sbuild (Debian sbuild) 0.62.6 (07 Dec 2011) on build03.raspbian.lan ╔══════════════════════════════════════════════════════════════════════════════╗ ║ mira 3.4.0.1-3 (armhf) 12 Jun 2012 20:12 ║ ╚══════════════════════════════════════════════════════════════════════════════╝ Package: mira Version: 3.4.0.1-3 Source Version: 3.4.0.1-3 Distribution: testing Architecture: armhf I: NOTICE: Log filtering will replace 'build/mira-vD18Wk/mira-3.4.0.1' with '«PKGBUILDDIR»' I: NOTICE: Log filtering will replace 'build/mira-vD18Wk' with '«BUILDDIR»' I: NOTICE: Log filtering will replace 'var/lib/schroot/mount/testing-armhf-sbuild-82c8a47d-7618-4ac0-ad87-711652592aba' with '«CHROOT»' ┌──────────────────────────────────────────────────────────────────────────────┐ │ Update chroot │ └──────────────────────────────────────────────────────────────────────────────┘ Hit http://repo.raspbian.lan testing InRelease Hit http://repo.raspbian.lan testing/main Sources Hit http://repo.raspbian.lan testing/main armhf Packages Ign http://repo.raspbian.lan testing/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... NOTICE: 'mira' packaging is maintained in the 'Svn' version control system at: svn://svn.debian.org/debian-med/trunk/packages/mira/trunk/ Need to get 10.3 MB of source archives. Get:1 http://repo.raspbian.lan/raspbian/ testing/main mira 3.4.0.1-3 (dsc) [2339 B] Get:2 http://repo.raspbian.lan/raspbian/ testing/main mira 3.4.0.1-3 (tar) [10.3 MB] Get:3 http://repo.raspbian.lan/raspbian/ testing/main mira 3.4.0.1-3 (diff) [6949 B] Fetched 10.3 MB in 2s (3592 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-Is7OOM/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 11 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 ... 10655 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), debhelper (>= 7.0.50~), autotools-dev, dblatex, docbook-xsl, libboost-thread-dev, libboost-regex-dev, libexpat1-dev, perl, flex, vim-common, zlib1g-dev Filtered Build-Depends: libc6-dev, gcc (>= 4:4.4.3), g++ (>= 4:4.4.3), make, dpkg-dev (>= 1.13.5), debhelper (>= 7.0.50~), autotools-dev, dblatex, docbook-xsl, libboost-thread-dev, libboost-regex-dev, libexpat1-dev, perl, flex, vim-common, zlib1g-dev dpkg-deb: building package `sbuild-build-depends-mira-dummy' in `/«BUILDDIR»/resolver-k6wqaL/apt_archive/sbuild-build-depends-mira-dummy.deb'. OK Reading package lists... ┌──────────────────────────────────────────────────────────────────────────────┐ │ Install mira build dependencies (apt-based resolver) │ └──────────────────────────────────────────────────────────────────────────────┘ Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following extra packages will be installed: autotools-dev bsdmainutils dblatex debhelper docbook-xml docbook-xsl ed file flex fontconfig-config gettext gettext-base groff-base html2text intltool-debian libapt-inst1.5 libasprintf0c2 libboost-date-time1.49-dev libboost-date-time1.49.0 libboost-regex-dev libboost-regex1.49-dev libboost-regex1.49.0 libboost-serialization1.49-dev libboost-serialization1.49.0 libboost-thread-dev libboost-thread1.49-dev libboost-thread1.49.0 libboost1.49-dev libcroco3 libexpat1 libexpat1-dev libffi5 libfontconfig1 libfreetype6 libgcrypt11 libgettextpo0 libglib2.0-0 libgpg-error0 libgraphite3 libice6 libicu-dev libicu48 libjpeg8 libkpathsea6 liblcms1 libmagic1 libopenjpeg2 libpaper-utils libpaper1 libpcre3 libpipeline1 libpng12-0 libpoppler13 libptexenc1 libsm6 libsqlite3-0 libssl1.0.0 libunistring0 libx11-6 libx11-data libxau6 libxaw7 libxcb1 libxdmcp6 libxext6 libxml2 libxmu6 libxpm4 libxslt1.1 libxt6 luatex m4 man-db mime-support po-debconf preview-latex-style python python-apt python-apt-common python-minimal python2.7 python2.7-minimal sgml-base sgml-data tex-common texlive texlive-base texlive-bibtex-extra texlive-binaries texlive-common texlive-doc-base texlive-extra-utils texlive-fonts-recommended texlive-latex-base texlive-latex-extra texlive-latex-recommended texlive-math-extra texlive-pictures ttf-dejavu-core ttf-marvosym vim-common x11-common xml-core xsltproc zlib1g-dev Suggested packages: wamerican wordlist whois vacation docbook ghostscript graphicsmagick-imagemagick-compat imagemagick latex-cjk-all lmodern opensp pdf-viewer texlive-lang-cyrillic texlive-xetex transfig dh-make docbook-dsssl docbook-defguide docbook-xsl-doc-html docbook-xsl-doc-pdf docbook-xsl-doc-text docbook-xsl-doc libsaxon-java libxalan2-java libxslthl-java docbook-xsl-saxon fop xalan dbtoepub bison gettext-doc groff libboost1.49-doc libboost-chrono1.49-dev libboost-filesystem1.49-dev libboost-graph-parallel1.49-dev libboost-graph1.49-dev libboost-iostreams1.49-dev libboost-locale1.49-dev libboost-math1.49-dev libboost-mpi1.49-dev libboost-program-options1.49-dev libboost-python1.49-dev libboost-random1.49-dev libboost-signals1.49-dev libboost-system1.49-dev libboost-test1.49-dev libboost-timer1.49-dev libboost-wave1.49-dev doxygen default-jdk rng-tools icu-doc liblcms-utils less www-browser libmail-box-perl python-doc python-tk python-apt-dbg python-gtk2 python-vte python-apt-doc python2.7-doc binfmt-support sgml-base-doc perlsgml doc-html-w3 texlive-doc-en perl-tk gv postscript-viewer purifyeps chktex latexmk dvipng xindy dvidvi fragmaster lacheck latexdiff libfile-which-perl dot2tex Recommended packages: libxml2-utils curl wget lynx-cur autopoint libglib2.0-data shared-mime-info poppler-data texlive-luatex libmail-sendmail-perl lsb-release iso-codes python2.6 xz-lzma ruby wish 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 vim vim-gnome vim-gtk vim-athena vim-nox vim-tiny The following NEW packages will be installed: autotools-dev bsdmainutils dblatex debhelper docbook-xml docbook-xsl ed file flex fontconfig-config gettext gettext-base groff-base html2text intltool-debian libapt-inst1.5 libasprintf0c2 libboost-date-time1.49-dev libboost-date-time1.49.0 libboost-regex-dev libboost-regex1.49-dev libboost-regex1.49.0 libboost-serialization1.49-dev libboost-serialization1.49.0 libboost-thread-dev libboost-thread1.49-dev libboost-thread1.49.0 libboost1.49-dev libcroco3 libexpat1 libexpat1-dev libffi5 libfontconfig1 libfreetype6 libgcrypt11 libgettextpo0 libglib2.0-0 libgpg-error0 libgraphite3 libice6 libicu-dev libicu48 libjpeg8 libkpathsea6 liblcms1 libmagic1 libopenjpeg2 libpaper-utils libpaper1 libpcre3 libpipeline1 libpng12-0 libpoppler13 libptexenc1 libsm6 libsqlite3-0 libssl1.0.0 libunistring0 libx11-6 libx11-data libxau6 libxaw7 libxcb1 libxdmcp6 libxext6 libxml2 libxmu6 libxpm4 libxslt1.1 libxt6 luatex m4 man-db mime-support po-debconf preview-latex-style python python-apt python-apt-common python-minimal python2.7 python2.7-minimal sbuild-build-depends-mira-dummy sgml-base sgml-data tex-common texlive texlive-base texlive-bibtex-extra texlive-binaries texlive-common texlive-doc-base texlive-extra-utils texlive-fonts-recommended texlive-latex-base texlive-latex-extra texlive-latex-recommended texlive-math-extra texlive-pictures ttf-dejavu-core ttf-marvosym vim-common x11-common xml-core xsltproc zlib1g-dev 0 upgraded, 106 newly installed, 0 to remove and 11 not upgraded. Need to get 47.8 MB/155 MB of archives. After this operation, 472 MB of additional disk space will be used. Get:1 http://repo.raspbian.lan/raspbian/ testing/main libapt-inst1.5 armhf 0.9.3+rpi1 [157 kB] Get:2 http://repo.raspbian.lan/raspbian/ testing/main vim-common armhf 2:7.3.429-2 [164 kB] Get:3 http://repo.raspbian.lan/raspbian/ testing/main python-apt-common all 0.8.4+rpi1 [95.8 kB] Get:4 http://repo.raspbian.lan/raspbian/ testing/main python-apt armhf 0.8.4+rpi1 [286 kB] Get:5 http://repo.raspbian.lan/raspbian/ testing/main texlive-fonts-recommended all 2012.20120529-1 [5483 kB] Get:6 http://repo.raspbian.lan/raspbian/ testing/main texlive all 2012.20120529-1 [36.4 kB] Get:7 http://repo.raspbian.lan/raspbian/ testing/main texlive-bibtex-extra all 2012.20120529-1 [25.4 MB] Get:8 http://repo.raspbian.lan/raspbian/ testing/main texlive-math-extra all 2012.20120529-1 [11.7 MB] Get:9 http://repo.raspbian.lan/raspbian/ testing/main texlive-extra-utils all 2012.20120529-1 [2548 kB] Get:10 http://repo.raspbian.lan/raspbian/ testing/main dblatex all 0.3.3-2 [1894 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 47.8 MB in 14s (3351 kB/s) Selecting previously unselected package libapt-inst1.5:armhf. (Reading database ... 10655 files and directories currently installed.) Unpacking libapt-inst1.5:armhf (from .../libapt-inst1.5_0.9.3+rpi1_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 libssl1.0.0:armhf. Unpacking libssl1.0.0:armhf (from .../libssl1.0.0_1.0.1c-3_armhf.deb) ... Selecting previously unselected package libasprintf0c2:armhf. Unpacking libasprintf0c2:armhf (from .../libasprintf0c2_0.18.1.1-8_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) ... 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Invoking trigger instead. update-catalog: Please rebuild the package being set up with a version of debhelper fixing #477751. Processing triggers for sgml-base ... Updating the super catalog... Selecting previously unselected package docbook-xml. (Reading database ... 11055 files and directories currently installed.) Unpacking docbook-xml (from .../docbook-xml_4.5-7_all.deb) ... Selecting previously unselected package m4. Unpacking m4 (from .../archives/m4_1.4.16-3_armhf.deb) ... Selecting previously unselected package flex. Unpacking flex (from .../flex_2.5.35-10_armhf.deb) ... Selecting previously unselected package libffi5:armhf. Unpacking libffi5:armhf (from .../libffi5_3.0.10-3+b3_armhf.deb) ... Selecting previously unselected package libglib2.0-0:armhf. Unpacking libglib2.0-0:armhf (from .../libglib2.0-0_2.32.3-1_armhf.deb) ... Selecting previously unselected package libcroco3:armhf. Unpacking libcroco3:armhf (from .../libcroco3_0.6.5-1_armhf.deb) ... 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Unpacking gettext (from .../gettext_0.18.1.1-8_armhf.deb) ... Selecting previously unselected package intltool-debian. Unpacking intltool-debian (from .../intltool-debian_0.35.0+20060710.1_all.deb) ... Selecting previously unselected package po-debconf. Unpacking po-debconf (from .../po-debconf_1.0.16+nmu2_all.deb) ... Selecting previously unselected package debhelper. Unpacking debhelper (from .../debhelper_9.20120528_all.deb) ... Selecting previously unselected package docbook-xsl. Unpacking docbook-xsl (from .../docbook-xsl_1.76.1+dfsg-1_all.deb) ... Selecting previously unselected package libboost1.49-dev. Unpacking libboost1.49-dev (from .../libboost1.49-dev_1.49.0-3_armhf.deb) ... Selecting previously unselected package libboost-date-time1.49.0. Unpacking libboost-date-time1.49.0 (from .../libboost-date-time1.49.0_1.49.0-3_armhf.deb) ... Selecting previously unselected package libboost-serialization1.49.0. 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Unpacking libboost-regex-dev (from .../libboost-regex-dev_1.49.0.1_armhf.deb) ... Selecting previously unselected package libboost-thread1.49.0. Unpacking libboost-thread1.49.0 (from .../libboost-thread1.49.0_1.49.0-3_armhf.deb) ... Selecting previously unselected package libboost-thread1.49-dev. Unpacking libboost-thread1.49-dev (from .../libboost-thread1.49-dev_1.49.0-3_armhf.deb) ... Selecting previously unselected package libboost-thread-dev. Unpacking libboost-thread-dev (from .../libboost-thread-dev_1.49.0.1_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-11_armhf.deb) ... Selecting previously unselected package sbuild-build-depends-mira-dummy. Unpacking sbuild-build-depends-mira-dummy (from .../sbuild-build-depends-mira-dummy.deb) ... Processing triggers for sgml-base ... Updating the super catalog... Setting up libapt-inst1.5:armhf (0.9.3+rpi1) ... Setting up libpcre3:armhf (1:8.30-5) ... Setting up libpipeline1:armhf (1.2.1-1) ... Setting up libssl1.0.0:armhf (1.0.1c-3) ... Setting up libasprintf0c2:armhf (0.18.1.1-8) ... Setting up libgpg-error0:armhf (1.10-3) ... Setting up libgcrypt11:armhf (1.5.0-3) ... Setting up libmagic1:armhf (5.11-1) ... Setting up libsqlite3-0:armhf (3.7.12.1-1) ... Setting up libxml2:armhf (2.8.0+dfsg1-3) ... Setting up sgml-data (2.0.6) ... update-catalog: Suppressing action on super catalog. Invoking trigger instead. update-catalog: Please rebuild the package being set up with a version of debhelper fixing #477751. Setting up m4 (1.4.16-3) ... Setting up flex (2.5.35-10) ... 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 libcroco3:armhf (0.6.5-1) ... 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 fontconfig-config (2.9.0-6) ... Setting up libfontconfig1:armhf (2.9.0-6) ... Setting up libunistring0:armhf (0.9.3-5) ... Setting up libgettextpo0:armhf (0.18.1.1-8) ... Setting up x11-common (1:7.6+13) ... 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 libicu48:armhf (4.8.1.1-7) ... Setting up libjpeg8:armhf (8d-1) ... Setting up liblcms1:armhf (1.19.dfsg-1.1) ... Setting up libpaper1:armhf (1.1.24+nmu2) ... Creating config file /etc/papersize with new version Setting up libpng12-0:armhf (1.2.49-1) ... Setting up libsm6:armhf (2:1.2.1-2) ... 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 (2:1.4.99.901-2) ... Setting up libx11-6:armhf (2:1.4.99.901-2) ... Setting up libxext6:armhf (2:1.3.1-2) ... 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 libxslt1.1:armhf (1.1.26-11) ... Setting up bsdmainutils (9.0.2) ... 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 (1.21-7) ... Setting up man-db (2.6.1-2) ... Building database of manual pages ... Setting up vim-common (2:7.3.429-2) ... Setting up file (5.11-1) ... Setting up gettext-base (0.18.1.1-8) ... 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 (2.7.2-10) ... Setting up python (2.7.2-10) ... Setting up python-apt-common (0.8.4+rpi1) ... Setting up python-apt (0.8.4+rpi1) ... Setting up autotools-dev (20120210.1) ... Setting up xsltproc (1.1.26-11) ... Setting up libgraphite3 (1:2.3.1-0.2) ... Setting up libkpathsea6 (2012.20120516-1) ... Setting up libopenjpeg2 (1.3+dfsg-4) ... Setting up libpoppler13 (0.16.7-3) ... Setting up libptexenc1 (2012.20120516-1) ... Setting up tex-common (3.11) ... 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 texlive-common (2012.20120529-1) ... Setting up ed (1.6-2) ... Setting up texlive-binaries (2012.20120516-1) ... 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 texlive-doc-base (2012.20120529-1) ... Setting up libpaper-utils (1.1.24+nmu2) ... Setting up luatex (0.70.1.20120524-1) ... texlive-base is not ready, cannot create formats Setting up ttf-marvosym (0.1+dfsg-2) ... Setting up preview-latex-style (11.86-10) ... Setting up html2text (1.3.2a-15) ... Setting up gettext (0.18.1.1-8) ... Setting up intltool-debian (0.35.0+20060710.1) ... Setting up po-debconf (1.0.16+nmu2) ... Setting up debhelper (9.20120528) ... Setting up docbook-xsl (1.76.1+dfsg-1) ... Setting up libboost1.49-dev (1.49.0-3) ... Setting up libboost-date-time1.49.0 (1.49.0-3) ... Setting up libboost-serialization1.49.0 (1.49.0-3) ... Setting up libboost-serialization1.49-dev (1.49.0-3) ... Setting up libboost-date-time1.49-dev (1.49.0-3) ... Setting up libboost-regex1.49.0 (1.49.0-3) ... Setting up libicu-dev (4.8.1.1-7) ... Setting up libboost-regex1.49-dev (1.49.0-3) ... Setting up libboost-regex-dev (1.49.0.1) ... Setting up libboost-thread1.49.0 (1.49.0-3) ... Setting up libboost-thread1.49-dev (1.49.0-3) ... Setting up libboost-thread-dev (1.49.0.1) ... Setting up libexpat1-dev (2.1.0-1) ... Setting up zlib1g-dev:armhf (1:1.2.7.dfsg-11) ... Processing triggers for tex-common ... Running mktexlsr. This may take some time... done. Setting up texlive-base (2012.20120529-1) ... /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-pictures (2012.20120529-1) ... Setting up texlive-extra-utils (2012.20120529-1) ... Setting up texlive-latex-base (2012.20120529-1) ... 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-fonts-recommended (2012.20120529-1) ... 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-bibtex-extra (2012.20120529-1) ... Setting up texlive-math-extra (2012.20120529-1) ... Running mktexlsr. This may take some time... done. Building format(s) --all --cnffile /etc/texmf/fmt.d/10texlive-math-extra.cnf. This may take some time... done. Setting up texlive-latex-recommended (2012.20120529-1) ... 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 (2012.20120529-1) ... Setting up texlive-latex-extra (2012.20120529-1) ... Processing triggers for sgml-base ... Updating the super catalog... Setting up docbook-xml (4.5-7) ... update-catalog: Suppressing action on super catalog. Invoking trigger instead. update-catalog: Please rebuild the package being set up with a version of debhelper fixing #477751. 