrie1:armhf ... Purging configuration files for libdatrie1:armhf ... Removing libglib2.0-dev ... Removing libglib2.0-bin ... Purging configuration files for libglib2.0-bin ... Removing libelf1 ... Purging configuration files for libelf1 ... Removing python ... Purging configuration files for python ... Removing python2.7 ... Purging configuration files for python2.7 ... Removing libexpat1-dev ... Removing libexpat1:armhf ... Purging configuration files for libexpat1:armhf ... Removing shared-mime-info ... Purging configuration files for shared-mime-info ... Removing pkg-config ... Removing libgirepository-1.0-1 ... Purging configuration files for libgirepository-1.0-1 ... Removing libgdk-pixbuf2.0-0:armhf ... Purging configuration files for libgdk-pixbuf2.0-0:armhf ... Removing libglib2.0-0:armhf ... Purging configuration files for libglib2.0-0:armhf ... Removing libffi5:armhf ... Purging configuration files for libffi5:armhf ... Removing libsndfile1:armhf ... Purging configuration files for libsndfile1:armhf ... Removing libflac8:armhf ... Purging configuration files for libflac8:armhf ... Removing xfonts-base ... Purging configuration files for xfonts-base ... warning: /usr/share/fonts/X11/misc does not exist or is not a directory warning: /usr/share/fonts/X11/misc does not exist or is not a directory Removing xfonts-utils ... Purging configuration files for xfonts-utils ... Removing libxfont1 ... Purging configuration files for libxfont1 ... Removing libfontenc1:armhf ... Purging configuration files for libfontenc1:armhf ... Removing libfreetype6-dev ... Removing libgdk-pixbuf2.0-common ... Removing libgettextpo0:armhf ... Removing libgfortran3:armhf ... Purging configuration files for libgfortran3:armhf ... Removing libgif4 ... Purging configuration files for libgif4 ... Removing libglib2.0-data ... Removing libgraphite3 ... Purging configuration files for libgraphite3 ... Removing libgtk2.0-common ... Purging configuration files for libgtk2.0-common ... Removing libxt-dev:armhf ... Removing libsm-dev:armhf ... Removing libice-dev:armhf ... Removing xserver-common ... Removing x11-xkb-utils ... Removing libxaw7:armhf ... Purging configuration files for libxaw7:armhf ... Removing libxmu6:armhf ... Purging configuration files for libxmu6:armhf ... Removing libxt6:armhf ... Purging configuration files for libxt6:armhf ... Removing libsm6:armhf ... Purging configuration files for libsm6:armhf ... Removing libice6:armhf ... Purging configuration files for libice6:armhf ... Removing libjasper1:armhf ... Purging configuration files for libjasper1:armhf ... Removing libtiff4-dev ... Removing libjbig-dev:armhf ... Removing libtiffxx0c2:armhf ... Purging configuration files for libtiffxx0c2:armhf ... Removing libtiff4:armhf ... Purging configuration files for libtiff4:armhf ... Removing libjbig0:armhf ... Purging configuration files for libjbig0:armhf ... Removing libjpeg8-dev:armhf ... Removing libjson0:armhf ... Purging configuration files for libjson0:armhf ... Removing libptexenc1 ... Purging configuration files for libptexenc1 ... Removing libkpathsea6 ... Purging configuration files for libkpathsea6 ... Removing liblcms1:armhf ... Purging configuration files for liblcms1:armhf ... Removing liblzma-dev:armhf ... Removing libmagic1:armhf ... Purging configuration files for libmagic1:armhf ... Removing libncurses5-dev ... Removing libncursesw5:armhf ... Purging configuration files for libncursesw5:armhf ... Removing libvorbisenc2:armhf ... Purging configuration files for libvorbisenc2:armhf ... Removing libvorbis0a:armhf ... Purging configuration files for libvorbis0a:armhf ... Removing libogg0:armhf ... Purging configuration files for libogg0:armhf ... Removing libopenjpeg2 ... Purging configuration files for