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. Processing triggers for sgml-base ... Updating the super catalog... Setting up dblatex (0.3.3-2) ... Setting up sbuild-build-depends-mira-dummy (0.invalid.0) ... ┌──────────────────────────────────────────────────────────────────────────────┐ │ Build environment │ └──────────────────────────────────────────────────────────────────────────────┘ Kernel: Linux 3.2.0-2-mx5 armhf (armv7l) Toolchain package versions: binutils_2.22-6.1 dpkg-dev_1.16.3 g++-4.6_4.6.3-1.1+rpi2 gcc-4.6_4.6.3-1.1+rpi2 libc6-dev_2.13-32 libstdc++6_4.7.0-1.1+rpi libstdc++6-4.6-dev_4.6.3-1.1+rpi2 linux-libc-dev_3.2.18-1 Package versions: apt_0.9.3+rpi1 autotools-dev_20120210.1 base-files_6.9 base-passwd_3.5.24 bash_4.2-2 binutils_2.22-6.1 bsdmainutils_9.0.2 bsdutils_1:2.20.1-5 build-essential_11.5+b1 bzip2_1.0.6-1 coreutils_8.13-3.2 cpp_4:4.6.2-4 cpp-4.6_4.6.3-1.1+rpi2 dash_0.5.7-3 dblatex_0.3.3-2 debconf_1.5.43 debfoster_2.7-1.1 debhelper_9.20120528 debian-archive-keyring_2012.3 debianutils_4.3 diffutils_1:3.2-6 docbook-xml_4.5-7 docbook-xsl_1.76.1+dfsg-1 dpkg_1.16.3 dpkg-dev_1.16.3 e2fslibs_1.42.2-2 e2fsprogs_1.42.2-2 ed_1.6-2 fakeroot_1.18.3-1 file_5.11-1 findutils_4.4.2-4 flex_2.5.35-10 fontconfig-config_2.9.0-6 g++_4:4.6.2-4 g++-4.6_4.6.3-1.1+rpi2 gcc_4:4.6.2-4 gcc-4.4-base_4.4.7-1.1+rpi1 gcc-4.5-base_4.5.3-12+rpi1 gcc-4.6_4.6.3-1.1+rpi2 gcc-4.6-base_4.6.3-1.1+rpi2 gcc-4.7-base_4.7.0-1.1+rpi gettext_0.18.1.1-8 gettext-base_0.18.1.1-8 gnupg_1.4.12-4 gpgv_1.4.12-4 grep_2.12-2 groff-base_1.21-7 gzip_1.4-5 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 libacl1_2.2.51-7 libapt-inst1.5_0.9.3+rpi1 libapt-pkg4.12_0.9.3+rpi1 libasprintf0c2_0.18.1.1-8 libattr1_1:2.4.46-7 libblkid1_2.20.1-5 libboost-date-time1.49-dev_1.49.0-3 libboost-date-time1.49.0_1.49.0-3 libboost-regex-dev_1.49.0.1 libboost-regex1.49-dev_1.49.0-3 libboost-regex1.49.0_1.49.0-3 libboost-serialization1.49-dev_1.49.0-3 libboost-serialization1.49.0_1.49.0-3 libboost-thread-dev_1.49.0.1 libboost-thread1.49-dev_1.49.0-3 libboost-thread1.49.0_1.49.0-3 libboost1.49-dev_1.49.0-3 libbz2-1.0_1.0.6-1 libc-bin_2.13-32 libc-dev-bin_2.13-32 libc6_2.13-32 libc6-dev_2.13-32 libclass-isa-perl_0.36-3 libcomerr2_1.42.2-2 libcroco3_0.6.5-1 libdb5.1_5.1.29-1 libdpkg-perl_1.16.3 libexpat1_2.1.0-1 libexpat1-dev_2.1.0-1 libffi5_3.0.10-3+b3 libfile-fcntllock-perl_0.14-1 libfontconfig1_2.9.0-6 libfreetype6_2.4.9-1 libgc1c2_1:7.1-8 libgcc1_1:4.7.0-1.1+rpi libgcrypt11_1.5.0-3 libgdbm3_1.8.3-10 libgettextpo0_0.18.1.1-8 libglib2.0-0_2.32.3-1 libgmp10_2:5.0.5+dfsg-1.1 libgomp1_4.7.0-1.1+rpi libgpg-error0_1.10-3 libgraphite3_1:2.3.1-0.2 libice6_2:1.0.8-2 libicu-dev_4.8.1.1-7 libicu48_4.8.1.1-7 libjpeg8_8d-1 libkpathsea6_2012.20120516-1 liblcms1_1.19.dfsg-1.1 liblocale-gettext-perl_1.05-7 liblzma5_5.1.1alpha+20110809-3 libmagic1_5.11-1 libmount1_2.20.1-5 libmpc2_0.9-4 libmpfr4_3.1.0-5 libncurses5_5.9-7 libncursesw5_5.9-7 libopenjpeg2_1.3+dfsg-4 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 libpaper-utils_1.1.24+nmu2 libpaper1_1.1.24+nmu2 libpcre3_1:8.30-5 libpipeline1_1.2.1-1 libpng12-0_1.2.49-1 libpoppler13_0.16.7-3 libptexenc1_2012.20120516-1 libreadline6_6.2-8 libselinux1_2.1.9-2 libsemanage-common_2.1.6-2 libsemanage1_2.1.6-2 libsepol1_2.1.4-3 libslang2_2.2.4-10 libsm6_2:1.2.1-2 libsqlite3-0_3.7.12.1-1 libss2_1.42.2-2 libssl1.0.0_1.0.1c-3 libstdc++6_4.7.0-1.1+rpi libstdc++6-4.6-dev_4.6.3-1.1+rpi2 libswitch-perl_2.16-2 libtext-charwidth-perl_0.04-7 libtext-iconv-perl_1.7-5 libtext-wrapi18n-perl_0.06-7 libtimedate-perl_1.2000-1 libtinfo5_5.9-7 libunistring0_0.9.3-5 libusb-0.1-4_2:0.1.12-20 libustr-1.0-1_1.0.4-2 libuuid1_2.20.1-5 libx11-6_2:1.4.99.901-2 libx11-data_2:1.4.99.901-2 libxau6_1:1.0.7-1 libxaw7_2:1.0.10-2 libxcb1_1.8.1-1 libxdmcp6_1:1.1.1-1 libxext6_2:1.3.1-2 libxml2_2.8.0+dfsg1-3 libxmu6_2:1.1.1-1 libxpm4_1:3.5.10-1 libxslt1.1_1.1.26-11 libxt6_1:1.1.3-1 linux-libc-dev_3.2.18-1 login_1:4.1.5-1 lsb-base_4.1+Debian4 luatex_0.70.1.20120524-1 m4_1.4.16-3 make_3.81-8.2 man-db_2.6.1-2 mawk_1.3.3-17 mime-support_3.52-1 mount_2.20.1-5 multiarch-support_2.13-32 ncurses-base_5.9-7 ncurses-bin_5.9-7 passwd_1:4.1.5-1 patch_2.6.1-3 perl_5.14.2-11 perl-base_5.14.2-11 perl-modules_5.14.2-11 po-debconf_1.0.16+nmu2 preview-latex-style_11.86-10 python_2.7.2-10 python-apt_0.8.4+rpi1 python-apt-common_0.8.4+rpi1 python-minimal_2.7.2-10 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-mira-dummy_0.invalid.0 sed_4.2.1-9 sensible-utils_0.0.7 sgml-base_1.26+nmu3 sgml-data_2.0.6 sysv-rc_2.88dsf-22.1 sysvinit_2.88dsf-22.1 sysvinit-utils_2.88dsf-22.1 tar_1.26-4 tex-common_3.11 texlive_2012.20120529-1 texlive-base_2012.20120529-1 texlive-bibtex-extra_2012.20120529-1 texlive-binaries_2012.20120516-1 texlive-common_2012.20120529-1 texlive-doc-base_2012.20120529-1 texlive-extra-utils_2012.20120529-1 texlive-fonts-recommended_2012.20120529-1 texlive-latex-base_2012.20120529-1 texlive-latex-extra_2012.20120529-1 texlive-latex-recommended_2012.20120529-1 texlive-math-extra_2012.20120529-1 texlive-pictures_2012.20120529-1 ttf-dejavu-core_2.33-2 ttf-marvosym_0.1+dfsg-2 tzdata_2012c-1 ucf_3.0025+nmu3 util-linux_2.20.1-5 vim-common_2:7.3.429-2 x11-common_1:7.6+13 xml-core_0.13 xsltproc_1.1.26-11 xz-utils_5.1.1alpha+20110809-3 zlib1g_1:1.2.7.dfsg-11 zlib1g-dev_1:1.2.7.dfsg-11 ┌──────────────────────────────────────────────────────────────────────────────┐ │ Build │ └──────────────────────────────────────────────────────────────────────────────┘ Unpack source ───────────── gpgv: keyblock resource `/sbuild-nonexistent/.gnupg/trustedkeys.gpg': file open error gpgv: Signature made Mon May 28 02:01:39 2012 UTC using RSA key ID 2295D502 gpgv: Can't check signature: public key not found dpkg-source: warning: failed to verify signature on ./mira_3.4.0.1-3.dsc dpkg-source: info: extracting mira in mira-3.4.0.1 dpkg-source: info: unpacking mira_3.4.0.1.orig.tar.bz2 dpkg-source: info: unpacking mira_3.4.0.1-3.debian.tar.gz dpkg-source: info: applying add_shebang_lines dpkg-source: info: applying xsltproc_nonet_for_doc_build 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_CHROOT_NAME=testing-armhf-sbuild SCHROOT_COMMAND=env SCHROOT_GID=108 SCHROOT_GROUP=buildd SCHROOT_SESSION_ID=testing-armhf-sbuild-82c8a47d-7618-4ac0-ad87-711652592aba SCHROOT_UID=106 SCHROOT_USER=buildd SHELL=/bin/sh TERM=xterm USER=buildd dpkg-buildpackage ───────────────── dpkg-buildpackage: source package mira dpkg-buildpackage: source version 3.4.0.1-3 dpkg-source --before-build mira-3.4.0.1 dpkg-buildpackage: host architecture armhf fakeroot debian/rules clean dh clean dh_testdir debian/rules override_dh_auto_clean make[1]: Entering directory `/«PKGBUILDDIR»' ( cd doc ; make clean ) || true make[2]: Entering directory `/«PKGBUILDDIR»/doc' cd .. && make am--refresh make[3]: Entering directory `/«PKGBUILDDIR»' make[3]: *** No rule to make target `am--refresh'. Stop. make[3]: Leaving directory `/«PKGBUILDDIR»' make[2]: *** [../config.status] Error 2 make[2]: Leaving directory `/«PKGBUILDDIR»/doc' dh_auto_clean find * -name Makefile -exec rm '{}' ';' find * -name '*.xxd.H' -exec rm '{}' ';' find * -name '*.par.H' -exec rm '{}' ';' find * -name 'compileinfo.*' -exec rm '{}' ';' make[1]: Leaving directory `/«PKGBUILDDIR»' debian/rules override_dh_clean make[1]: Entering directory `/«PKGBUILDDIR»' dh_clean rm -f debian/mira-assembler.substvars rm -f debian/mira-assembler.*.debhelper rm -rf debian/mira-assembler/ rm -f debian/mira-examples.substvars rm -f debian/mira-examples.*.debhelper rm -rf debian/mira-examples/ rm -f debian/mira-doc.substvars rm -f debian/mira-doc.*.debhelper rm -rf debian/mira-doc/ rm -f debian/*.debhelper.log rm -f debian/files find . \( \( -type f -a \ \( -name '#*#' -o -name '.*~' -o -name '*~' -o -name DEADJOE \ -o -name '*.orig' -o -name '*.rej' -o -name '*.bak' \ -o -name '.*.orig' -o -name .*.rej -o -name '.SUMS' \ -o -name TAGS -o \( -path '*/.deps/*' -a -name '*.P' \) \ \) -exec rm -f {} \; \) -o \ \( -type d -a -name autom4te.cache -prune -exec rm -rf {} \; \) \) rm -f *-stamp rm -rf lib make[1]: Leaving directory `/«PKGBUILDDIR»' debian/rules build-arch dh build-arch dh_testdir -a debian/rules override_dh_auto_configure make[1]: Entering directory `/«PKGBUILDDIR»' mkdir lib ln -s /usr/lib/libtcmalloc_minimal.so.4 lib/libtcmalloc_minimal.so dh_auto_configure ./configure --build=arm-linux-gnueabihf --prefix=/usr --includedir=\${prefix}/include --mandir=\${prefix}/share/man --infodir=\${prefix}/share/info --sysconfdir=/etc --localstatedir=/var --libexecdir=\${prefix}/lib/mira --disable-maintainer-mode --disable-dependency-tracking configure: WARNING: unrecognized options: --disable-maintainer-mode checking for a BSD-compatible install... /usr/bin/install -c checking whether build environment is sane... yes checking for a thread-safe mkdir -p... /bin/mkdir -p checking for gawk... no checking for mawk... mawk checking whether make sets $(MAKE)... yes checking how to create a ustar tar archive... gnutar checking whether to add --prefix as include path... yes +++++++++++++++++++++++++++++++++++++ systemuname: Linux CFLAGS now: -I/usr/include CXXFLAGS now: -I/usr/include LDFLAGS now: -L/«PKGBUILDDIR»/lib -L/usr/lib +++++++++++++++++++++++++++++++++++++ checking for gcc... gcc checking whether the C compiler works... yes checking for C compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether we are using the GNU C compiler... yes checking whether gcc accepts -g... yes checking for gcc option to accept ISO C89... none needed checking for style of include used by make... GNU checking dependency style of gcc... none checking for g++... g++ checking whether we are using the GNU C++ compiler... yes checking whether g++ accepts -g... yes checking dependency style of g++... none +++++++++++++++++++++++++++++++++++++ systemuname: Linux CFLAGS now: -I/usr/include CXXFLAGS now: -I/usr/include LDFLAGS now: -L/«PKGBUILDDIR»/lib -L/usr/lib +++++++++++++++++++++++++++++++++++++ checking how to run the C preprocessor... gcc -E checking for grep that handles long lines and -e... /bin/grep checking for egrep... /bin/grep -E checking for ANSI C header files... yes checking for sys/types.h... yes checking for sys/stat.h... yes checking for stdlib.h... yes checking for string.h... yes checking for memory.h... yes checking for strings.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for unistd.h... yes checking for int64_t... yes +++++++++++++++++++++++++++++++++++++ CFLAGS now: -I/usr/include CXXFLAGS now: -DAJ_Linux64 -I/usr/include LDFLAGS now: -L/«PKGBUILDDIR»/lib -L/usr/lib +++++++++++++++++++++++++++++++++++++ checking whether long has 64bit... no checking whether enabling 64bit compilation support... no checking build system type... arm-unknown-linux-gnueabihf checking for compiler optimisation settings... -O3 -funroll-loops +++++++++++++++++++++++++++++++++++++ CFLAGS now: -I/usr/include -O3 -funroll-loops CXXFLAGS now: -DAJ_Linux64 -I/usr/include -O3 -funroll-loops LDFLAGS now: -L/«PKGBUILDDIR»/lib -L/usr/lib +++++++++++++++++++++++++++++++++++++ checking host system type... arm-unknown-linux-gnueabihf checking how to print strings... printf checking for a sed that does not truncate output... /bin/sed checking for fgrep... /bin/grep -F checking for ld used by gcc... /usr/bin/ld checking if the linker (/usr/bin/ld) is GNU ld... yes checking for BSD- or MS-compatible name lister (nm)... /usr/bin/nm -B checking the name lister (/usr/bin/nm -B) interface... BSD nm checking whether ln -s works... yes checking the maximum length of command line arguments... 805306365 checking whether the shell understands some XSI constructs... yes checking whether the shell understands "+="... yes checking how to convert arm-unknown-linux-gnueabihf file names to arm-unknown-linux-gnueabihf format... func_convert_file_noop checking how to convert arm-unknown-linux-gnueabihf file names to toolchain format... func_convert_file_noop checking for /usr/bin/ld option to reload object files... -r checking for objdump... objdump checking how to recognize dependent libraries... pass_all checking for dlltool... no checking how to associate runtime and link libraries... printf %s\n checking for ar... ar checking for archiver @FILE support... @ checking for strip... strip checking for ranlib... ranlib checking command to parse /usr/bin/nm -B output from gcc object... ok checking for sysroot... no checking for mt... no checking if : is a manifest tool... no checking for dlfcn.h... yes checking for objdir... .libs checking if gcc supports -fno-rtti -fno-exceptions... no checking for gcc option to produce PIC... -fPIC -DPIC checking if gcc PIC flag -fPIC -DPIC works... yes checking if gcc static flag -static works... yes checking if gcc supports -c -o file.o... yes checking if gcc supports -c -o file.o... (cached) yes checking whether the gcc linker (/usr/bin/ld) supports shared libraries... yes checking whether -lc should be explicitly linked in... no checking dynamic linker characteristics... GNU/Linux ld.so checking how to hardcode library paths into programs... immediate checking whether stripping libraries is possible... yes checking if libtool supports shared libraries... yes checking whether to build shared libraries... yes checking whether to build static libraries... yes checking how to run the C++ preprocessor... g++ -E checking for ld used by g++... /usr/bin/ld checking if the linker (/usr/bin/ld) is GNU ld... yes checking whether the g++ linker (/usr/bin/ld) supports shared libraries... yes checking for g++ option to produce PIC... -fPIC -DPIC checking if g++ PIC flag -fPIC -DPIC works... yes checking if g++ static flag -static works... yes checking if g++ supports -c -o file.o... yes checking if g++ supports -c -o file.o... (cached) yes checking whether the g++ linker (/usr/bin/ld) supports shared libraries... yes checking dynamic linker characteristics... (cached) GNU/Linux ld.so checking how to hardcode library paths into programs... immediate checking whether make sets $(MAKE)... (cached) yes checking whether ln -s works... yes checking for a sed that does not truncate output... (cached) /bin/sed checking for flex... no checking for flex... flex checking lex output file root... lex.yy checking lex library... -lfl checking whether yytext is a pointer... yes checking for flex++... yes checking for ANSI C header files... (cached) yes checking for stdbool.h that conforms to C99... yes checking for _Bool... yes checking for an ANSI C-conforming const... yes checking for inline... inline checking for C/C++ restrict keyword... __restrict checking whether struct tm is in sys/time.h or time.h... time.h checking for stdlib.h... (cached) yes checking for GNU libc compatible malloc... yes checking for stdlib.h... (cached) yes checking for GNU libc compatible realloc... yes checking whether lstat correctly handles trailing slash... yes checking whether stat accepts an empty string... no checking for strftime... yes checking for floor... no checking for memset... yes checking for pow... no checking for sqrt... no checking for special C compiler options needed for large files... no checking for _FILE_OFFSET_BITS value needed for large files... 64 checking for _LARGEFILE_SOURCE value needed for large files... no checking for isblank... yes +++++++++++++++++++++++++++++++++++++ CFLAGS now: -I/usr/include -O3 -funroll-loops CXXFLAGS now: -DAJ_Linux64 -I/usr/include -O3 -funroll-loops LDFLAGS now: -L/«PKGBUILDDIR»/lib -L/usr/lib +++++++++++++++++++++++++++++++++++++ checking whether the compiler implements namespaces... yes checking whether the compiler supports ISO C++ standard library... yes checking whether the compiler supports Standard Template Library... yes +++++++++++++++++++++++++++++++++++++ CFLAGS now: -I/usr/include -O3 -funroll-loops CXXFLAGS now: -DAJ_Linux64 -I/usr/include -O3 -funroll-loops LDFLAGS now: -L/«PKGBUILDDIR»/lib -L/usr/lib +++++++++++++++++++++++++++++++++++++ checking whether perl executable path has been provided... no checking for perl... /usr/bin/perl checking for Expat XML Parser headers in /usr/include... found checking for Expat XML Parser libraries... found checking for Expat XML Parser... yes +++++++++++++++++++++++++++++++++++++ CFLAGS now: -I/usr/include -O3 -funroll-loops -I/usr/include CXXFLAGS now: -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include LDFLAGS now: -L/«PKGBUILDDIR»/lib -L/usr/lib +++++++++++++++++++++++++++++++++++++ checking if zlib is wanted... yes +++++++++++++++++++++++++++++++++++++ CFLAGS now: -I/usr/include -O3 -funroll-loops -I/usr/include CXXFLAGS now: -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include LDFLAGS now: -L/«PKGBUILDDIR»/lib -L/usr/lib +++++++++++++++++++++++++++++++++++++ checking for boostlib >= 1.35.0... yes +++++++++++++++++++++++++++++++++++++ BOOST_CPPFLAGS: -I/usr/include BOOST LDFLAGS: -L/usr/lib CFLAGS now: -I/usr/include -O3 -funroll-loops -I/usr/include CXXFLAGS now: -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include LDFLAGS now: -L/«PKGBUILDDIR»/lib -L/usr/lib +++++++++++++++++++++++++++++++++++++ +++++++++++++++++++++++++++++++++++++ BOOST_CPPFLAGS: -I/usr/include BOOST LDFLAGS: -L/usr/lib CFLAGS now: -I/usr/include -O3 -funroll-loops -I/usr/include CXXFLAGS now: -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include LDFLAGS now: -L/«PKGBUILDDIR»/lib -L/usr/lib +++++++++++++++++++++++++++++++++++++ checking whether the Boost::Thread library is available... yes checking for exit in -lboost_thread-mt... yes +++++++++++++++++++++++++++++++++++++ BOOST_CPPFLAGS: -pthread -I/usr/include BOOST LDFLAGS: -L/usr/lib ac_boost_path: ac_boost_lib_path: BOOST_THREAD_LIB: -lboost_thread-mt CFLAGS now: -I/usr/include -O3 -funroll-loops -I/usr/include CXXFLAGS now: -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include LDFLAGS now: -L/«PKGBUILDDIR»/lib -L/usr/lib +++++++++++++++++++++++++++++++++++++ +++++++++++++++++++++++++++++++++++++ BOOST_CPPFLAGS: -pthread -I/usr/include BOOST LDFLAGS: -L/usr/lib ac_boost_path: ac_boost_lib_path: BOOST_THREAD_LIB: -lboost_thread-mt CFLAGS now: -I/usr/include -O3 -funroll-loops -I/usr/include CXXFLAGS now: -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include LDFLAGS now: -L/«PKGBUILDDIR»/lib -L/usr/lib -L/usr/lib -lboost_thread-mt +++++++++++++++++++++++++++++++++++++ checking whether the Boost::Regex library is available... yes checking for exit in -lboost_regex-mt... yes +++++++++++++++++++++++++++++++++++++ BOOST_CPPFLAGS: -pthread -I/usr/include BOOST LDFLAGS: -L/usr/lib ac_boost_path: ac_boost_lib_path: BOOST_REGEX_LIB: -lboost_regex-mt CFLAGS now: -I/usr/include -O3 -funroll-loops -I/usr/include CXXFLAGS now: -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include LDFLAGS now: -L/«PKGBUILDDIR»/lib -L/usr/lib -L/usr/lib -lboost_thread-mt -lboost_regex-mt +++++++++++++++++++++++++++++++++++++ checking for flex version compatible with MIRA... yes checking for purify... no checking whether linking with tcmalloc works... no checking whether mira should compile in public quiet mode... yes checking whether mira should compile a development version... no checking whether mira should compile with bound tracking... yes checking whether mira should compile with bug tracking... yes checking whether mira should compile with extended bug tracking... no checking whether mira should compile with function trace... no configure: creating ./config.status config.status: creating Makefile config.status: creating src/Makefile config.status: creating src/stdinc/Makefile config.status: creating src/lec/Makefile config.status: creating src/errorhandling/Makefile config.status: creating src/util/Makefile config.status: creating src/io/Makefile config.status: creating src/mira/Makefile config.status: creating src/EdIt/Makefile config.status: creating src/caf/Makefile config.status: creating src/examine/Makefile config.status: creating src/knn_abi373/Makefile config.status: creating src/knn_alf/Makefile config.status: creating src/support/Makefile config.status: creating src/scripts/Makefile config.status: creating src/test/Makefile config.status: creating src/test/io/Makefile config.status: creating src/test/io/scf/Makefile config.status: creating src/test/io/fasta/Makefile config.status: creating src/test/io/generalio/Makefile config.status: creating src/test/mira/Makefile config.status: creating src/test/mira/align/Makefile config.status: creating src/test/mira/read/Makefile config.status: creating src/test/mira/readpool/Makefile config.status: creating src/examples_programming/Makefile config.status: creating src/progs/Makefile config.status: creating doc/Makefile config.status: creating doc/docbook/Makefile config.status: creating distribution/Makefile config.status: executing depfiles commands config.status: executing libtool commands configure: WARNING: unrecognized options: --disable-maintainer-mode -------------------------------------------------------------------------------- Summary of MIRA configuration -------------------------------------------------------------------------------- Could not find the tcmalloc library. It is part of the Google perftools library at http://code.google.com/p/google-perftools/downloads/list Please consult the INSTALL file of MIRA for more help on installing it. Linking to this library is *HIGHLY* recommended as without this library the memory requirements for MIRA may be 100% higher! Building version ................................. 3.4.0.1_prod_linux-gnueabihf_arm_32_dynamic Production or development version?................ production We are building on ............................... Linux CPU supports 64 bit? ......... ................... no Compiler ......................................... gcc Compiler optimisation flags used ................. -O3 -funroll-loops Building completely static? ...................... no BOOST expected to compile and link?............... yes Linking with TCmalloc library?.................... no Can MIRA be built on this system? ................ yes Using CFLAGS : -I/usr/include -O3 -funroll-loops -I/usr/include Using CXXFLAGS : -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include Using LDFLAGS : -L/«PKGBUILDDIR»/lib -L/usr/lib -L/usr/lib -lboost_thread-mt -lboost_regex-mt System: Linux build03.raspbian.lan 3.2.0-2-mx5 #1 Sun Apr 15 19:59:08 UTC 2012 armv7l GNU/Linux Compiler: 'gcc -v' output: Using built-in specs. COLLECT_GCC=gcc COLLECT_LTO_WRAPPER=/usr/lib/gcc/arm-linux-gnueabihf/4.6/lto-wrapper Target: arm-linux-gnueabihf Configured with: ../src/configure -v --with-pkgversion='Debian 4.6.3-1.1+rpi2' --with-bugurl=file:///usr/share/doc/gcc-4.6/README.Bugs --enable-languages=c,c++,fortran,objc,obj-c++ --prefix=/usr --program-suffix=-4.6 --enable-shared --enable-linker-build-id --with-system-zlib --libexecdir=/usr/lib --without-included-gettext --enable-threads=posix --with-gxx-include-dir=/usr/include/c++/4.6 --libdir=/usr/lib --enable-nls --with-sysroot=/ --enable-clocale=gnu --enable-libstdcxx-debug --enable-libstdcxx-time=yes --enable-plugin --enable-objc-gc --disable-sjlj-exceptions --with-arch=armv6 --with-float=hard --with-fpu=vfp --enable-checking=release --build=arm-linux-gnueabihf --host=arm-linux-gnueabihf --target=arm-linux-gnueabihf Thread model: posix gcc version 4.6.3 (Debian 4.6.3-1.1+rpi2) -------------------------------------------------------------------------------- Ooops, we might encounter some problems in compilation/linking. Please give it a try and report success or failure. Type 'make' to make the binaries and if no error occured, then 'make install' to install them. In case of failure, please help to fix if you can. make[1]: Leaving directory `/«PKGBUILDDIR»' debian/rules override_dh_auto_build make[1]: Entering directory `/«PKGBUILDDIR»' dh_auto_build make -j1 make[2]: Entering directory `/«PKGBUILDDIR»' Making all in src make[3]: Entering directory `/«PKGBUILDDIR»/src' Making all in lec make[4]: Entering directory `/«PKGBUILDDIR»/src/lec' make[4]: Nothing to be done for `all'. make[4]: Leaving directory `/«PKGBUILDDIR»/src/lec' Making all in io make[4]: Entering directory `/«PKGBUILDDIR»/src/io' g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"3.4.0.1\" -DPACKAGE_STRING=\"mira\ 3.4.0.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"3.4.0.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_NAMESPACES=/\*\*/ -DHAVE_STD=/\*\*/ -DHAVE_STL=/\*\*/ -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DDEVELOPMENTVERSION=0 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -c -o gbf.o gbf.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"3.4.0.1\" -DPACKAGE_STRING=\"mira\ 3.4.0.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"3.4.0.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_NAMESPACES=/\*\*/ -DHAVE_STD=/\*\*/ -DHAVE_STL=/\*\*/ -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DDEVELOPMENTVERSION=0 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -c -o generalio.o generalio.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"3.4.0.1\" -DPACKAGE_STRING=\"mira\ 3.4.0.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"3.4.0.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_NAMESPACES=/\*\*/ -DHAVE_STD=/\*\*/ -DHAVE_STL=/\*\*/ -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DDEVELOPMENTVERSION=0 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -c -o fasta.o fasta.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"3.4.0.1\" -DPACKAGE_STRING=\"mira\ 3.4.0.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"3.4.0.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_NAMESPACES=/\*\*/ -DHAVE_STD=/\*\*/ -DHAVE_STL=/\*\*/ -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DDEVELOPMENTVERSION=0 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -c -o fastq-mira.o fastq-mira.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"3.4.0.1\" -DPACKAGE_STRING=\"mira\ 3.4.0.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"3.4.0.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_NAMESPACES=/\*\*/ -DHAVE_STD=/\*\*/ -DHAVE_STL=/\*\*/ -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DDEVELOPMENTVERSION=0 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -c -o phd.o phd.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"3.4.0.1\" -DPACKAGE_STRING=\"mira\ 3.4.0.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"3.4.0.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_NAMESPACES=/\*\*/ -DHAVE_STD=/\*\*/ -DHAVE_STL=/\*\*/ -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DDEVELOPMENTVERSION=0 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -c -o scf.o scf.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"3.4.0.1\" -DPACKAGE_STRING=\"mira\ 3.4.0.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"3.4.0.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_NAMESPACES=/\*\*/ -DHAVE_STD=/\*\*/ -DHAVE_STL=/\*\*/ -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DDEVELOPMENTVERSION=0 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -c -o exp.o exp.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"3.4.0.1\" -DPACKAGE_STRING=\"mira\ 3.4.0.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"3.4.0.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_NAMESPACES=/\*\*/ -DHAVE_STD=/\*\*/ -DHAVE_STL=/\*\*/ -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DDEVELOPMENTVERSION=0 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -c -o ncbiinfoxml.o ncbiinfoxml.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"3.4.0.1\" -DPACKAGE_STRING=\"mira\ 3.4.0.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"3.4.0.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_NAMESPACES=/\*\*/ -DHAVE_STD=/\*\*/ -DHAVE_STL=/\*\*/ -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DDEVELOPMENTVERSION=0 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -c -o exp_flexer.o exp_flexer.cc rm -f libmirafio.a ar cru libmirafio.a gbf.o generalio.o fasta.o fastq-mira.o phd.o scf.o exp.o ncbiinfoxml.o exp_flexer.o ranlib libmirafio.a make[4]: Leaving directory `/«PKGBUILDDIR»/src/io' Making all in stdinc make[4]: Entering directory `/«PKGBUILDDIR»/src/stdinc' make[4]: Nothing to be done for `all'. make[4]: Leaving directory `/«PKGBUILDDIR»/src/stdinc' Making all in errorhandling make[4]: Entering directory `/«PKGBUILDDIR»/src/errorhandling' g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"3.4.0.1\" -DPACKAGE_STRING=\"mira\ 3.4.0.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"3.4.0.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_NAMESPACES=/\*\*/ -DHAVE_STD=/\*\*/ -DHAVE_STL=/\*\*/ -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DDEVELOPMENTVERSION=0 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -c -o errorhandling.o errorhandling.C rm -f libmiraerrorhandling.a ar cru libmiraerrorhandling.a errorhandling.o ranlib libmiraerrorhandling.a make[4]: Leaving directory `/«PKGBUILDDIR»/src/errorhandling' Making all in util make[4]: Entering directory `/«PKGBUILDDIR»/src/util' g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"3.4.0.1\" -DPACKAGE_STRING=\"mira\ 3.4.0.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"3.4.0.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_NAMESPACES=/\*\*/ -DHAVE_STD=/\*\*/ -DHAVE_STL=/\*\*/ -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DDEVELOPMENTVERSION=0 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -c -o misc.o misc.C rm -f libmirautil.a ar cru libmirautil.a misc.o ranlib libmirautil.a g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"3.4.0.1\" -DPACKAGE_STRING=\"mira\ 3.4.0.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"3.4.0.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_NAMESPACES=/\*\*/ -DHAVE_STD=/\*\*/ -DHAVE_STL=/\*\*/ -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DDEVELOPMENTVERSION=0 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -c -o dptools.o dptools.C rm -f libmiradptools.a ar cru libmiradptools.a dptools.o ranlib libmiradptools.a make[4]: Leaving directory `/«PKGBUILDDIR»/src/util' Making all in mira make[4]: Entering directory `/«PKGBUILDDIR»/src/mira' Making .H out of .xxd adaptorsforclip.454.xxd.H Making .H out of .xxd adaptorsforclip.solexa.xxd.H Making .H out of .xxd adaptorsforclip.iontor.xxd.H Making .H out of .xxd adaptorsregex.solexa.xxd.H Making .H out of .xxd adaptorsregex.iontor.xxd.H make all-am make[5]: Entering directory `/«PKGBUILDDIR»/src/mira' g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"3.4.0.1\" -DPACKAGE_STRING=\"mira\ 3.4.0.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"3.4.0.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_NAMESPACES=/\*\*/ -DHAVE_STD=/\*\*/ -DHAVE_STL=/\*\*/ -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DDEVELOPMENTVERSION=0 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -c -o estassembly.o estassembly.C rm -f libmiraestass.a ar cru libmiraestass.a estassembly.o ranlib libmiraestass.a g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"3.4.0.1\" -DPACKAGE_STRING=\"mira\ 3.4.0.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"3.4.0.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_NAMESPACES=/\*\*/ -DHAVE_STD=/\*\*/ -DHAVE_STL=/\*\*/ -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DDEVELOPMENTVERSION=0 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -c -o contig.o contig.C contig.C:185:13: warning: multi-character character constant [-Wmultichar] contig.C:3293:17: warning: multi-character character constant [-Wmultichar] g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"3.4.0.1\" -DPACKAGE_STRING=\"mira\ 3.4.0.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"3.4.0.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_NAMESPACES=/\*\*/ -DHAVE_STD=/\*\*/ -DHAVE_STL=/\*\*/ -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DDEVELOPMENTVERSION=0 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -c -o gff_parse.o gff_parse.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"3.4.0.1\" -DPACKAGE_STRING=\"mira\ 3.4.0.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"3.4.0.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_NAMESPACES=/\*\*/ -DHAVE_STD=/\*\*/ -DHAVE_STL=/\*\*/ -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DDEVELOPMENTVERSION=0 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -c -o parameters_flexer.o parameters_flexer.cc g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"3.4.0.1\" -DPACKAGE_STRING=\"mira\ 3.4.0.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"3.4.0.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_NAMESPACES=/\*\*/ -DHAVE_STD=/\*\*/ -DHAVE_STL=/\*\*/ -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DDEVELOPMENTVERSION=0 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -c -o multitag.o multitag.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"3.4.0.1\" -DPACKAGE_STRING=\"mira\ 3.4.0.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"3.4.0.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_NAMESPACES=/\*\*/ -DHAVE_STD=/\*\*/ -DHAVE_STL=/\*\*/ -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DDEVELOPMENTVERSION=0 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -c -o maf_parse.o maf_parse.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"3.4.0.1\" -DPACKAGE_STRING=\"mira\ 3.4.0.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"3.4.0.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_NAMESPACES=/\*\*/ -DHAVE_STD=/\*\*/ -DHAVE_STL=/\*\*/ -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DDEVELOPMENTVERSION=0 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -c -o adsfacts.o adsfacts.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"3.4.0.1\" -DPACKAGE_STRING=\"mira\ 3.4.0.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"3.4.0.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_NAMESPACES=/\*\*/ -DHAVE_STD=/\*\*/ -DHAVE_STL=/\*\*/ -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DDEVELOPMENTVERSION=0 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -c -o ads.o ads.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"3.4.0.1\" -DPACKAGE_STRING=\"mira\ 3.4.0.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"3.4.0.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_NAMESPACES=/\*\*/ -DHAVE_STD=/\*\*/ -DHAVE_STL=/\*\*/ -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DDEVELOPMENTVERSION=0 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -c -o assembly_output.o assembly_output.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"3.4.0.1\" -DPACKAGE_STRING=\"mira\ 3.4.0.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"3.4.0.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_NAMESPACES=/\*\*/ -DHAVE_STD=/\*\*/ -DHAVE_STL=/\*\*/ -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DDEVELOPMENTVERSION=0 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -c -o assembly_info.o assembly_info.C assembly_info.C:100:80: warning: trigraph ??) ignored, use -trigraphs to enable [-Wtrigraphs] g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"3.4.0.1\" -DPACKAGE_STRING=\"mira\ 3.4.0.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"3.4.0.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_NAMESPACES=/\*\*/ -DHAVE_STD=/\*\*/ -DHAVE_STL=/\*\*/ -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DDEVELOPMENTVERSION=0 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -c -o readpool.o readpool.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"3.4.0.1\" -DPACKAGE_STRING=\"mira\ 3.4.0.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"3.4.0.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_NAMESPACES=/\*\*/ -DHAVE_STD=/\*\*/ -DHAVE_STL=/\*\*/ -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DDEVELOPMENTVERSION=0 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -c -o contig_output.o contig_output.C contig_output.C:221:21: warning: multi-character character constant [-Wmultichar] g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"3.4.0.1\" -DPACKAGE_STRING=\"mira\ 3.4.0.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"3.4.0.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_NAMESPACES=/\*\*/ -DHAVE_STD=/\*\*/ -DHAVE_STL=/\*\*/ -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DDEVELOPMENTVERSION=0 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -c -o contig_analysis.o contig_analysis.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"3.4.0.1\" -DPACKAGE_STRING=\"mira\ 3.4.0.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"3.4.0.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_NAMESPACES=/\*\*/ -DHAVE_STD=/\*\*/ -DHAVE_STL=/\*\*/ -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DDEVELOPMENTVERSION=0 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -c -o contig_edit.o contig_edit.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"3.4.0.1\" -DPACKAGE_STRING=\"mira\ 3.4.0.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"3.4.0.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_NAMESPACES=/\*\*/ -DHAVE_STD=/\*\*/ -DHAVE_STL=/\*\*/ -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DDEVELOPMENTVERSION=0 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -c -o read.o read.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"3.4.0.1\" -DPACKAGE_STRING=\"mira\ 3.4.0.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"3.4.0.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_NAMESPACES=/\*\*/ -DHAVE_STD=/\*\*/ -DHAVE_STL=/\*\*/ -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DDEVELOPMENTVERSION=0 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -c -o align.o align.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"3.4.0.1\" -DPACKAGE_STRING=\"mira\ 3.4.0.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"3.4.0.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_NAMESPACES=/\*\*/ -DHAVE_STD=/\*\*/ -DHAVE_STL=/\*\*/ -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DDEVELOPMENTVERSION=0 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -c -o dynamic.o dynamic.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"3.4.0.1\" -DPACKAGE_STRING=\"mira\ 3.4.0.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"3.4.0.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_NAMESPACES=/\*\*/ -DHAVE_STD=/\*\*/ -DHAVE_STL=/\*\*/ -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DDEVELOPMENTVERSION=0 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -c -o parameters.o parameters.C rm -f libmirasupport.a ar cru libmirasupport.a contig.o gff_parse.o parameters_flexer.o multitag.o maf_parse.o adsfacts.o ads.o assembly_output.o assembly_info.o readpool.o contig_output.o contig_analysis.o contig_edit.o read.o align.o dynamic.o parameters.o ranlib libmirasupport.a g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"3.4.0.1\" -DPACKAGE_STRING=\"mira\ 3.4.0.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"3.4.0.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_NAMESPACES=/\*\*/ -DHAVE_STD=/\*\*/ -DHAVE_STL=/\*\*/ -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DDEVELOPMENTVERSION=0 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -c -o assembly.o assembly.C assembly.C:1563:0: warning: "CEBUG" redefined [enabled by default] ../../src/stdinc/defines.H:60:0: note: this is the location of the previous definition assembly.C:2954:0: warning: "CEBUG" redefined [enabled by default] assembly.C:1563:0: note: this is the location of the previous definition g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"3.4.0.1\" -DPACKAGE_STRING=\"mira\ 3.4.0.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"3.4.0.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_NAMESPACES=/\*\*/ -DHAVE_STD=/\*\*/ -DHAVE_STL=/\*\*/ -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DDEVELOPMENTVERSION=0 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -c -o scaffolder.o scaffolder.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"3.4.0.1\" -DPACKAGE_STRING=\"mira\ 3.4.0.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"3.4.0.