libopenjpeg2 ... Removing libpaper-utils ... Removing libpaper1:armhf ... Purging configuration files for libpaper1:armhf ... Removing libpcre3-dev ... Removing libpcrecpp0:armhf ... Purging configuration files for libpcrecpp0:armhf ... Removing libpcre3:armhf ... Purging configuration files for libpcre3:armhf ... Removing libpipeline1:armhf ... Purging configuration files for libpipeline1:armhf ... Removing libpixman-1-dev ... Removing libpixman-1-0:armhf ... Purging configuration files for libpixman-1-0:armhf ... Removing libpng12-dev ... Removing libpng12-0:armhf ... Purging configuration files for libpng12-0:armhf ... Removing libpopt0:armhf ... Purging configuration files for libpopt0:armhf ... Removing libxcb-shm0-dev:armhf ... Removing libxcb-render0-dev:armhf ... Removing libxss-dev:armhf ... Removing libxrender-dev:armhf ... Removing libxext-dev:armhf ... Removing libx11-dev:armhf ... Removing libxcb1-dev:armhf ... Removing libpthread-stubs0-dev:armhf ... Removing libpthread-stubs0:armhf ... Removing libreadline-dev:armhf ... Removing libreadline6-dev:armhf ... Removing python-minimal ... Removing python2.7-minimal ... Purging configuration files for python2.7-minimal ... Removing libthai-data ... Removing libtinfo-dev:armhf ... Removing libunistring0:armhf ... Purging configuration files for libunistring0:armhf ... Removing libwrap0:armhf ... Purging configuration files for libwrap0:armhf ... Removing xauth ... Removing libxtst6:armhf ... Purging configuration files for libxtst6:armhf ... Removing libxss1:armhf ... Purging configuration files for libxss1:armhf ... Removing libxrandr2:armhf ... Purging configuration files for libxrandr2:armhf ... Removing libxcursor1:armhf ... Purging configuration files for libxcursor1:armhf ... Removing libxrender1:armhf ... Purging configuration files for libxrender1:armhf ... Removing libxpm4:armhf ... Purging configuration files for libxpm4:armhf ... Removing libxmuu1:armhf ... Purging configuration files for libxmuu1:armhf ... Removing libxkbfile1:armhf ... Purging configuration files for libxkbfile1:armhf ... Removing libxinerama1:armhf ... Purging configuration files for libxinerama1:armhf ... Removing libxi6:armhf ... Purging configuration files for libxi6:armhf ... Removing libxfixes3:armhf ... Purging configuration files for libxfixes3:armhf ... Removing libxext6:armhf ... Purging configuration files for libxext6:armhf ... Removing libxdamage1:armhf ... Purging configuration files for libxdamage1:armhf ... Removing libxcomposite1:armhf ... Purging configuration files for libxcomposite1:armhf ... Removing libx11-xcb1:armhf ... Purging configuration files for libx11-xcb1:armhf ... Removing libx11-6:armhf ... Purging configuration files for libx11-6:armhf ... Removing libx11-data ... Removing libxau-dev:armhf ... Removing libxcb-shm0:armhf ... Purging configuration files for libxcb-shm0:armhf ... Removing libxcb-render0:armhf ... Purging configuration files for libxcb-render0:armhf ... Removing libxcb1:armhf ... Purging configuration files for libxcb1:armhf ... Removing libxau6:armhf ... Purging configuration files for libxau6:armhf ... Removing libxdmcp-dev:armhf ... Removing libxdmcp6:armhf ... Purging configuration files for libxdmcp6:armhf ... Removing libxml2:armhf ... Purging configuration files for libxml2:armhf ... Removing m4 ... Removing mime-support ... Purging configuration files for mime-support ... Removing mpack ... Removing preview-latex-style ... Purging configuration files for preview-latex-style ... Removing sbuild-build-depends-core-dummy ... Removing tcl8.5-dev ... Removing tcl8.5 ... Purging configuration files for tcl8.5 ... Removing texlive-doc-base ... Purging configuration files for texlive-doc-base ... Removing texlive-common ... Removing