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_NAMESPACES=/\*\*/ -DHAVE_STD=/\*\*/ -DHAVE_STL=/\*\*/ -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DDEVELOPMENTVERSION=0 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -c -o skim.o skim.C /tmp/cc0gr1qL.s: Assembler messages: /tmp/cc0gr1qL.s:7346: Warning: swp{b} use is deprecated for this architecture /tmp/cc0gr1qL.s:7356: Warning: swp{b} use is deprecated for this architecture /tmp/cc0gr1qL.s:7373: Warning: swp{b} use is deprecated for this architecture /tmp/cc0gr1qL.s:7443: Warning: swp{b} use is deprecated for this architecture /tmp/cc0gr1qL.s:7452: Warning: swp{b} use is deprecated for this architecture /tmp/cc0gr1qL.s:7469: Warning: swp{b} use is deprecated for this architecture /tmp/cc0gr1qL.s:7514: Warning: swp{b} use is deprecated for this architecture /tmp/cc0gr1qL.s:7523: Warning: swp{b} use is deprecated for this architecture /tmp/cc0gr1qL.s:7540: Warning: swp{b} use is deprecated for this architecture /tmp/cc0gr1qL.s:15617: Warning: swp{b} use is deprecated for this architecture /tmp/cc0gr1qL.s:15626: Warning: swp{b} use is deprecated for this architecture /tmp/cc0gr1qL.s:15643: Warning: swp{b} use is deprecated for this architecture /tmp/cc0gr1qL.s:15882: Warning: swp{b} use is deprecated for this architecture /tmp/cc0gr1qL.s:15891: Warning: swp{b} use is deprecated for this architecture /tmp/cc0gr1qL.s:15908: Warning: swp{b} use is deprecated for this architecture /tmp/cc0gr1qL.s:32236: Warning: swp{b} use is deprecated for this architecture /tmp/cc0gr1qL.s:32245: Warning: swp{b} use is deprecated for this architecture /tmp/cc0gr1qL.s:32918: Warning: swp{b} use is deprecated for this architecture /tmp/cc0gr1qL.s:32927: Warning: swp{b} use is deprecated for this architecture /tmp/cc0gr1qL.s:33066: Warning: swp{b} use is deprecated for this architecture /tmp/cc0gr1qL.s:33076: Warning: swp{b} use is deprecated for this architecture /tmp/cc0gr1qL.s:33167: Warning: swp{b} use is deprecated for this architecture /tmp/cc0gr1qL.s:33176: Warning: swp{b} use is deprecated for this architecture /tmp/cc0gr1qL.s:34009: Warning: swp{b} use is deprecated for this architecture /tmp/cc0gr1qL.s:34018: Warning: swp{b} use is deprecated for this architecture /tmp/cc0gr1qL.s:34691: Warning: swp{b} use is deprecated for this architecture /tmp/cc0gr1qL.s:34700: Warning: swp{b} use is deprecated for this architecture /tmp/cc0gr1qL.s:34839: Warning: swp{b} use is deprecated for this architecture /tmp/cc0gr1qL.s:34849: Warning: swp{b} use is deprecated for this architecture /tmp/cc0gr1qL.s:34940: Warning: swp{b} use is deprecated for this architecture /tmp/cc0gr1qL.s:34949: Warning: swp{b} use is deprecated for this architecture /tmp/cc0gr1qL.s:59331: Warning: swp{b} use is deprecated for this architecture /tmp/cc0gr1qL.s:59340: Warning: swp{b} use is deprecated for this architecture /tmp/cc0gr1qL.s:59357: Warning: swp{b} use is deprecated for this architecture /tmp/cc0gr1qL.s:59457: Warning: swp{b} use is deprecated for this architecture /tmp/cc0gr1qL.s:59466: Warning: swp{b} use is deprecated for this architecture /tmp/cc0gr1qL.s:59483: Warning: swp{b} use is deprecated for this architecture /tmp/cc0gr1qL.s:67870: Warning: swp{b} use is deprecated for this architecture /tmp/cc0gr1qL.s:67879: Warning: swp{b} use is deprecated for this architecture /tmp/cc0gr1qL.s:67896: Warning: swp{b} use is deprecated for this architecture /tmp/cc0gr1qL.s:68016: Warning: swp{b} use is deprecated for this architecture /tmp/cc0gr1qL.s:68025: Warning: swp{b} use is deprecated for this architecture /tmp/cc0gr1qL.s:68042: Warning: swp{b} use is deprecated for this architecture /tmp/cc0gr1qL.s:68178: Warning: swp{b} use is deprecated for this architecture /tmp/cc0gr1qL.s:68187: Warning: swp{b} use is deprecated for this architecture /tmp/cc0gr1qL.s:68204: Warning: swp{b} use is deprecated for this architecture /tmp/cc0gr1qL.s:68795: Warning: swp{b} use is deprecated for this architecture /tmp/cc0gr1qL.s:68804: Warning: swp{b} use is deprecated for this architecture /tmp/cc0gr1qL.s:68821: Warning: swp{b} use is deprecated for this architecture g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"3.4.0.1\" -DPACKAGE_STRING=\"mira\ 3.4.0.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"3.4.0.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_NAMESPACES=/\*\*/ -DHAVE_STD=/\*\*/ -DHAVE_STL=/\*\*/ -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DDEVELOPMENTVERSION=0 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -c -o dataprocessing.o dataprocessing.C dataprocessing.C:3077:0: warning: "CEBUG" redefined [enabled by default] dataprocessing.C:44:0: note: this is the location of the previous definition dataprocessing.C:3111:0: warning: "CEBUG" redefined [enabled by default] dataprocessing.C:3077:0: note: this is the location of the previous definition /tmp/ccxIr05d.s: Assembler messages: /tmp/ccxIr05d.s:19093: Warning: swp{b} use is deprecated for this architecture /tmp/ccxIr05d.s:19103: Warning: swp{b} use is deprecated for this architecture /tmp/ccxIr05d.s:19120: Warning: swp{b} use is deprecated for this architecture /tmp/ccxIr05d.s:19172: Warning: swp{b} use is deprecated for this architecture /tmp/ccxIr05d.s:19182: Warning: swp{b} use is deprecated for this architecture /tmp/ccxIr05d.s:19199: Warning: swp{b} use is deprecated for this architecture /tmp/ccxIr05d.s:33877: Warning: swp{b} use is deprecated for this architecture /tmp/ccxIr05d.s:33885: Warning: swp{b} use is deprecated for this architecture /tmp/ccxIr05d.s:33902: Warning: swp{b} use is deprecated for this architecture /tmp/ccxIr05d.s:33936: Warning: swp{b} use is deprecated for this architecture /tmp/ccxIr05d.s:33945: Warning: swp{b} use is deprecated for this architecture /tmp/ccxIr05d.s:33962: Warning: swp{b} use is deprecated for this architecture /tmp/ccxIr05d.s:35032: Warning: swp{b} use is deprecated for this architecture /tmp/ccxIr05d.s:35041: Warning: swp{b} use is deprecated for this architecture /tmp/ccxIr05d.s:35058: Warning: swp{b} use is deprecated for this architecture /tmp/ccxIr05d.s:36218: Warning: swp{b} use is deprecated for this architecture /tmp/ccxIr05d.s:36227: Warning: swp{b} use is deprecated for this architecture /tmp/ccxIr05d.s:36244: Warning: swp{b} use is deprecated for this architecture /tmp/ccxIr05d.s:36300: Warning: swp{b} use is deprecated for this architecture /tmp/ccxIr05d.s:36309: Warning: swp{b} use is deprecated for this architecture /tmp/ccxIr05d.s:36326: Warning: swp{b} use is deprecated for this architecture /tmp/ccxIr05d.s:42050: Warning: swp{b} use is deprecated for this architecture /tmp/ccxIr05d.s:42059: Warning: swp{b} use is deprecated for this architecture /tmp/ccxIr05d.s:42076: Warning: swp{b} use is deprecated for this architecture /tmp/ccxIr05d.s:42356: Warning: swp{b} use is deprecated for this architecture /tmp/ccxIr05d.s:42364: Warning: swp{b} use is deprecated for this architecture /tmp/ccxIr05d.s:42381: Warning: swp{b} use is deprecated for this architecture /tmp/ccxIr05d.s:42658: Warning: swp{b} use is deprecated for this architecture /tmp/ccxIr05d.s:42666: Warning: swp{b} use is deprecated for this architecture /tmp/ccxIr05d.s:42683: Warning: swp{b} use is deprecated for this architecture /tmp/ccxIr05d.s:43200: Warning: swp{b} use is deprecated for this architecture /tmp/ccxIr05d.s:43208: Warning: swp{b} use is deprecated for this architecture /tmp/ccxIr05d.s:43225: Warning: swp{b} use is deprecated for this architecture /tmp/ccxIr05d.s:43821: Warning: swp{b} use is deprecated for this architecture /tmp/ccxIr05d.s:43830: Warning: swp{b} use is deprecated for this architecture /tmp/ccxIr05d.s:43847: Warning: swp{b} use is deprecated for this architecture /tmp/ccxIr05d.s:43963: Warning: swp{b} use is deprecated for this architecture /tmp/ccxIr05d.s:43973: Warning: swp{b} use is deprecated for this architecture /tmp/ccxIr05d.s:43990: Warning: swp{b} use is deprecated for this architecture /tmp/ccxIr05d.s:44555: Warning: swp{b} use is deprecated for this architecture /tmp/ccxIr05d.s:44564: Warning: swp{b} use is deprecated for this architecture /tmp/ccxIr05d.s:44581: Warning: swp{b} use is deprecated for this architecture /tmp/ccxIr05d.s:44834: Warning: swp{b} use is deprecated for this architecture /tmp/ccxIr05d.s:44843: Warning: swp{b} use is deprecated for this architecture /tmp/ccxIr05d.s:44860: Warning: swp{b} use is deprecated for this architecture g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"3.4.0.1\" -DPACKAGE_STRING=\"mira\ 3.4.0.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"3.4.0.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_NAMESPACES=/\*\*/ -DHAVE_STD=/\*\*/ -DHAVE_STL=/\*\*/ -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DDEVELOPMENTVERSION=0 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -c -o assembly_io.o assembly_io.C /tmp/ccPaeo1B.s: Assembler messages: /tmp/ccPaeo1B.s:16242: Warning: swp{b} use is deprecated for this architecture /tmp/ccPaeo1B.s:16252: Warning: swp{b} use is deprecated for this architecture /tmp/ccPaeo1B.s:16269: Warning: swp{b} use is deprecated for this architecture /tmp/ccPaeo1B.s:16321: Warning: swp{b} use is deprecated for this architecture /tmp/ccPaeo1B.s:16331: Warning: swp{b} use is deprecated for this architecture /tmp/ccPaeo1B.s:16348: Warning: swp{b} use is deprecated for this architecture /tmp/ccPaeo1B.s:19726: Warning: swp{b} use is deprecated for this architecture /tmp/ccPaeo1B.s:19735: Warning: swp{b} use is deprecated for this architecture /tmp/ccPaeo1B.s:19752: Warning: swp{b} use is deprecated for this architecture /tmp/ccPaeo1B.s:25873: Warning: swp{b} use is deprecated for this architecture /tmp/ccPaeo1B.s:25882: Warning: swp{b} use is deprecated for this architecture /tmp/ccPaeo1B.s:25900: Warning: swp{b} use is deprecated for this architecture /tmp/ccPaeo1B.s:25934: Warning: swp{b} use is deprecated for this architecture /tmp/ccPaeo1B.s:25944: Warning: swp{b} use is deprecated for this architecture /tmp/ccPaeo1B.s:25962: Warning: swp{b} use is deprecated for this architecture /tmp/ccPaeo1B.s:35280: Warning: swp{b} use is deprecated for this architecture /tmp/ccPaeo1B.s:35288: Warning: swp{b} use is deprecated for this architecture /tmp/ccPaeo1B.s:35305: Warning: swp{b} use is deprecated for this architecture /tmp/ccPaeo1B.s:35585: Warning: swp{b} use is deprecated for this architecture /tmp/ccPaeo1B.s:35593: Warning: swp{b} use is deprecated for this architecture /tmp/ccPaeo1B.s:35610: Warning: swp{b} use is deprecated for this architecture /tmp/ccPaeo1B.s:36124: Warning: swp{b} use is deprecated for this architecture /tmp/ccPaeo1B.s:36132: Warning: swp{b} use is deprecated for this architecture /tmp/ccPaeo1B.s:36149: Warning: swp{b} use is deprecated for this architecture /tmp/ccPaeo1B.s:36515: Warning: swp{b} use is deprecated for this architecture /tmp/ccPaeo1B.s:36524: Warning: swp{b} use is deprecated for this architecture /tmp/ccPaeo1B.s:36541: Warning: swp{b} use is deprecated for this architecture /tmp/ccPaeo1B.s:36580: Warning: swp{b} use is deprecated for this architecture /tmp/ccPaeo1B.s:36589: Warning: swp{b} use is deprecated for this architecture /tmp/ccPaeo1B.s:36606: Warning: swp{b} use is deprecated for this architecture /tmp/ccPaeo1B.s:36711: Warning: swp{b} use is deprecated for this architecture /tmp/ccPaeo1B.s:36721: Warning: swp{b} use is deprecated for this architecture /tmp/ccPaeo1B.s:36738: Warning: swp{b} use is deprecated for this architecture /tmp/ccPaeo1B.s:36837: Warning: swp{b} use is deprecated for this architecture /tmp/ccPaeo1B.s:36846: Warning: swp{b} use is deprecated for this architecture /tmp/ccPaeo1B.s:36863: Warning: swp{b} use is deprecated for this architecture /tmp/ccPaeo1B.s:37390: Warning: swp{b} use is deprecated for this architecture /tmp/ccPaeo1B.s:37399: Warning: swp{b} use is deprecated for this architecture /tmp/ccPaeo1B.s:37416: Warning: swp{b} use is deprecated for this architecture /tmp/ccPaeo1B.s:37669: Warning: swp{b} use is deprecated for this architecture /tmp/ccPaeo1B.s:37678: Warning: swp{b} use is deprecated for this architecture /tmp/ccPaeo1B.s:37695: Warning: swp{b} use is deprecated for this architecture g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"3.4.0.1\" -DPACKAGE_STRING=\"mira\ 3.4.0.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"3.4.0.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_NAMESPACES=/\*\*/ -DHAVE_STD=/\*\*/ -DHAVE_STL=/\*\*/ -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DDEVELOPMENTVERSION=0 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -c -o assembly_repeatresolve.o assembly_repeatresolve.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"3.4.0.1\" -DPACKAGE_STRING=\"mira\ 3.4.0.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"3.4.0.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_NAMESPACES=/\*\*/ -DHAVE_STD=/\*\*/ -DHAVE_STL=/\*\*/ -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DDEVELOPMENTVERSION=0 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -c -o assembly_reduceskimhits.o assembly_reduceskimhits.C assembly_reduceskimhits.C:716:0: warning: "CEBUG" redefined [enabled by default] assembly_reduceskimhits.C:604:0: note: this is the location of the previous definition assembly_reduceskimhits.C:789:0: warning: "CEBUG" redefined [enabled by default] assembly_reduceskimhits.C:716:0: note: this is the location of the previous definition assembly_reduceskimhits.C:1025:0: warning: "CEBUG" redefined [enabled by default] assembly_reduceskimhits.C:789:0: note: this is the location of the previous definition assembly_reduceskimhits.C:1065:0: warning: "CEBUG" redefined [enabled by default] assembly_reduceskimhits.C:1025:0: note: this is the location of the previous definition assembly_reduceskimhits.C:2476:0: warning: "CEBUG" redefined [enabled by default] assembly_reduceskimhits.C:1065:0: note: this is the location of the previous definition assembly_reduceskimhits.C:2505:0: warning: "CEBUG" redefined [enabled by default] assembly_reduceskimhits.C:2476:0: note: this is the location of the previous definition assembly_reduceskimhits.C:2510:0: warning: "CEBUG" redefined [enabled by default] assembly_reduceskimhits.C:2505:0: note: this is the location of the previous definition assembly_reduceskimhits.C:2580:0: warning: "CEBUG" redefined [enabled by default] assembly_reduceskimhits.C:2510:0: note: this is the location of the previous definition g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"3.4.0.1\" -DPACKAGE_STRING=\"mira\ 3.4.0.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"3.4.0.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_NAMESPACES=/\*\*/ -DHAVE_STD=/\*\*/ -DHAVE_STL=/\*\*/ -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DDEVELOPMENTVERSION=0 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -c -o assembly_swalign.o assembly_swalign.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"3.4.0.1\" -DPACKAGE_STRING=\"mira\ 3.4.0.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"3.4.0.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_NAMESPACES=/\*\*/ -DHAVE_STD=/\*\*/ -DHAVE_STL=/\*\*/ -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DDEVELOPMENTVERSION=0 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -c -o newpathfinder.o newpathfinder.C newpathfinder.C:4357:0: warning: "CEBUG" redefined [enabled by default] ../../src/stdinc/defines.H:60:0: note: this is the location of the previous definition newpathfinder.C:4363:0: warning: "CEBUG" redefined [enabled by default] newpathfinder.C:4357:0: note: this is the location of the previous definition rm -f libmira.a ar cru libmira.a assembly.o scaffolder.o skim.o dataprocessing.o assembly_io.o assembly_repeatresolve.o assembly_reduceskimhits.o assembly_swalign.o newpathfinder.o ranlib libmira.a make[5]: Leaving directory `/«PKGBUILDDIR»/src/mira' make[4]: Leaving directory `/«PKGBUILDDIR»/src/mira' Making all in EdIt make[4]: Entering directory `/«PKGBUILDDIR»/src/EdIt' g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"3.4.0.1\" -DPACKAGE_STRING=\"mira\ 3.4.0.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"3.4.0.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_NAMESPACES=/\*\*/ -DHAVE_STD=/\*\*/ -DHAVE_STL=/\*\*/ -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DDEVELOPMENTVERSION=0 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -c -o hypothesen.o hypothesen.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"3.4.0.1\" -DPACKAGE_STRING=\"mira\ 3.4.0.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"3.4.0.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_NAMESPACES=/\*\*/ -DHAVE_STD=/\*\*/ -DHAVE_STL=/\*\*/ -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DDEVELOPMENTVERSION=0 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -c -o parameters.o parameters.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"3.4.0.1\" -DPACKAGE_STRING=\"mira\ 3.4.0.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"3.4.0.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_NAMESPACES=/\*\*/ -DHAVE_STD=/\*\*/ -DHAVE_STL=/\*\*/ -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DDEVELOPMENTVERSION=0 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -c -o faultRegion.o faultRegion.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"3.4.0.1\" -DPACKAGE_STRING=\"mira\ 3.4.0.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"3.4.0.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_NAMESPACES=/\*\*/ -DHAVE_STD=/\*\*/ -DHAVE_STL=/\*\*/ -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DDEVELOPMENTVERSION=0 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -c -o parameters_flexer.o parameters_flexer.cc rm -f libmiraEdIt.a ar cru libmiraEdIt.a hypothesen.o parameters.o faultRegion.o parameters_flexer.o ranlib libmiraEdIt.a make[4]: Leaving directory `/«PKGBUILDDIR»/src/EdIt' Making all in caf make[4]: Entering directory `/«PKGBUILDDIR»/src/caf' g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"3.4.0.1\" -DPACKAGE_STRING=\"mira\ 3.4.0.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"3.4.0.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_NAMESPACES=/\*\*/ -DHAVE_STD=/\*\*/ -DHAVE_STL=/\*\*/ -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DDEVELOPMENTVERSION=0 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -c -o caf.o caf.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"3.4.0.1\" -DPACKAGE_STRING=\"mira\ 3.4.0.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"3.4.0.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_NAMESPACES=/\*\*/ -DHAVE_STD=/\*\*/ -DHAVE_STL=/\*\*/ -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DDEVELOPMENTVERSION=0 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -c -o caf_flexer.o caf_flexer.cc rm -f libmiracaf.a ar cru libmiracaf.a caf.o caf_flexer.o ranlib libmiracaf.a make[4]: Leaving directory `/«PKGBUILDDIR»/src/caf' Making all in examine make[4]: Entering directory `/«PKGBUILDDIR»/src/examine' g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"3.4.0.1\" -DPACKAGE_STRING=\"mira\ 3.4.0.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"3.4.0.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_NAMESPACES=/\*\*/ -DHAVE_STD=/\*\*/ -DHAVE_STL=/\*\*/ -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DDEVELOPMENTVERSION=0 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -c -o scf_look.o scf_look.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"3.4.0.1\" -DPACKAGE_STRING=\"mira\ 3.4.0.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"3.4.0.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_NAMESPACES=/\*\*/ -DHAVE_STD=/\*\*/ -DHAVE_STL=/\*\*/ -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DDEVELOPMENTVERSION=0 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -c -o ranges.o ranges.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"3.4.0.1\" -DPACKAGE_STRING=\"mira\ 3.4.0.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"3.4.0.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_NAMESPACES=/\*\*/ -DHAVE_STD=/\*\*/ -DHAVE_STL=/\*\*/ -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DDEVELOPMENTVERSION=0 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -c -o afh_info.o afh_info.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"3.4.0.1\" -DPACKAGE_STRING=\"mira\ 3.4.0.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"3.4.0.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_NAMESPACES=/\*\*/ -DHAVE_STD=/\*\*/ -DHAVE_STL=/\*\*/ -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DDEVELOPMENTVERSION=0 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -c -o cfh.o cfh.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"3.4.0.1\" -DPACKAGE_STRING=\"mira\ 3.4.0.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"3.4.0.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_NAMESPACES=/\*\*/ -DHAVE_STD=/\*\*/ -DHAVE_STL=/\*\*/ -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DDEVELOPMENTVERSION=0 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -c -o calc.o calc.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"3.4.0.1\" -DPACKAGE_STRING=\"mira\ 3.4.0.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"3.4.0.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_NAMESPACES=/\*\*/ -DHAVE_STD=/\*\*/ -DHAVE_STL=/\*\*/ -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DDEVELOPMENTVERSION=0 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -c -o prescan.o prescan.C prescan.C: In member function 'int32 prescan::initialize()': prescan.C:67:30: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"3.4.0.1\" -DPACKAGE_STRING=\"mira\ 3.4.0.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"3.4.0.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_NAMESPACES=/\*\*/ -DHAVE_STD=/\*\*/ -DHAVE_STL=/\*\*/ -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DDEVELOPMENTVERSION=0 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -c -o misc.o misc.C g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"3.4.0.1\" -DPACKAGE_STRING=\"mira\ 3.4.0.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"3.4.0.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_NAMESPACES=/\*\*/ -DHAVE_STD=/\*\*/ -DHAVE_STL=/\*\*/ -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DDEVELOPMENTVERSION=0 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -c -o buffer.o buffer.C rm -f libmiraExamine.a ar cru libmiraExamine.a scf_look.o ranges.o afh_info.o cfh.o calc.o prescan.o misc.o buffer.o ranlib libmiraExamine.a make[4]: Leaving directory `/«PKGBUILDDIR»/src/examine' Making all in knn_abi373 make[4]: Entering directory `/«PKGBUILDDIR»/src/knn_abi373' gcc -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"3.4.0.1\" -DPACKAGE_STRING=\"mira\ 3.4.0.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"3.4.0.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_NAMESPACES=/\*\*/ -DHAVE_STD=/\*\*/ -DHAVE_STL=/\*\*/ -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DDEVELOPMENTVERSION=0 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -I/usr/include -O3 -funroll-loops -I/usr/include -c wrong.c gcc -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"3.4.0.1\" -DPACKAGE_STRING=\"mira\ 3.4.0.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"3.4.0.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_NAMESPACES=/\*\*/ -DHAVE_STD=/\*\*/ -DHAVE_STL=/\*\*/ -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DDEVELOPMENTVERSION=0 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -I/usr/include -O3 -funroll-loops -I/usr/include -c under.c gcc -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"3.4.0.1\" -DPACKAGE_STRING=\"mira\ 3.4.0.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"3.4.0.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_NAMESPACES=/\*\*/ -DHAVE_STD=/\*\*/ -DHAVE_STL=/\*\*/ -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DDEVELOPMENTVERSION=0 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -I/usr/include -O3 -funroll-loops -I/usr/include -c add.c gcc -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"3.4.0.1\" -DPACKAGE_STRING=\"mira\ 3.4.0.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"3.4.0.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_NAMESPACES=/\*\*/ -DHAVE_STD=/\*\*/ -DHAVE_STL=/\*\*/ -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DDEVELOPMENTVERSION=0 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -I/usr/include -O3 -funroll-loops -I/usr/include -c over.c gcc -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"3.4.0.1\" -DPACKAGE_STRING=\"mira\ 3.4.0.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"3.4.0.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_NAMESPACES=/\*\*/ -DHAVE_STD=/\*\*/ -DHAVE_STL=/\*\*/ -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DDEVELOPMENTVERSION=0 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -I/usr/include -O3 -funroll-loops -I/usr/include -c nplus.c gcc -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"3.4.0.1\" -DPACKAGE_STRING=\"mira\ 3.4.0.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"3.4.0.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_NAMESPACES=/\*\*/ -DHAVE_STD=/\*\*/ -DHAVE_STL=/\*\*/ -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DDEVELOPMENTVERSION=0 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -I/usr/include -O3 -funroll-loops -I/usr/include -c missing.c gcc -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"3.4.0.1\" -DPACKAGE_STRING=\"mira\ 3.4.0.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"3.4.0.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_NAMESPACES=/\*\*/ -DHAVE_STD=/\*\*/ -DHAVE_STL=/\*\*/ -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DDEVELOPMENTVERSION=0 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -I/usr/include -O3 -funroll-loops -I/usr/include -c ncall.c rm -f libmiraKNN_abi373.a ar cru libmiraKNN_abi373.a wrong.o under.o add.o over.o nplus.o missing.o ncall.o ranlib libmiraKNN_abi373.a make[4]: Leaving directory `/«PKGBUILDDIR»/src/knn_abi373' Making all in knn_alf make[4]: Entering directory `/«PKGBUILDDIR»/src/knn_alf' gcc -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"3.4.0.1\" -DPACKAGE_STRING=\"mira\ 3.4.0.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"3.4.0.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_NAMESPACES=/\*\*/ -DHAVE_STD=/\*\*/ -DHAVE_STL=/\*\*/ -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DDEVELOPMENTVERSION=0 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -I/usr/include -O3 -funroll-loops -I/usr/include -c wrong.c gcc -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"3.4.0.1\" -DPACKAGE_STRING=\"mira\ 3.4.0.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"3.4.0.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_NAMESPACES=/\*\*/ -DHAVE_STD=/\*\*/ -DHAVE_STL=/\*\*/ -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DDEVELOPMENTVERSION=0 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -I/usr/include -O3 -funroll-loops -I/usr/include -c under.c gcc -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"3.4.0.1\" -DPACKAGE_STRING=\"mira\ 3.4.0.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"3.4.0.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_NAMESPACES=/\*\*/ -DHAVE_STD=/\*\*/ -DHAVE_STL=/\*\*/ -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DDEVELOPMENTVERSION=0 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -I/usr/include -O3 -funroll-loops -I/usr/include -c add.c gcc -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"3.4.0.1\" -DPACKAGE_STRING=\"mira\ 3.4.0.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"3.4.0.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_NAMESPACES=/\*\*/ -DHAVE_STD=/\*\*/ -DHAVE_STL=/\*\*/ -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DDEVELOPMENTVERSION=0 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -I/usr/include -O3 -funroll-loops -I/usr/include -c over.c gcc -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"3.4.0.1\" -DPACKAGE_STRING=\"mira\ 3.4.0.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"3.4.0.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_NAMESPACES=/\*\*/ -DHAVE_STD=/\*\*/ -DHAVE_STL=/\*\*/ -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DDEVELOPMENTVERSION=0 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -I/usr/include -O3 -funroll-loops -I/usr/include -c nplus.c gcc -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"3.4.0.1\" -DPACKAGE_STRING=\"mira\ 3.4.0.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"3.4.0.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_NAMESPACES=/\*\*/ -DHAVE_STD=/\*\*/ -DHAVE_STL=/\*\*/ -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DDEVELOPMENTVERSION=0 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -I/usr/include -O3 -funroll-loops -I/usr/include -c missing.c gcc -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"3.4.0.1\" -DPACKAGE_STRING=\"mira\ 3.4.0.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"3.4.0.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_NAMESPACES=/\*\*/ -DHAVE_STD=/\*\*/ -DHAVE_STL=/\*\*/ -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DDEVELOPMENTVERSION=0 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -I/usr/include -O3 -funroll-loops -I/usr/include -c ncall.c rm -f libmiraKNN_alf.a ar cru libmiraKNN_alf.a wrong.o under.o add.o over.o nplus.o missing.o ncall.o ranlib libmiraKNN_alf.a make[4]: Leaving directory `/«PKGBUILDDIR»/src/knn_alf' Making all in examples_programming make[4]: Entering directory `/«PKGBUILDDIR»/src/examples_programming' g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"3.4.0.1\" -DPACKAGE_STRING=\"mira\ 3.4.0.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"3.4.0.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_NAMESPACES=/\*\*/ -DHAVE_STD=/\*\*/ -DHAVE_STL=/\*\*/ -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DDEVELOPMENTVERSION=0 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -pthread -I/usr/include -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -c -o mira_101.o mira_101.C /bin/bash ../../libtool --tag=CXX --mode=link g++ -pthread -I/usr/include -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -L../io/ -L../util/ -L../errorhandling/ -L../mira -L../examine/ -L../EdIt/ -L../caf/ -L../knn_abi373 -L../knn_alf -L/usr/lib -L/«PKGBUILDDIR»/lib -L/usr/lib -L/usr/lib -lboost_thread-mt -lboost_regex-mt -o mira_101 mira_101.o -lmira -lmiraEdIt -lmiraExamine -lmirasupport -lmiraestass -lmiraerrorhandling -lmirautil -lmiradptools -lmirafio -lmiracaf -lmiraKNN_abi373 -lm -lexpat -lz -lboost_thread-mt -lboost_regex-mt -L/«PKGBUILDDIR»/lib -L/usr/lib -L/usr/lib -lexpat libtool: link: g++ -pthread -I/usr/include -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -o mira_101 mira_101.o -L../io/ -L../util/ -L../errorhandling/ -L../mira -L../examine/ -L../EdIt/ -L../caf/ -L../knn_abi373 -L../knn_alf -L/usr/lib -L/«PKGBUILDDIR»/lib -lmira -lmiraEdIt -lmiraExamine -lmirasupport -lmiraestass -lmiraerrorhandling -lmirautil -lmiradptools -lmirafio -lmiracaf -lmiraKNN_abi373 -lm -lz -lboost_thread-mt -lboost_regex-mt /usr/lib/arm-linux-gnueabihf/libexpat.so -pthread g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"3.4.0.1\" -DPACKAGE_STRING=\"mira\ 3.4.0.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"3.4.0.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_NAMESPACES=/\*\*/ -DHAVE_STD=/\*\*/ -DHAVE_STL=/\*\*/ -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DDEVELOPMENTVERSION=0 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -pthread -I/usr/include -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -c -o read_101.o read_101.C /bin/bash ../../libtool --tag=CXX --mode=link g++ -pthread -I/usr/include -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -L../io/ -L../util/ -L../errorhandling/ -L../mira -L../examine/ -L../EdIt/ -L../caf/ -L../knn_abi373 -L../knn_alf -L/usr/lib -L/«PKGBUILDDIR»/lib -L/usr/lib -L/usr/lib -lboost_thread-mt -lboost_regex-mt -o read_101 read_101.o -lmirasupport -lmiraerrorhandling -lmirautil -lmiradptools -lmirafio -lm -lz -L/«PKGBUILDDIR»/lib -L/usr/lib -L/usr/lib -lexpat libtool: link: g++ -pthread -I/usr/include -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -o read_101 read_101.o -L../io/ -L../util/ -L../errorhandling/ -L../mira -L../examine/ -L../EdIt/ -L../caf/ -L../knn_abi373 -L../knn_alf -L/usr/lib -L/«PKGBUILDDIR»/lib -lboost_thread-mt -lboost_regex-mt -lmirasupport -lmiraerrorhandling -lmirautil -lmiradptools -lmirafio -lm -lz /usr/lib/arm-linux-gnueabihf/libexpat.so -pthread g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"3.4.0.1\" -DPACKAGE_STRING=\"mira\ 3.4.0.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"3.4.0.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_NAMESPACES=/\*\*/ -DHAVE_STD=/\*\*/ -DHAVE_STL=/\*\*/ -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DDEVELOPMENTVERSION=0 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -pthread -I/usr/include -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -c -o readpool_101.o readpool_101.C /bin/bash ../../libtool --tag=CXX --mode=link g++ -pthread -I/usr/include -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -L../io/ -L../util/ -L../errorhandling/ -L../mira -L../examine/ -L../EdIt/ -L../caf/ -L../knn_abi373 -L../knn_alf -L/usr/lib -L/«PKGBUILDDIR»/lib -L/usr/lib -L/usr/lib -lboost_thread-mt -lboost_regex-mt -o readpool_101 readpool_101.o -lmirasupport -lmiraerrorhandling -lmirautil -lmiradptools -lmirafio -lm -lz -lexpat -L/«PKGBUILDDIR»/lib -L/usr/lib -L/usr/lib -lexpat libtool: link: g++ -pthread -I/usr/include -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -o readpool_101 readpool_101.o -L../io/ -L../util/ -L../errorhandling/ -L../mira -L../examine/ -L../EdIt/ -L../caf/ -L../knn_abi373 -L../knn_alf -L/usr/lib -L/«PKGBUILDDIR»/lib -lboost_thread-mt -lboost_regex-mt -lmirasupport -lmiraerrorhandling -lmirautil -lmiradptools -lmirafio -lm -lz /usr/lib/arm-linux-gnueabihf/libexpat.so -pthread make[4]: Leaving directory `/«PKGBUILDDIR»/src/examples_programming' Making all in progs make[4]: Entering directory `/«PKGBUILDDIR»/src/progs' Making .H out of .par me_step1.par.H Making .H out of .par me_step2.par.H Making .H out of .par me_step3.par.H Making .H out of .itxt compileinfo.itxt.H g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"3.4.0.1\" -DPACKAGE_STRING=\"mira\ 3.4.0.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"3.4.0.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_NAMESPACES=/\*\*/ -DHAVE_STD=/\*\*/ -DHAVE_STL=/\*\*/ -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DDEVELOPMENTVERSION=0 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -pthread -I/usr/include -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -c -o mira.o mira.C /bin/bash ../../libtool --tag=CXX --mode=link g++ -pthread -I/usr/include -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -L../io/ -L../util/ -L../errorhandling/ -L../mira -L../examine/ -L../EdIt/ -L../caf/ -L../knn_abi373 -L../knn_alf -L/usr/lib -L/«PKGBUILDDIR»/lib -L/usr/lib -L/usr/lib -lboost_thread-mt -lboost_regex-mt -o mira mira.o -lmira -lmiraEdIt -lmiraExamine -lmiraestass -lmiracaf -lmirasupport -lmirautil -lmiradptools -lmirafio -lmiraKNN_abi373 -lmiraerrorhandling -lm -lz -lexpat -lboost_thread-mt -lboost_regex-mt -L/«PKGBUILDDIR»/lib -L/usr/lib -L/usr/lib -lexpat libtool: link: g++ -pthread -I/usr/include -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -o mira mira.o -L../io/ -L../util/ -L../errorhandling/ -L../mira -L../examine/ -L../EdIt/ -L../caf/ -L../knn_abi373 -L../knn_alf -L/usr/lib -L/«PKGBUILDDIR»/lib -lmira -lmiraEdIt -lmiraExamine -lmiraestass -lmiracaf -lmirasupport -lmirautil -lmiradptools -lmirafio -lmiraKNN_abi373 -lmiraerrorhandling -lm -lz -lboost_thread-mt -lboost_regex-mt /usr/lib/arm-linux-gnueabihf/libexpat.so -pthread g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"3.4.0.1\" -DPACKAGE_STRING=\"mira\ 3.4.0.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"3.4.0.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_NAMESPACES=/\*\*/ -DHAVE_STD=/\*\*/ -DHAVE_STL=/\*\*/ -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DDEVELOPMENTVERSION=0 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -pthread -I/usr/include -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 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/usr/lib/arm-linux-gnueabihf/libexpat.so -pthread g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"3.4.0.1\" -DPACKAGE_STRING=\"mira\ 3.4.0.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"3.4.0.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_NAMESPACES=/\*\*/ -DHAVE_STD=/\*\*/ -DHAVE_STL=/\*\*/ -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DDEVELOPMENTVERSION=0 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -pthread -I/usr/include -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -c -o scftool.o scftool.C /bin/bash ../../libtool --tag=CXX --mode=link g++ -pthread -I/usr/include -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -L../io/ -L../util/ -L../errorhandling/ -L../mira -L../examine/ -L../EdIt/ -L../caf/ -L../knn_abi373 -L../knn_alf -L/usr/lib -L/«PKGBUILDDIR»/lib -L/usr/lib -L/usr/lib -lboost_thread-mt -lboost_regex-mt -o scftool scftool.o -lmirasupport -lmiraerrorhandling -lmirautil -lmiradptools -lmirafio -lz -lexpat -L/«PKGBUILDDIR»/lib -L/usr/lib -L/usr/lib -lexpat libtool: link: g++ -pthread -I/usr/include -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -o scftool scftool.o -L../io/ -L../util/ -L../errorhandling/ -L../mira -L../examine/ -L../EdIt/ -L../caf/ -L../knn_abi373 -L../knn_alf -L/usr/lib -L/«PKGBUILDDIR»/lib -lboost_thread-mt -lboost_regex-mt -lmirasupport -lmiraerrorhandling -lmirautil -lmiradptools -lmirafio -lz /usr/lib/arm-linux-gnueabihf/libexpat.so -pthread g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"3.4.0.1\" -DPACKAGE_STRING=\"mira\ 3.4.0.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"3.4.0.