tex-common ... Purging configuration files for tex-common ... Removing texi2html ... Removing texinfo ... Purging configuration files for texinfo ... Removing ttf-dejavu-extra ... Removing ttf-dejavu-core ... Removing ttf-marvosym ... Removing xfonts-encodings ... Removing x11-common ... All runlevel operations denied by policy invoke-rc.d: policy-rc.d denied execution of stop. Purging configuration files for x11-common ... Removing x11proto-xext-dev ... Removing x11proto-scrnsaver-dev ... Removing x11proto-render-dev ... Removing x11proto-input-dev ... Removing x11proto-core-dev ... Removing x11proto-kb-dev ... Removing xdg-utils ... Removing xkb-data ... Removing xorg-sgml-doctools ... Removing xtrans-dev ... Removing zlib1g-dev:armhf ... Removing openjdk-6-jre-lib ... Removing ca-certificates-java ... Purging configuration files for ca-certificates-java ... Removing openjdk-6-jre-headless:armhf ... Purging configuration files for openjdk-6-jre-headless:armhf ... Removing ca-certificates ... Removing dangling symlinks from /etc/ssl/certs... done. Purging configuration files for ca-certificates ... Removing dangling symlinks from /etc/ssl/certs... done. Removing java-common ... Purging configuration files for java-common ... Removing libcups2:armhf ... Purging configuration files for libcups2:armhf ... Removing libavahi-client3:armhf ... Purging configuration files for libavahi-client3:armhf ... Removing libavahi-common3:armhf ... Purging configuration files for libavahi-common3:armhf ... Removing libavahi-common-data:armhf ... Removing libdbus-1-3:armhf ... Purging configuration files for libdbus-1-3:armhf ... Removing libfreetype6:armhf ... Purging configuration files for libfreetype6:armhf ... Removing libgnutls26:armhf ... Purging configuration files for libgnutls26:armhf ... Removing libgcrypt11:armhf ... Purging configuration files for libgcrypt11:armhf ... Removing libgpg-error0:armhf ... Purging configuration files for libgpg-error0:armhf ... Removing libgssapi-krb5-2:armhf ... Purging configuration files for libgssapi-krb5-2:armhf ... Removing libjpeg8:armhf ... Removing libkrb5-3:armhf ... Purging configuration files for libkrb5-3:armhf ... Removing libk5crypto3:armhf ... Purging configuration files for libk5crypto3:armhf ... Removing libkrb5support0:armhf ... Purging configuration files for libkrb5support0:armhf ... Removing libkeyutils1:armhf ... Purging configuration files for libkeyutils1:armhf ... Removing libnss3-1d:armhf ... Removing libnss3:armhf ... Purging configuration files for libnss3:armhf ... Removing libnspr4:armhf ... Purging configuration files for libnspr4:armhf ... Removing libp11-kit0:armhf ... Purging configuration files for libp11-kit0:armhf ... Removing libpcsclite1:armhf ... Purging configuration files for libpcsclite1:armhf ... Removing libsqlite3-0:armhf ... Purging configuration files for libsqlite3-0:armhf ... Removing openssl ... Purging configuration files for openssl ... Removing libssl1.0.0:armhf ... Purging configuration files for libssl1.0.0:armhf ... Removing libtasn1-3:armhf ... Purging configuration files for libtasn1-3:armhf ... Removing tzdata-java ... ┌──────────────────────────────────────────────────────────────────────────────┐ │ Summary │ └──────────────────────────────────────────────────────────────────────────────┘ Build Architecture: armhf Build-Space: 253880 Build-Time: 5084 Distribution: wheezy-staging Host Architecture: armhf Install-Time: 742 Job: r-base_2.15.1-4 Machine Architecture: armhf Package: r-base Package-Time: 5867 Source-Version: 2.15.1-4 Space: 253880 Status: successful Version: 2.15.1-4 ──────────────────────────────────────────────────────────────────────────────── Finished at 20120730-1500 Build needed 01:37:47, 253880k disc space