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_NAMESPACES=/\*\*/ -DHAVE_STD=/\*\*/ -DHAVE_STL=/\*\*/ -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DDEVELOPMENTVERSION=0 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -pthread -I/usr/include -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -c -o convert_project.o convert_project.C convert_project.C: In static member function 'static void ConvPro::saveContigList_helper(std::list&, ReadPool&)': convert_project.C:1049:18: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] convert_project.C:1053:11: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] convert_project.C:1063:18: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] convert_project.C:1067:10: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] convert_project.C:1077:18: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] convert_project.C:1081:10: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] convert_project.C:1092:18: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] convert_project.C:1096:18: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] convert_project.C:1100:18: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] convert_project.C:1104:18: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] convert_project.C:1108:10: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] convert_project.C:1111:10: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] convert_project.C:1114:10: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] convert_project.C:1117:10: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] convert_project.C:1132:18: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] convert_project.C:1136:6: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] convert_project.C:1155:18: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] convert_project.C:1159:6: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] convert_project.C:1185:22: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] convert_project.C:1190:12: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] convert_project.C:1215:22: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] convert_project.C:1220:12: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] convert_project.C:1237:18: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] convert_project.C:1241:11: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] convert_project.C:1251:18: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] convert_project.C:1255:10: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] convert_project.C:1265:18: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] convert_project.C:1269:6: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] convert_project.C:1279:18: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] convert_project.C:1283:6: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] convert_project.C:1298:18: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] convert_project.C:1302:10: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] convert_project.C:1312:18: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] convert_project.C:1316:10: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] convert_project.C:1326:18: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] convert_project.C:1330:10: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] convert_project.C: In static member function 'static uint32 ConvPro::openOFSlist(Contig*, std::list*>&)': convert_project.C:1507:100: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] convert_project.C:1510:105: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] convert_project.C:1513:100: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] convert_project.C:1516:105: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] convert_project.C:1519:100: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] convert_project.C:1522:98: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] convert_project.C:1525:98: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] convert_project.C: In member function 'int ConvPro::main2(int, char**)': convert_project.C:1876:88: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] convert_project.C:1881:93: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] convert_project.C:1885:88: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] convert_project.C:1890:93: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] convert_project.C:1894:88: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] convert_project.C:1898:86: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] convert_project.C:1902:86: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] /bin/bash ../../libtool --tag=CXX --mode=link g++ -pthread -I/usr/include -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -L../io/ -L../util/ -L../errorhandling/ -L../mira -L../examine/ -L../EdIt/ -L../caf/ -L../knn_abi373 -L../knn_alf -L/usr/lib -L/«PKGBUILDDIR»/lib -L/usr/lib -L/usr/lib -lboost_thread-mt -lboost_regex-mt -o convert_project convert_project.o -lmira -lmirasupport -lmiraerrorhandling -lmirautil -lmiradptools -lmirafio -lmiracaf -lmiraEdIt -lmiraExamine -lmiraKNN_abi373 -lz -lexpat -lboost_thread-mt -lboost_regex-mt -L/«PKGBUILDDIR»/lib -L/usr/lib -L/usr/lib -lexpat libtool: link: g++ -pthread -I/usr/include -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -o convert_project convert_project.o -L../io/ -L../util/ -L../errorhandling/ -L../mira -L../examine/ -L../EdIt/ -L../caf/ -L../knn_abi373 -L../knn_alf -L/usr/lib -L/«PKGBUILDDIR»/lib -lmira -lmirasupport -lmiraerrorhandling -lmirautil -lmiradptools -lmirafio -lmiracaf -lmiraEdIt -lmiraExamine -lmiraKNN_abi373 -lz -lboost_thread-mt -lboost_regex-mt /usr/lib/arm-linux-gnueabihf/libexpat.so -pthread g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"3.4.0.1\" -DPACKAGE_STRING=\"mira\ 3.4.0.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"3.4.0.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_NAMESPACES=/\*\*/ -DHAVE_STD=/\*\*/ -DHAVE_STL=/\*\*/ -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DDEVELOPMENTVERSION=0 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -pthread -I/usr/include -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -c -o sw.o sw.C /bin/bash ../../libtool --tag=CXX --mode=link g++ -pthread -I/usr/include -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -L../io/ -L../util/ -L../errorhandling/ -L../mira -L../examine/ -L../EdIt/ -L../caf/ -L../knn_abi373 -L../knn_alf -L/usr/lib -L/«PKGBUILDDIR»/lib -L/usr/lib -L/usr/lib -lboost_thread-mt -lboost_regex-mt -o sw sw.o -lmirasupport -lmirautil -lmiradptools -lmirafio -lmiracaf -lmiraEdIt -lmiraExamine -lmiraKNN_abi373 -lmiraerrorhandling -lz -lexpat -L/«PKGBUILDDIR»/lib -L/usr/lib -L/usr/lib -lexpat libtool: link: g++ -pthread -I/usr/include -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -o sw sw.o -L../io/ -L../util/ -L../errorhandling/ -L../mira 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-DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_NAMESPACES=/\*\*/ -DHAVE_STD=/\*\*/ -DHAVE_STL=/\*\*/ -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DDEVELOPMENTVERSION=0 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -pthread -I/usr/include -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -c -o miratest.o miratest.C /bin/bash ../../libtool --tag=CXX --mode=link g++ -pthread -I/usr/include -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -L../io/ -L../util/ -L../errorhandling/ -L../mira -L../examine/ -L../EdIt/ -L../caf/ -L../knn_abi373 -L../knn_alf -L/usr/lib -L/«PKGBUILDDIR»/lib -L/usr/lib -L/usr/lib -lboost_thread-mt -lboost_regex-mt -o miratest miratest.o -lmira -lmirasupport -lmiraestass -lmiraerrorhandling -lmirautil -lmiradptools -lz -lmirafio -lmiracaf -lmiraEdIt -lmiraExamine -lmiraKNN_abi373 -lm -lz -lexpat -lboost_thread-mt -lboost_regex-mt -L/«PKGBUILDDIR»/lib -L/usr/lib -L/usr/lib -lexpat libtool: link: g++ -pthread -I/usr/include -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -o miratest miratest.o -L../io/ -L../util/ -L../errorhandling/ -L../mira -L../examine/ -L../EdIt/ -L../caf/ -L../knn_abi373 -L../knn_alf -L/usr/lib -L/«PKGBUILDDIR»/lib -lmira -lmirasupport -lmiraestass -lmiraerrorhandling -lmirautil -lmiradptools -lmirafio -lmiracaf -lmiraEdIt -lmiraExamine -lmiraKNN_abi373 -lm -lz -lboost_thread-mt -lboost_regex-mt /usr/lib/arm-linux-gnueabihf/libexpat.so -pthread g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"3.4.0.1\" -DPACKAGE_STRING=\"mira\ 3.4.0.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"3.4.0.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_NAMESPACES=/\*\*/ -DHAVE_STD=/\*\*/ -DHAVE_STL=/\*\*/ -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DDEVELOPMENTVERSION=0 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../src -pthread -I/usr/include -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -c -o dbgreplay.o dbgreplay.C /bin/bash ../../libtool --tag=CXX --mode=link g++ -pthread -I/usr/include -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -L../io/ -L../util/ -L../errorhandling/ -L../mira -L../examine/ -L../EdIt/ -L../caf/ -L../knn_abi373 -L../knn_alf -L/usr/lib -L/«PKGBUILDDIR»/lib -L/usr/lib -L/usr/lib -lboost_thread-mt -lboost_regex-mt -o dbgreplay dbgreplay.o -lmira -lmiraEdIt -lmiraExamine -lmiraestass -lmiracaf -lmirasupport -lmirautil -lmiradptools -lmirafio -lmiraKNN_abi373 -lmiraerrorhandling -lm -lz -lexpat -lboost_thread-mt -lboost_regex-mt -L/«PKGBUILDDIR»/lib -L/usr/lib -L/usr/lib -lexpat libtool: link: g++ -pthread -I/usr/include -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -o dbgreplay dbgreplay.o -L../io/ -L../util/ -L../errorhandling/ -L../mira -L../examine/ -L../EdIt/ -L../caf/ -L../knn_abi373 -L../knn_alf -L/usr/lib -L/«PKGBUILDDIR»/lib -lmira -lmiraEdIt -lmiraExamine -lmiraestass -lmiracaf -lmirasupport -lmirautil -lmiradptools -lmirafio -lmiraKNN_abi373 -lmiraerrorhandling -lm -lz -lboost_thread-mt -lboost_regex-mt /usr/lib/arm-linux-gnueabihf/libexpat.so -pthread make[4]: Leaving directory `/«PKGBUILDDIR»/src/progs' Making all in support make[4]: Entering directory `/«PKGBUILDDIR»/src/support' make[4]: Nothing to be done for `all'. make[4]: Leaving directory `/«PKGBUILDDIR»/src/support' Making all in scripts make[4]: Entering directory `/«PKGBUILDDIR»/src/scripts' make[4]: Nothing to be done for `all'. make[4]: Leaving directory `/«PKGBUILDDIR»/src/scripts' Making all in test make[4]: Entering directory `/«PKGBUILDDIR»/src/test' Making all in io make[5]: Entering directory `/«PKGBUILDDIR»/src/test/io' Making all in fasta make[6]: Entering directory `/«PKGBUILDDIR»/src/test/io/fasta' g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"3.4.0.1\" -DPACKAGE_STRING=\"mira\ 3.4.0.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"3.4.0.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_NAMESPACES=/\*\*/ -DHAVE_STD=/\*\*/ -DHAVE_STL=/\*\*/ -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DDEVELOPMENTVERSION=0 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../../../src -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -c -o tstFASTA.o tstFASTA.C /bin/bash ../../../../libtool --tag=CXX --mode=link g++ -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -L../../../io/ -L../../../util/ -L../../../errorhandling/ -L../../../mira -L../../../examine/ -L../../../EdIt/ -L../../../caf/ -L../../../knn_abi373 -L../../../knn_alf -L/«PKGBUILDDIR»/lib -L/usr/lib -L/usr/lib -lboost_thread-mt -lboost_regex-mt -o tstFASTA tstFASTA.o -lmiraerrorhandling -lmirautil -lmirafio -L/«PKGBUILDDIR»/lib -L/usr/lib -L/usr/lib -lexpat libtool: link: g++ -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -o tstFASTA tstFASTA.o -L../../../io/ -L../../../util/ -L../../../errorhandling/ -L../../../mira -L../../../examine/ -L../../../EdIt/ -L../../../caf/ -L../../../knn_abi373 -L../../../knn_alf -L/«PKGBUILDDIR»/lib -L/usr/lib -lboost_thread-mt -lboost_regex-mt -lmiraerrorhandling -lmirautil -lmirafio /usr/lib/arm-linux-gnueabihf/libexpat.so -pthread make[6]: Leaving directory `/«PKGBUILDDIR»/src/test/io/fasta' Making all in generalio make[6]: Entering directory `/«PKGBUILDDIR»/src/test/io/generalio' g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"3.4.0.1\" -DPACKAGE_STRING=\"mira\ 3.4.0.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"3.4.0.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_NAMESPACES=/\*\*/ -DHAVE_STD=/\*\*/ -DHAVE_STL=/\*\*/ -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DDEVELOPMENTVERSION=0 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../../../src -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -c -o tstgeneralio.o tstgeneralio.C /bin/bash ../../../../libtool --tag=CXX --mode=link g++ -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -L../../../io/ -L../../../util/ -L../../../errorhandling/ -L../../../mira -L../../../examine/ -L../../../EdIt/ -L../../../caf/ -L../../../knn_abi373 -L../../../knn_alf -L/«PKGBUILDDIR»/lib -L/usr/lib -L/usr/lib -lboost_thread-mt -lboost_regex-mt -o tstgeneralio tstgeneralio.o -lmiraerrorhandling -lmirautil -lmirafio -L/«PKGBUILDDIR»/lib -L/usr/lib -L/usr/lib -lexpat libtool: link: g++ -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -o tstgeneralio tstgeneralio.o -L../../../io/ -L../../../util/ -L../../../errorhandling/ -L../../../mira -L../../../examine/ -L../../../EdIt/ -L../../../caf/ -L../../../knn_abi373 -L../../../knn_alf -L/«PKGBUILDDIR»/lib -L/usr/lib -lboost_thread-mt -lboost_regex-mt -lmiraerrorhandling -lmirautil -lmirafio /usr/lib/arm-linux-gnueabihf/libexpat.so -pthread make[6]: Leaving directory `/«PKGBUILDDIR»/src/test/io/generalio' Making all in scf make[6]: Entering directory `/«PKGBUILDDIR»/src/test/io/scf' g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"3.4.0.1\" -DPACKAGE_STRING=\"mira\ 3.4.0.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"3.4.0.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_NAMESPACES=/\*\*/ -DHAVE_STD=/\*\*/ -DHAVE_STL=/\*\*/ -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DDEVELOPMENTVERSION=0 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../../../src -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -c -o tstSCF.o tstSCF.C tstSCF.C:10:18: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings] /bin/bash ../../../../libtool --tag=CXX --mode=link g++ -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -L../../../io/ -L../../../util/ -L../../../errorhandling/ -L../../../mira -L../../../examine/ -L../../../EdIt/ -L../../../caf/ -L../../../knn_abi373 -L../../../knn_alf -L/«PKGBUILDDIR»/lib -L/usr/lib -L/usr/lib -lboost_thread-mt -lboost_regex-mt -o tstSCF tstSCF.o -lmiraerrorhandling -lmirautil -lmirafio -L/«PKGBUILDDIR»/lib -L/usr/lib -L/usr/lib -lexpat libtool: link: g++ -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -o tstSCF tstSCF.o -L../../../io/ -L../../../util/ -L../../../errorhandling/ -L../../../mira -L../../../examine/ -L../../../EdIt/ -L../../../caf/ -L../../../knn_abi373 -L../../../knn_alf -L/«PKGBUILDDIR»/lib -L/usr/lib -lboost_thread-mt -lboost_regex-mt -lmiraerrorhandling -lmirautil -lmirafio /usr/lib/arm-linux-gnueabihf/libexpat.so -pthread make[6]: Leaving directory `/«PKGBUILDDIR»/src/test/io/scf' make[6]: Entering directory `/«PKGBUILDDIR»/src/test/io' make[6]: Nothing to be done for `all-am'. make[6]: Leaving directory `/«PKGBUILDDIR»/src/test/io' make[5]: Leaving directory `/«PKGBUILDDIR»/src/test/io' Making all in mira make[5]: Entering directory `/«PKGBUILDDIR»/src/test/mira' Making all in align make[6]: Entering directory `/«PKGBUILDDIR»/src/test/mira/align' g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"3.4.0.1\" -DPACKAGE_STRING=\"mira\ 3.4.0.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"3.4.0.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_NAMESPACES=/\*\*/ -DHAVE_STD=/\*\*/ -DHAVE_STL=/\*\*/ -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DDEVELOPMENTVERSION=0 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../../../src -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -c -o tstAlign.o tstAlign.C /bin/bash ../../../../libtool --tag=CXX --mode=link g++ -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -L../../../io/ -L../../../util/ -L../../../errorhandling/ -L../../../mira -L../../../examine/ -L../../../EdIt/ -L../../../caf/ -L../../../knn_abi373 -L../../../knn_alf -L/«PKGBUILDDIR»/lib -L/usr/lib -L/usr/lib -lboost_thread-mt -lboost_regex-mt -o tstAlign tstAlign.o -lmirasupport -lmiraerrorhandling -lmirautil -lmiradptools -lmirafio -L/«PKGBUILDDIR»/lib -L/usr/lib -L/usr/lib -lexpat libtool: link: g++ -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -o tstAlign tstAlign.o -L../../../io/ -L../../../util/ -L../../../errorhandling/ -L../../../mira -L../../../examine/ -L../../../EdIt/ -L../../../caf/ -L../../../knn_abi373 -L../../../knn_alf -L/«PKGBUILDDIR»/lib -L/usr/lib -lboost_thread-mt -lboost_regex-mt -lmirasupport -lmiraerrorhandling -lmirautil -lmiradptools -lmirafio /usr/lib/arm-linux-gnueabihf/libexpat.so -pthread make[6]: Leaving directory `/«PKGBUILDDIR»/src/test/mira/align' Making all in read make[6]: Entering directory `/«PKGBUILDDIR»/src/test/mira/read' g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"3.4.0.1\" -DPACKAGE_STRING=\"mira\ 3.4.0.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"3.4.0.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_NAMESPACES=/\*\*/ -DHAVE_STD=/\*\*/ -DHAVE_STL=/\*\*/ -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DDEVELOPMENTVERSION=0 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../../../src -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -c -o tstRead.o tstRead.C /bin/bash ../../../../libtool --tag=CXX --mode=link g++ -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 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`/«PKGBUILDDIR»/src/test/mira/read' Making all in readpool make[6]: Entering directory `/«PKGBUILDDIR»/src/test/mira/readpool' g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"3.4.0.1\" -DPACKAGE_STRING=\"mira\ 3.4.0.1\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"3.4.0.1\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -D_FILE_OFFSET_BITS=64 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_NAMESPACES=/\*\*/ -DHAVE_STD=/\*\*/ -DHAVE_STL=/\*\*/ -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DDEVELOPMENTVERSION=0 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I. -I../../../../src -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -c -o tstReadPool.o tstReadPool.C /bin/bash ../../../../libtool --tag=CXX --mode=link g++ -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -L../../../io/ -L../../../util/ -L../../../errorhandling/ -L../../../mira -L../../../examine/ -L../../../EdIt/ -L../../../caf/ -L../../../knn_abi373 -L../../../knn_alf -L/«PKGBUILDDIR»/lib -L/usr/lib -L/usr/lib -lboost_thread-mt -lboost_regex-mt -o tstReadPool tstReadPool.o -lmiraerrorhandling -lmira -lmirasupport -lmiradptools -lmirautil -lmirafio -lz -lexpat -L/«PKGBUILDDIR»/lib -L/usr/lib -L/usr/lib -lexpat libtool: link: g++ -DPUBLICQUIET -DAJ_Linux64 -I/usr/include -O3 -funroll-loops -I/usr/include -pthread -I/usr/include -o tstReadPool tstReadPool.o -L../../../io/ -L../../../util/ -L../../../errorhandling/ -L../../../mira -L../../../examine/ -L../../../EdIt/ -L../../../caf/ -L../../../knn_abi373 -L../../../knn_alf -L/«PKGBUILDDIR»/lib -L/usr/lib -lboost_thread-mt -lboost_regex-mt -lmiraerrorhandling -lmira -lmirasupport -lmiradptools -lmirautil -lmirafio -lz /usr/lib/arm-linux-gnueabihf/libexpat.so -pthread make[6]: Leaving directory `/«PKGBUILDDIR»/src/test/mira/readpool' make[6]: Entering directory `/«PKGBUILDDIR»/src/test/mira' make[6]: Nothing to be done for `all-am'. make[6]: Leaving directory `/«PKGBUILDDIR»/src/test/mira' make[5]: Leaving directory `/«PKGBUILDDIR»/src/test/mira' make[5]: Entering directory `/«PKGBUILDDIR»/src/test' make[5]: Nothing to be done for `all-am'. make[5]: Leaving directory `/«PKGBUILDDIR»/src/test' make[4]: Leaving directory `/«PKGBUILDDIR»/src/test' make[4]: Entering directory `/«PKGBUILDDIR»/src' make[4]: Nothing to be done for `all-am'. make[4]: Leaving directory `/«PKGBUILDDIR»/src' make[3]: Leaving directory `/«PKGBUILDDIR»/src' make[3]: Entering directory `/«PKGBUILDDIR»' make[3]: Nothing to be done for `all-am'. make[3]: Leaving directory `/«PKGBUILDDIR»' make[2]: Leaving directory `/«PKGBUILDDIR»' make[1]: Leaving directory `/«PKGBUILDDIR»' debian/rules override_dh_auto_test make[1]: Entering directory `/«PKGBUILDDIR»' make check make[2]: Entering directory `/«PKGBUILDDIR»' Making check in src make[3]: Entering directory `/«PKGBUILDDIR»/src' Making check in lec make[4]: Entering directory `/«PKGBUILDDIR»/src/lec' make[4]: Nothing to be done for `check'. make[4]: Leaving directory `/«PKGBUILDDIR»/src/lec' Making check in io make[4]: Entering directory `/«PKGBUILDDIR»/src/io' make[4]: Nothing to be done for `check'. make[4]: Leaving directory `/«PKGBUILDDIR»/src/io' Making check in stdinc make[4]: Entering directory `/«PKGBUILDDIR»/src/stdinc' make[4]: Nothing to be done for `check'. make[4]: Leaving directory `/«PKGBUILDDIR»/src/stdinc' Making check in errorhandling make[4]: Entering directory `/«PKGBUILDDIR»/src/errorhandling' make[4]: Nothing to be done for `check'. make[4]: Leaving directory `/«PKGBUILDDIR»/src/errorhandling' Making check in util make[4]: Entering directory `/«PKGBUILDDIR»/src/util' make[4]: Nothing to be done for `check'. make[4]: Leaving directory `/«PKGBUILDDIR»/src/util' Making check in mira make[4]: Entering directory `/«PKGBUILDDIR»/src/mira' make check-am make[5]: Entering directory `/«PKGBUILDDIR»/src/mira' make[5]: Nothing to be done for `check-am'. make[5]: Leaving directory `/«PKGBUILDDIR»/src/mira' make[4]: Leaving directory `/«PKGBUILDDIR»/src/mira' Making check in EdIt make[4]: Entering directory `/«PKGBUILDDIR»/src/EdIt' make[4]: Nothing to be done for `check'. make[4]: Leaving directory `/«PKGBUILDDIR»/src/EdIt' Making check in caf make[4]: Entering directory `/«PKGBUILDDIR»/src/caf' make[4]: Nothing to be done for `check'. make[4]: Leaving directory `/«PKGBUILDDIR»/src/caf' Making check in examine make[4]: Entering directory `/«PKGBUILDDIR»/src/examine' make[4]: Nothing to be done for `check'. make[4]: Leaving directory `/«PKGBUILDDIR»/src/examine' Making check in knn_abi373 make[4]: Entering directory `/«PKGBUILDDIR»/src/knn_abi373' make[4]: Nothing to be done for `check'. make[4]: Leaving directory `/«PKGBUILDDIR»/src/knn_abi373' Making check in knn_alf make[4]: Entering directory `/«PKGBUILDDIR»/src/knn_alf' make[4]: Nothing to be done for `check'. make[4]: Leaving directory `/«PKGBUILDDIR»/src/knn_alf' Making check in examples_programming make[4]: Entering directory `/«PKGBUILDDIR»/src/examples_programming' make[4]: Nothing to be done for `check'. make[4]: Leaving directory `/«PKGBUILDDIR»/src/examples_programming' Making check in progs make[4]: Entering directory `/«PKGBUILDDIR»/src/progs' Making .H out of .itxt compileinfo.itxt.H make[4]: Leaving directory `/«PKGBUILDDIR»/src/progs' Making check in support make[4]: Entering directory `/«PKGBUILDDIR»/src/support' make[4]: Nothing to be done for `check'. make[4]: Leaving directory `/«PKGBUILDDIR»/src/support' Making check in scripts make[4]: Entering directory `/«PKGBUILDDIR»/src/scripts' make[4]: Nothing to be done for `check'. make[4]: Leaving directory `/«PKGBUILDDIR»/src/scripts' Making check in test make[4]: Entering directory `/«PKGBUILDDIR»/src/test' Making check in io make[5]: Entering directory `/«PKGBUILDDIR»/src/test/io' Making check in fasta make[6]: Entering directory `/«PKGBUILDDIR»/src/test/io/fasta' make[6]: Nothing to be done for `check'. make[6]: Leaving directory `/«PKGBUILDDIR»/src/test/io/fasta' Making check in generalio make[6]: Entering directory `/«PKGBUILDDIR»/src/test/io/generalio' make[6]: Nothing to be done for `check'. make[6]: Leaving directory `/«PKGBUILDDIR»/src/test/io/generalio' Making check in scf make[6]: Entering directory `/«PKGBUILDDIR»/src/test/io/scf' make[6]: Nothing to be done for `check'. make[6]: Leaving directory `/«PKGBUILDDIR»/src/test/io/scf' make[6]: Entering directory `/«PKGBUILDDIR»/src/test/io' make[6]: Nothing to be done for `check-am'. make[6]: Leaving directory `/«PKGBUILDDIR»/src/test/io' make[5]: Leaving directory `/«PKGBUILDDIR»/src/test/io' Making check in mira make[5]: Entering directory `/«PKGBUILDDIR»/src/test/mira' Making check in align make[6]: Entering directory `/«PKGBUILDDIR»/src/test/mira/align' make[6]: Nothing to be done for `check'. make[6]: Leaving directory `/«PKGBUILDDIR»/src/test/mira/align' Making check in read make[6]: Entering directory `/«PKGBUILDDIR»/src/test/mira/read' make[6]: Nothing to be done for `check'. make[6]: Leaving directory `/«PKGBUILDDIR»/src/test/mira/read' Making check in readpool make[6]: Entering directory `/«PKGBUILDDIR»/src/test/mira/readpool' make[6]: Nothing to be done for `check'. make[6]: Leaving directory `/«PKGBUILDDIR»/src/test/mira/readpool' make[6]: Entering directory `/«PKGBUILDDIR»/src/test/mira' make[6]: Nothing to be done for `check-am'. make[6]: Leaving directory `/«PKGBUILDDIR»/src/test/mira' make[5]: Leaving directory `/«PKGBUILDDIR»/src/test/mira' make[5]: Entering directory `/«PKGBUILDDIR»/src/test' make[5]: Nothing to be done for `check-am'. make[5]: Leaving directory `/«PKGBUILDDIR»/src/test' make[4]: Leaving directory `/«PKGBUILDDIR»/src/test' make[4]: Entering directory `/«PKGBUILDDIR»/src' make[4]: Nothing to be done for `check-am'. make[4]: Leaving directory `/«PKGBUILDDIR»/src' make[3]: Leaving directory `/«PKGBUILDDIR»/src' make[3]: Entering directory `/«PKGBUILDDIR»' make[3]: Nothing to be done for `check-am'. make[3]: Leaving directory `/«PKGBUILDDIR»' make[2]: Leaving directory `/«PKGBUILDDIR»' fakeroot debian/rules binary-arch make[1]: Leaving directory `/«PKGBUILDDIR»' dh binary-arch dh_testroot -a dh_prep -a rm -f debian/mira-assembler.substvars rm -f debian/mira-assembler.*.debhelper rm -rf debian/mira-assembler/ dh_installdirs -a install -d debian/mira-assembler install -d debian/mira-assembler/usr/bin debian/rules override_dh_auto_install make[1]: Entering directory `/«PKGBUILDDIR»' make install DESTDIR=/«PKGBUILDDIR»/debian/mira-assembler make[2]: Entering directory `/«PKGBUILDDIR»' Making install in src make[3]: Entering directory `/«PKGBUILDDIR»/src' Making install in lec make[4]: Entering directory `/«PKGBUILDDIR»/src/lec' make[5]: Entering directory `/«PKGBUILDDIR»/src/lec' make[5]: Nothing to be done for `install-exec-am'. make[5]: Nothing to be done for `install-data-am'. make[5]: Leaving directory `/«PKGBUILDDIR»/src/lec' make[4]: Leaving directory `/«PKGBUILDDIR»/src/lec' Making install in io make[4]: Entering directory `/«PKGBUILDDIR»/src/io' make[5]: Entering directory `/«PKGBUILDDIR»/src/io' make[5]: Nothing to be done for `install-exec-am'. make[5]: Nothing to be done for `install-data-am'. make[5]: Leaving directory `/«PKGBUILDDIR»/src/io' make[4]: Leaving directory `/«PKGBUILDDIR»/src/io' Making install in stdinc make[4]: Entering directory `/«PKGBUILDDIR»/src/stdinc' make[5]: Entering directory `/«PKGBUILDDIR»/src/stdinc' make[5]: Nothing to be done for `install-exec-am'. make[5]: Nothing to be done for `install-data-am'. make[5]: Leaving directory `/«PKGBUILDDIR»/src/stdinc' make[4]: Leaving directory `/«PKGBUILDDIR»/src/stdinc' Making install in errorhandling make[4]: Entering directory `/«PKGBUILDDIR»/src/errorhandling' make[5]: Entering directory `/«PKGBUILDDIR»/src/errorhandling' make[5]: Nothing to be done for `install-exec-am'. make[5]: Nothing to be done for `install-data-am'. make[5]: Leaving directory `/«PKGBUILDDIR»/src/errorhandling' make[4]: Leaving directory `/«PKGBUILDDIR»/src/errorhandling' Making install in util make[4]: Entering directory `/«PKGBUILDDIR»/src/util' make[5]: Entering directory `/«PKGBUILDDIR»/src/util' make[5]: Nothing to be done for `install-exec-am'. make[5]: Nothing to be done for `install-data-am'. make[5]: Leaving directory `/«PKGBUILDDIR»/src/util' make[4]: Leaving directory `/«PKGBUILDDIR»/src/util' Making install in mira make[4]: Entering directory `/«PKGBUILDDIR»/src/mira' make install-am make[5]: Entering directory `/«PKGBUILDDIR»/src/mira' make[6]: Entering directory `/«PKGBUILDDIR»/src/mira' make[6]: Nothing to be done for `install-exec-am'. test -z "/usr/share/mira" || /bin/mkdir -p "/«PKGBUILDDIR»/debian/mira-assembler/usr/share/mira" /usr/bin/install -c -m 644 demoparam.prm '/«PKGBUILDDIR»/debian/mira-assembler/usr/share/mira' make[6]: Leaving directory `/«PKGBUILDDIR»/src/mira' make[5]: Leaving directory `/«PKGBUILDDIR»/src/mira' make[4]: Leaving directory `/«PKGBUILDDIR»/src/mira' Making install in EdIt make[4]: Entering directory `/«PKGBUILDDIR»/src/EdIt' make[5]: Entering directory `/«PKGBUILDDIR»/src/EdIt' make[5]: Nothing to be done for `install-exec-am'. make[5]: Nothing to be done for `install-data-am'. make[5]: Leaving directory `/«PKGBUILDDIR»/src/EdIt' make[4]: Leaving directory `/«PKGBUILDDIR»/src/EdIt' Making install in caf make[4]: Entering directory `/«PKGBUILDDIR»/src/caf' make[5]: Entering directory `/«PKGBUILDDIR»/src/caf' make[5]: Nothing to be done for `install-exec-am'. make[5]: Nothing to be done for `install-data-am'. make[5]: Leaving directory `/«PKGBUILDDIR»/src/caf' make[4]: Leaving directory `/«PKGBUILDDIR»/src/caf' Making install in examine make[4]: Entering directory `/«PKGBUILDDIR»/src/examine' make[5]: Entering directory `/«PKGBUILDDIR»/src/examine' make[5]: Nothing to be done for `install-exec-am'. make[5]: Nothing to be done for `install-data-am'. make[5]: Leaving directory `/«PKGBUILDDIR»/src/examine' make[4]: Leaving directory `/«PKGBUILDDIR»/src/examine' Making install in knn_abi373 make[4]: Entering directory `/«PKGBUILDDIR»/src/knn_abi373' make[5]: Entering directory `/«PKGBUILDDIR»/src/knn_abi373' make[5]: Nothing to be done for `install-exec-am'. make[5]: Nothing to be done for `install-data-am'. make[5]: Leaving directory `/«PKGBUILDDIR»/src/knn_abi373' make[4]: Leaving directory `/«PKGBUILDDIR»/src/knn_abi373' Making install in knn_alf make[4]: Entering directory `/«PKGBUILDDIR»/src/knn_alf' make[5]: Entering directory `/«PKGBUILDDIR»/src/knn_alf' make[5]: Nothing to be done for `install-exec-am'. make[5]: Nothing to be done for `install-data-am'. make[5]: Leaving directory `/«PKGBUILDDIR»/src/knn_alf' make[4]: Leaving directory `/«PKGBUILDDIR»/src/knn_alf' Making install in examples_programming make[4]: Entering directory `/«PKGBUILDDIR»/src/examples_programming' make[5]: Entering directory `/«PKGBUILDDIR»/src/examples_programming' make[5]: Nothing to be done for `install-exec-am'. make[5]: Nothing to be done for `install-data-am'. make[5]: Leaving directory `/«PKGBUILDDIR»/src/examples_programming' make[4]: Leaving directory `/«PKGBUILDDIR»/src/examples_programming' Making install in progs make[4]: Entering directory `/«PKGBUILDDIR»/src/progs' Making .H out of .itxt compileinfo.itxt.H make[5]: Entering directory `/«PKGBUILDDIR»/src/progs' test -z "/usr/bin" || /bin/mkdir -p "/«PKGBUILDDIR»/debian/mira-assembler/usr/bin" /bin/bash ../../libtool --mode=install /usr/bin/install -c mira fastatool scftool convert_project '/«PKGBUILDDIR»/debian/mira-assembler/usr/bin' libtool: install: /usr/bin/install -c mira /«PKGBUILDDIR»/debian/mira-assembler/usr/bin/mira libtool: install: /usr/bin/install -c fastatool /«PKGBUILDDIR»/debian/mira-assembler/usr/bin/fastatool libtool: install: /usr/bin/install -c scftool /«PKGBUILDDIR»/debian/mira-assembler/usr/bin/scftool libtool: install: /usr/bin/install -c convert_project /«PKGBUILDDIR»/debian/mira-assembler/usr/bin/convert_project make install-exec-hook make[6]: Entering directory `/«PKGBUILDDIR»/src/progs' cd /«PKGBUILDDIR»/debian/mira-assembler/usr/bin && \ rm -f miraSearchESTSNPs && \ rm -f miraclip && \ rm -f miramem && \ ln -s mira miramem && \ ln -s mira miraSearchESTSNPs && \ ln -s mira miraclip make[6]: Leaving directory `/«PKGBUILDDIR»/src/progs' make[5]: Nothing to be done for `install-data-am'. make[5]: Leaving directory `/«PKGBUILDDIR»/src/progs' make[4]: Leaving directory `/«PKGBUILDDIR»/src/progs' Making install in support make[4]: Entering directory `/«PKGBUILDDIR»/src/support' make[5]: Entering directory `/«PKGBUILDDIR»/src/support' make[5]: Nothing to be done for `install-exec-am'. test -z "/usr/share/mira/support_3rdparty_tools" || /bin/mkdir -p "/«PKGBUILDDIR»/debian/mira-assembler/usr/share/mira/support_3rdparty_tools" /usr/bin/install -c -m 644 consedrc.13.0 consedtaglib.txt GTAGDB README '/«PKGBUILDDIR»/debian/mira-assembler/usr/share/mira/support_3rdparty_tools' make[5]: Leaving directory `/«PKGBUILDDIR»/src/support' make[4]: Leaving directory `/«PKGBUILDDIR»/src/support' Making install in scripts make[4]: Entering directory `/«PKGBUILDDIR»/src/scripts' make[5]: Entering directory `/«PKGBUILDDIR»/src/scripts' make install-exec-hook make[6]: Entering directory `/«PKGBUILDDIR»/src/scripts' rm -f /«PKGBUILDDIR»/debian/mira-assembler/usr/bin/fastaselect.tcl && \ cp fastaselect.tcl /«PKGBUILDDIR»/debian/mira-assembler/usr/bin rm -f /«PKGBUILDDIR»/debian/mira-assembler/usr/bin/fastqselect.tcl && \ cp fastqselect.tcl /«PKGBUILDDIR»/debian/mira-assembler/usr/bin rm -f /«PKGBUILDDIR»/debian/mira-assembler/usr/bin/fixACE4consed.tcl && \ cp fixACE4consed.tcl /«PKGBUILDDIR»/debian/mira-assembler/usr/bin rm -f /«PKGBUILDDIR»/debian/mira-assembler/usr/bin/fasta2frag.tcl && \ cp fasta2frag.tcl /«PKGBUILDDIR»/debian/mira-assembler/usr/bin make[6]: Leaving directory `/«PKGBUILDDIR»/src/scripts' make[5]: Nothing to be done for `install-data-am'. make[5]: Leaving directory `/«PKGBUILDDIR»/src/scripts' make[4]: Leaving directory `/«PKGBUILDDIR»/src/scripts' Making install in test make[4]: Entering directory `/«PKGBUILDDIR»/src/test' Making install in io make[5]: Entering directory `/«PKGBUILDDIR»/src/test/io' Making install in fasta make[6]: Entering directory `/«PKGBUILDDIR»/src/test/io/fasta' make[7]: Entering directory `/«PKGBUILDDIR»/src/test/io/fasta' make[7]: Nothing to be done for `install-exec-am'. make[7]: Nothing to be done for `install-data-am'. make[7]: Leaving directory `/«PKGBUILDDIR»/src/test/io/fasta' make[6]: Leaving directory `/«PKGBUILDDIR»/src/test/io/fasta' Making install in generalio make[6]: Entering directory `/«PKGBUILDDIR»/src/test/io/generalio' make[7]: Entering directory `/«PKGBUILDDIR»/src/test/io/generalio' make[7]: Nothing to be done for `install-exec-am'. make[7]: Nothing to be done for `install-data-am'. make[7]: Leaving directory `/«PKGBUILDDIR»/src/test/io/generalio' make[6]: Leaving directory `/«PKGBUILDDIR»/src/test/io/generalio' Making install in scf make[6]: Entering directory `/«PKGBUILDDIR»/src/test/io/scf' make[7]: Entering directory `/«PKGBUILDDIR»/src/test/io/scf' make[7]: Nothing to be done for `install-exec-am'. make[7]: Nothing to be done for `install-data-am'. make[7]: Leaving directory `/«PKGBUILDDIR»/src/test/io/scf' make[6]: Leaving directory `/«PKGBUILDDIR»/src/test/io/scf' make[6]: Entering directory `/«PKGBUILDDIR»/src/test/io' make[7]: Entering directory `/«PKGBUILDDIR»/src/test/io' make[7]: Nothing to be done for `install-exec-am'. make[7]: Nothing to be done for `install-data-am'. make[7]: Leaving directory `/«PKGBUILDDIR»/src/test/io' make[6]: Leaving directory `/«PKGBUILDDIR»/src/test/io' make[5]: Leaving directory `/«PKGBUILDDIR»/src/test/io' Making install in mira make[5]: Entering directory `/«PKGBUILDDIR»/src/test/mira' Making install in align make[6]: Entering directory `/«PKGBUILDDIR»/src/test/mira/align' make[7]: Entering directory `/«PKGBUILDDIR»/src/test/mira/align' make[7]: Nothing to be done for `install-exec-am'. make[7]: Nothing to be done for `install-data-am'. make[7]: Leaving directory `/«PKGBUILDDIR»/src/test/mira/align' make[6]: Leaving directory `/«PKGBUILDDIR»/src/test/mira/align' Making install in read make[6]: Entering directory `/«PKGBUILDDIR»/src/test/mira/read' make[7]: Entering directory `/«PKGBUILDDIR»/src/test/mira/read' make[7]: Nothing to be done for `install-exec-am'. make[7]: Nothing to be done for `install-data-am'. make[7]: Leaving directory `/«PKGBUILDDIR»/src/test/mira/read' make[6]: Leaving directory `/«PKGBUILDDIR»/src/test/mira/read' Making install in readpool make[6]: Entering directory `/«PKGBUILDDIR»/src/test/mira/readpool' make[7]: Entering directory `/«PKGBUILDDIR»/src/test/mira/readpool' make[7]: Nothing to be done for `install-exec-am'. make[7]: Nothing to be done for `install-data-am'. make[7]: Leaving directory `/«PKGBUILDDIR»/src/test/mira/readpool' make[6]: Leaving directory `/«PKGBUILDDIR»/src/test/mira/readpool' make[6]: Entering directory `/«PKGBUILDDIR»/src/test/mira' make[7]: Entering directory `/«PKGBUILDDIR»/src/test/mira' make[7]: Nothing to be done for `install-exec-am'. make[7]: Nothing to be done for `install-data-am'. make[7]: Leaving directory `/«PKGBUILDDIR»/src/test/mira' make[6]: Leaving directory `/«PKGBUILDDIR»/src/test/mira' make[5]: Leaving directory `/«PKGBUILDDIR»/src/test/mira' make[5]: Entering directory `/«PKGBUILDDIR»/src/test' make[6]: Entering directory `/«PKGBUILDDIR»/src/test' make[6]: Nothing to be done for `install-exec-am'. make[6]: Nothing to be done for `install-data-am'. make[6]: Leaving directory `/«PKGBUILDDIR»/src/test' make[5]: Leaving directory `/«PKGBUILDDIR»/src/test' make[4]: Leaving directory `/«PKGBUILDDIR»/src/test' make[4]: Entering directory `/«PKGBUILDDIR»/src' make[5]: Entering directory `/«PKGBUILDDIR»/src' make[5]: Nothing to be done for `install-exec-am'. make[5]: Nothing to be done for `install-data-am'. make[5]: Leaving directory `/«PKGBUILDDIR»/src' make[4]: Leaving directory `/«PKGBUILDDIR»/src' make[3]: Leaving directory `/«PKGBUILDDIR»/src' make[3]: Entering directory `/«PKGBUILDDIR»' make[4]: Entering directory `/«PKGBUILDDIR»' make[4]: Nothing to be done for `install-exec-am'. make[4]: Nothing to be done for `install-data-am'. make[4]: Leaving directory `/«PKGBUILDDIR»' make[3]: Leaving directory `/«PKGBUILDDIR»' make[2]: Leaving directory `/«PKGBUILDDIR»' #There is no installation target for the docs mkdir -p /«PKGBUILDDIR»/debian/tmp/usr/share/doc/mira-assembler cp -r -t /«PKGBUILDDIR»/debian/tmp/usr/share/doc/mira-assembler doc/docbook/bookfigures doc/docbook/images \ doc/docbook/doccss doc/docbook/DefinitiveGuideToMIRA.html || true cp: cannot stat `doc/docbook/DefinitiveGuideToMIRA.html': No such file or directory make[1]: Leaving directory `/«PKGBUILDDIR»' debian/rules override_dh_install make[1]: Entering directory `/«PKGBUILDDIR»' dh_install cp -a ./src/progs/fastatool debian/mira-assembler/usr/bin// cp -a ./src/progs/mira debian/mira-assembler/usr/bin// cp -a ./src/progs/scftool debian/mira-assembler/usr/bin// cp -a ./src/progs/sw debian/mira-assembler/usr/bin// cp -a ./src/progs/convert_project debian/mira-assembler/usr/bin// cp -a ./src/scripts/fasta2frag.tcl debian/mira-assembler/usr/bin// cp -a ./src/scripts/fastaselect.tcl debian/mira-assembler/usr/bin// cp -a ./src/scripts/fastqselect.tcl debian/mira-assembler/usr/bin// if [ -d debian/mira-assembler ] ; then \ for f in $(ls debian/mira-assembler/usr/bin/*.tcl) ; do mv "$f" "${f%.tcl}"; done \ fi make[1]: Leaving directory `/«PKGBUILDDIR»' dh_installdocs -a install -g 0 -o 0 -d debian/mira-assembler/usr/share/doc/mira-assembler cp -a NEWS debian/mira-assembler/usr/share/doc/mira-assembler cp -a README debian/mira-assembler/usr/share/doc/mira-assembler cp -a THANKS debian/mira-assembler/usr/share/doc/mira-assembler cp -a HELP_WANTED debian/mira-assembler/usr/share/doc/mira-assembler chown -R 0:0 debian/mira-assembler/usr/share/doc chmod -R go=rX debian/mira-assembler/usr/share/doc chmod -R u\+rw debian/mira-assembler/usr/share/doc install -g 0 -o 0 -m 644 -p debian/copyright debian/mira-assembler/usr/share/doc/mira-assembler/copyright dh_installchangelogs -a install -o 0 -g 0 -p -m644 debian/changelog debian/mira-assembler/usr/share/doc/mira-assembler/changelog.Debian dh_installexamples -a dh_installman -a dh_installcatalogs -a dh_installcron -a dh_installdebconf -a install -o 0 -g 0 -d debian/mira-assembler/DEBIAN dh_installemacsen -a dh_installifupdown -a dh_installinfo -a dh_installinit -a dh_installmenu -a dh_installmime -a dh_installmodules -a dh_installlogcheck -a dh_installlogrotate -a dh_installpam -a dh_installppp -a dh_installudev -a dh_installwm -a dh_installxfonts -a dh_installgsettings -a dh_bugfiles -a dh_ucf -a dh_lintian -a dh_gconf -a dh_icons -a dh_perl -a dh_usrlocal -a dh_link -a rm -f debian/mira-assembler/usr/bin/miraSearchESTSNPs ln -sf mira debian/mira-assembler/usr/bin/miraSearchESTSNPs rm -f debian/mira-assembler/usr/bin/miraclip ln -sf mira debian/mira-assembler/usr/bin/miraclip rm -f debian/mira-assembler/usr/bin/miramem ln -sf mira debian/mira-assembler/usr/bin/miramem dh_compress -a cd debian/mira-assembler chmod a-x usr/share/doc/mira-assembler/changelog.Debian usr/share/doc/mira-assembler/NEWS gzip -9nf usr/share/doc/mira-assembler/changelog.Debian usr/share/doc/mira-assembler/NEWS cd '/«PKGBUILDDIR»' dh_fixperms -a find debian/mira-assembler -print0 2>/dev/null | xargs -0r chown --no-dereference 0:0 find debian/mira-assembler ! -type l -print0 2>/dev/null | xargs -0r chmod go=rX,u+rw,a-s find debian/mira-assembler/usr/share/doc -type f ! -regex 'debian/mira-assembler/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 644 find debian/mira-assembler/usr/share/doc -type d -print0 2>/dev/null | xargs -0r chmod 755 find debian/mira-assembler/usr/share/man debian/mira-assembler/usr/man/ debian/mira-assembler/usr/X11*/man/ -type f -print0 2>/dev/null | xargs -0r chmod 644 find debian/mira-assembler -perm -5 -type f \( -name '*.so.*' -or -name '*.so' -or -name '*.la' -or -name '*.a' \) -print0 2>/dev/null | xargs -0r chmod 644 find debian/mira-assembler/usr/include -type f -print0 2>/dev/null | xargs -0r chmod 644 find debian/mira-assembler/usr/share/applications -type f -print0 2>/dev/null | xargs -0r chmod 644 find debian/mira-assembler -perm -5 -type f \( -name '*.cmxs' \) -print0 2>/dev/null | xargs -0r chmod 644 find debian/mira-assembler/usr/lib/perl5 debian/mira-assembler/usr/share/perl5 -type f -perm -5 -name '*.pm' -print0 2>/dev/null | xargs -0r chmod a-X find debian/mira-assembler/usr/bin -type f -print0 2>/dev/null | xargs -0r chmod a+x find debian/mira-assembler/usr/lib -type f -name '*.ali' -print0 2>/dev/null | xargs -0r chmod uga-w dh_strip -a strip --remove-section=.comment --remove-section=.note debian/mira-assembler/usr/bin/sw strip --remove-section=.comment --remove-section=.note debian/mira-assembler/usr/bin/mira strip --remove-section=.comment --remove-section=.note debian/mira-assembler/usr/bin/scftool strip --remove-section=.comment --remove-section=.note debian/mira-assembler/usr/bin/convert_project strip --remove-section=.comment --remove-section=.note debian/mira-assembler/usr/bin/fastatool dh_makeshlibs -a rm -f debian/mira-assembler/DEBIAN/shlibs dh_shlibdeps -a dpkg-shlibdeps -Tdebian/mira-assembler.substvars debian/mira-assembler/usr/bin/sw debian/mira-assembler/usr/bin/mira debian/mira-assembler/usr/bin/scftool debian/mira-assembler/usr/bin/convert_project debian/mira-assembler/usr/bin/fastatool dpkg-shlibdeps: warning: debian/mira-assembler/usr/bin/scftool contains an unresolvable reference to symbol __aeabi_unwind_cpp_pr1@GCC_3.5: it's probably a plugin. dpkg-shlibdeps: warning: debian/mira-assembler/usr/bin/mira contains an unresolvable reference to symbol __aeabi_unwind_cpp_pr1@GCC_3.5: it's probably a plugin. dpkg-shlibdeps: warning: debian/mira-assembler/usr/bin/fastatool contains an unresolvable reference to symbol __aeabi_unwind_cpp_pr1@GCC_3.5: it's probably a plugin. dpkg-shlibdeps: warning: debian/mira-assembler/usr/bin/convert_project contains an unresolvable reference to symbol __aeabi_unwind_cpp_pr1@GCC_3.5: it's probably a plugin. dpkg-shlibdeps: warning: debian/mira-assembler/usr/bin/sw contains an unresolvable reference to symbol __aeabi_unwind_cpp_pr1@GCC_3.5: it's probably a plugin. dh_installdeb -a dh_gencontrol -a echo misc:Depends= >> debian/mira-assembler.substvars dpkg-gencontrol -pmira-assembler -ldebian/changelog -Tdebian/mira-assembler.substvars -Pdebian/mira-assembler chmod 644 debian/mira-assembler/DEBIAN/control chown 0:0 debian/mira-assembler/DEBIAN/control dh_md5sums -a (cd debian/mira-assembler >/dev/null ; find . -type f ! -regex './DEBIAN/.*' -printf '%P\0' | LC_ALL=C sort -z | xargs -r0 md5sum > DEBIAN/md5sums) >/dev/null chmod 644 debian/mira-assembler/DEBIAN/md5sums chown 0:0 debian/mira-assembler/DEBIAN/md5sums dh_builddeb -a dpkg-deb --build debian/mira-assembler .. dpkg-deb: building package `mira-assembler' in `../mira-assembler_3.4.0.1-3_armhf.deb'. dpkg-genchanges -B -mbuildd >../mira_3.4.0.1-3_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 mira-3.4.0.1 dpkg-buildpackage: binary only upload (no source included) ──────────────────────────────────────────────────────────────────────────────── Build finished at 20120612-2101 Finished ──────── I: Built successfully ┌──────────────────────────────────────────────────────────────────────────────┐ │ Changes │ └──────────────────────────────────────────────────────────────────────────────┘ mira_3.4.0.1-3_armhf.changes: ───────────────────────────── Format: 1.8 Date: Mon, 28 May 2012 10:51:01 +0900 Source: mira Binary: mira-assembler mira-examples mira-doc Architecture: armhf Version: 3.4.0.1-3 Distribution: testing Urgency: low Maintainer: buildd Changed-By: Charles Plessy Description: mira-assembler - Whole Genome Shotgun and EST Sequence Assembler mira-doc - documentation for the mira assembler mira-examples - files to experiment with the mira assembler Closes: 673527 674822 Changes: mira (3.4.0.1-3) unstable; urgency=low . [ Charles Plessy ] * Build-depend on libgoogle-perftools-dev instead of libtcmalloc-minimal0 (debian/control, debian/README.source, debian/rules). Closes: #673527, #674822 * Conforms to Policy 3.9.3 (debian/control, no other changes needed). * Rely on dpkg source format 3.0 (quilt) for the patches, and remove build dependance on quilt (debian/control, debian/rules). * Verbose Debhelper (debian/rules). . [ Andreas Tille ] * debian/upstream: very small fix to prevent bibcheck warning Checksums-Sha1: a4baf344daf1c5b72059c7caa1bbf86bb4cdd6ec 3458798 mira-assembler_3.4.0.1-3_armhf.deb Checksums-Sha256: 96ab7481603126bcb35c844f83d973baea56e26248fbe45a20014f066202ad2d 3458798 mira-assembler_3.4.0.1-3_armhf.deb Files: 6e1d3e898f62d01f685c36f24154bb00 3458798 science optional mira-assembler_3.4.0.1-3_armhf.deb ┌──────────────────────────────────────────────────────────────────────────────┐ │ Package contents │ └──────────────────────────────────────────────────────────────────────────────┘ mira-assembler_3.4.0.1-3_armhf.deb ────────────────────────────────── new debian package, version 2.0. size 3458798 bytes: control archive= 2064 bytes. 2539 bytes, 47 lines control 1307 bytes, 20 lines md5sums Package: mira-assembler Source: mira Version: 3.4.0.1-3 Architecture: armhf Maintainer: Debian Med Packaging Team Installed-Size: 7256 Depends: libboost-regex1.49.0 (>= 1.49.0-1), libboost-thread1.49.0 (>= 1.49.0-1), libc6 (>= 2.13-28), libexpat1 (>= 2.0.1), libgcc1 (>= 1:4.4.0), libstdc++6 (>= 4.6), zlib1g (>= 1:1.2.3.3) Suggests: mira-examples, mira-doc Section: science Priority: optional Homepage: http://chevreux.org/projects_mira.html Description: Whole Genome Shotgun and EST Sequence Assembler The mira genome fragment assembler is a specialised assembler for sequencing projects classified as 'hard' due to high number of similar repeats. For expressed sequence tags (ESTs) transcripts, miraEST is specialised on reconstructing pristine mRNA transcripts while detecting and classifying single nucleotide polymorphisms (SNP) occuring in different variations thereof. . The assembler is routinely used for such various tasks as mutation detection in different cell types, similarity analysis of transcripts between organisms, and pristine assembly of sequences from various sources for oligo design in clinical microarray experiments. . The package provides the following executables: Binaries provided: * mira: for assembly of genome sequences * miramem: estimating memory needed to assemble projects. Realised through link to mira. * convert_project: for converting project file types into other types * caf2fasta, caf2gbf, caf2text, caf2html, gbf2caf and gbf2fasta are some frequently used file converters (realised through links to convert_project) * scftool: set of tools useful when working with SCF trace files * fastatool: set of tools useful when working with FASTA trace files . Scripts provided: * fasta2frag.tcl: fragmenting sequences into smaller, overlapping subsequences. Useful for simulating shotgun sequences. Can create subsequences in both directions (/default) and also paired-end sequences. * fastaselect.tcl: given a FASTA file (and possibly a FASTA quality file) and a file with names of reads, select the sequences from the input FASTA (and quality file) and writes them to an output FASTA * fastqselect.tcl: like fastaselect.tcl, only for FASTQ * fixACE4consed.tcl: Consed has a bug which incapacitates it from reading consensus tags in ACE files written by the MIRA assembler (and possibly other programs). This script massages an ACE file so that consed can read the consensus tags. drwxr-xr-x root/root 0 2012-06-12 21:01 ./ drwxr-xr-x root/root 0 2012-06-12 21:00 ./usr/ drwxr-xr-x root/root 0 2012-06-12 21:01 ./usr/bin/ -rwxr-xr-x root/root 1008612 2012-06-12 21:01 ./usr/bin/sw -rwxr-xr-x root/root 4291 2011-12-04 11:35 ./usr/bin/fastqselect -rwxr-xr-x root/root 2912224 2012-06-12 21:01 ./usr/bin/mira -rwxr-xr-x root/root 460972 2012-06-12 21:01 ./usr/bin/scftool -rwxr-xr-x root/root 2887676 2012-06-12 21:01 ./usr/bin/convert_project -rwxr-xr-x root/root 3247 2011-12-04 11:35 ./usr/bin/fastaselect -rwxr-xr-x root/root 1617 2012-06-12 21:00 ./usr/bin/fixACE4consed -rwxr-xr-x root/root 67756 2012-06-12 21:01 ./usr/bin/fastatool -rwxr-xr-x root/root 17651 2011-12-04 11:40 ./usr/bin/fasta2frag drwxr-xr-x root/root 0 2012-06-12 21:01 ./usr/share/ drwxr-xr-x root/root 0 2012-06-12 21:00 ./usr/share/mira/ drwxr-xr-x root/root 0 2012-06-12 21:00 ./usr/share/mira/support_3rdparty_tools/ -rw-r--r-- root/root 735 2012-06-12 21:00 ./usr/share/mira/support_3rdparty_tools/README -rw-r--r-- root/root 762 2012-06-12 21:00 ./usr/share/mira/support_3rdparty_tools/consedtaglib.txt -rw-r--r-- root/root 2057 2012-06-12 21:00 ./usr/share/mira/support_3rdparty_tools/GTAGDB -rw-r--r-- root/root 58 2012-06-12 21:00 ./usr/share/mira/support_3rdparty_tools/consedrc.13.0 -rw-r--r-- root/root 13225 2012-06-12 21:00 ./usr/share/mira/demoparam.prm drwxr-xr-x root/root 0 2012-06-12 21:01 ./usr/share/doc/ drwxr-xr-x root/root 0 2012-06-12 21:01 ./usr/share/doc/mira-assembler/ -rw-r--r-- root/root 3091 2011-12-04 11:35 ./usr/share/doc/mira-assembler/README -rw-r--r-- root/root 1479 2011-12-04 11:35 ./usr/share/doc/mira-assembler/HELP_WANTED -rw-r--r-- root/root 1426 2012-05-27 18:51 ./usr/share/doc/mira-assembler/changelog.Debian.gz -rw-r--r-- root/root 263 2011-12-04 11:35 ./usr/share/doc/mira-assembler/NEWS.gz -rw-r--r-- root/root 3586 2011-12-04 11:35 ./usr/share/doc/mira-assembler/THANKS -rw-r--r-- root/root 2326 2012-01-06 20:23 ./usr/share/doc/mira-assembler/copyright lrwxrwxrwx root/root 0 2012-06-12 21:01 ./usr/bin/miramem -> mira lrwxrwxrwx root/root 0 2012-06-12 21:01 ./usr/bin/miraclip -> mira lrwxrwxrwx root/root 0 2012-06-12 21:01 ./usr/bin/miraSearchESTSNPs -> mira ┌──────────────────────────────────────────────────────────────────────────────┐ │ Post Build │ └──────────────────────────────────────────────────────────────────────────────┘ ┌──────────────────────────────────────────────────────────────────────────────┐ │ Cleanup │ └──────────────────────────────────────────────────────────────────────────────┘ Purging /«BUILDDIR» Reading package lists... Building dependency tree... Reading state information... 0 upgraded, 0 newly installed, 0 to remove and 11 not upgraded. Reading package lists... Building dependency tree... Reading state information... The following packages will be REMOVED: autotools-dev* bsdmainutils* dblatex* debhelper* docbook-xml* docbook-xsl* ed* file* flex* fontconfig-config* gettext* gettext-base* groff-base* html2text* intltool-debian* libapt-inst1.5* libasprintf0c2* libboost-date-time1.49-dev* libboost-date-time1.49.0* libboost-regex-dev* libboost-regex1.49-dev* libboost-regex1.49.0* libboost-serialization1.49-dev* libboost-serialization1.49.0* libboost-thread-dev* libboost-thread1.49-dev* libboost-thread1.49.0* libboost1.49-dev* libcroco3* libexpat1* libexpat1-dev* libffi5* libfontconfig1* libfreetype6* libgcrypt11* libgettextpo0* libglib2.0-0* libgpg-error0* libgraphite3* libice6* libicu-dev* libicu48* libjpeg8* libkpathsea6* liblcms1* libmagic1* libopenjpeg2* libpaper-utils* libpaper1* libpcre3* libpipeline1* libpng12-0* libpoppler13* libptexenc1* libsm6* libsqlite3-0* libssl1.0.0* libunistring0* libx11-6* libx11-data* libxau6* libxaw7* libxcb1* libxdmcp6* libxext6* libxml2* libxmu6* libxpm4* libxslt1.1* libxt6* luatex* m4* man-db* mime-support* po-debconf* preview-latex-style* python* python-apt* python-apt-common* python-minimal* python2.7* python2.7-minimal* sbuild-build-depends-core-dummy* sbuild-build-depends-mira-dummy* sgml-base* sgml-data* tex-common* texlive* texlive-base* texlive-bibtex-extra* texlive-binaries* texlive-common* texlive-doc-base* texlive-extra-utils* texlive-fonts-recommended* texlive-latex-base* texlive-latex-extra* texlive-latex-recommended* texlive-math-extra* texlive-pictures* ttf-dejavu-core* ttf-marvosym* vim-common* x11-common* xml-core* xsltproc* zlib1g-dev* 0 upgraded, 0 newly installed, 107 to remove and 11 not upgraded. After this operation, 472 MB disk space will be freed. (Reading database ... 41850 files and directories currently installed.) Removing sbuild-build-depends-mira-dummy ... Removing autotools-dev ... Removing debhelper ... Removing man-db ... Purging configuration files for man-db ... Removing bsdmainutils ... Purging configuration files for bsdmainutils ... Removing dblatex ... Purging configuration files for dblatex ... Removing docbook-xml ... update-catalog: Suppressing action on super catalog. Invoking trigger instead. update-catalog: Please rebuild the package being set up with a version of debhelper fixing #477751. Purging configuration files for docbook-xml ... Removing docbook-xsl ... Purging configuration files for docbook-xsl ... Removing texlive-latex-extra ... Purging configuration files for texlive-latex-extra ... Removing texlive-pictures ... Purging configuration files for texlive-pictures ... Removing texlive-math-extra ... 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Removing libboost1.49-dev ... Removing libcroco3:armhf ... Purging configuration files for libcroco3:armhf ... Removing python-apt-common ... 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 libglib2.0-0:armhf ... Purging configuration files for libglib2.0-0:armhf ... Removing libffi5:armhf ... Purging configuration files for libffi5:armhf ... Removing libfreetype6:armhf ... Purging configuration files for libfreetype6:armhf ... Removing xsltproc ... Removing libxslt1.1:armhf ... Purging configuration files for libxslt1.1:armhf ... Removing libgcrypt11:armhf ... Purging configuration files for libgcrypt11:armhf ... Removing libgettextpo0:armhf ... Removing libgpg-error0:armhf ... Purging configuration files for libgpg-error0:armhf ... Removing libgraphite3 ... Purging configuration files for libgraphite3 ... 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 libicu-dev ... Removing libicu48:armhf ... Purging configuration files for libicu48:armhf ... Removing libjpeg8: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 libmagic1:armhf ... Purging configuration files for libmagic1:armhf ... Removing libopenjpeg2 ... Purging configuration files for libopenjpeg2 ... Removing libpaper-utils ... Removing libpaper1:armhf ... Purging configuration files for libpaper1:armhf ... Removing libpcre3:armhf ... Purging configuration files for libpcre3:armhf ... Removing libpipeline1:armhf ... Purging configuration files for libpipeline1:armhf ... Removing libpng12-0:armhf ... Purging configuration files for libpng12-0:armhf ... Removing libsqlite3-0:armhf ... Purging configuration files for libsqlite3-0:armhf ... Removing python-minimal ... Removing python2.7-minimal ... Purging configuration files for python2.7-minimal ... Removing libssl1.0.0:armhf ... Purging configuration files for libssl1.0.0:armhf ... Removing libunistring0:armhf ... Purging configuration files for libunistring0:armhf ... Removing libxpm4:armhf ... Purging configuration files for libxpm4:armhf ... Removing libxext6:armhf ... Purging configuration files for libxext6:armhf ... Removing libx11-6:armhf ... Purging configuration files for libx11-6:armhf ... Removing libx11-data ... Removing libxcb1:armhf ... Purging configuration files for libxcb1:armhf ... Removing libxau6:armhf ... Purging configuration files for libxau6: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 preview-latex-style ... Purging configuration files for preview-latex-style ... Removing sbuild-build-depends-core-dummy ... Removing sgml-data ... update-catalog: Suppressing action on super catalog. Invoking trigger instead. update-catalog: Please rebuild the package being set up with a version of debhelper fixing #477751. Purging configuration files for sgml-data ... Removing xml-core ... update-catalog: Suppressing action on super catalog. Invoking trigger instead. update-catalog: Please rebuild the package being set up with a version of debhelper fixing #477751. Purging configuration files for xml-core ... dpkg: warning: while removing xml-core, directory '/etc/sgml' not empty so not removed. Removing sgml-base ... Purging configuration files for sgml-base ... Removing texlive-doc-base ... Purging configuration files for texlive-doc-base ... Removing texlive-common ... Removing tex-common ... Purging configuration files for tex-common ... Removing ttf-dejavu-core ... Removing ttf-marvosym ... Removing vim-common ... Purging configuration files for vim-common ... 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 zlib1g-dev:armhf ... ┌──────────────────────────────────────────────────────────────────────────────┐ │ Summary │ └──────────────────────────────────────────────────────────────────────────────┘ Architecture: armhf Build-Space: 89000 Build-Time: 2529 Distribution: testing Install-Time: 409 Job: mira_3.4.0.1-3 Package: mira Package-Time: 2980 Source-Version: 3.4.0.1-3 Space: 89000 Status: successful Version: 3.4.0.1-3 ──────────────────────────────────────────────────────────────────────────────── Finished at 20120612-2101 Build needed 00:49:40, 89000k disc space