sbuild (Debian sbuild) 0.62.6 (07 Dec 2011) on build04.raspbian.lan ╔══════════════════════════════════════════════════════════════════════════════╗ ║ mothur 1.24.1-1 (armhf) 14 May 2012 08:29 ║ ╚══════════════════════════════════════════════════════════════════════════════╝ Package: mothur Version: 1.24.1-1 Source Version: 1.24.1-1 Distribution: testing Architecture: armhf I: NOTICE: Log filtering will replace 'build/mothur-JAH1U6/mothur-1.24.1' with '«PKGBUILDDIR»' I: NOTICE: Log filtering will replace 'build/mothur-JAH1U6' with '«BUILDDIR»' I: NOTICE: Log filtering will replace 'var/lib/schroot/mount/testing-armhf-sbuild-b74f7c75-e675-4156-8571-c57cea52e89e' 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 TranslationIndex 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: 'mothur' packaging is maintained in the 'Svn' version control system at: svn://svn.debian.org/debian-med/trunk/packages/mothur/trunk/ Need to get 1245 kB of source archives. Get:1 http://repo.raspbian.lan/raspbian/ testing/main mothur 1.24.1-1 (dsc) [1374 B] Get:2 http://repo.raspbian.lan/raspbian/ testing/main mothur 1.24.1-1 (tar) [1237 kB] Get:3 http://repo.raspbian.lan/raspbian/ testing/main mothur 1.24.1-1 (diff) [6922 B] Fetched 1245 kB in 0s (8003 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-JDrb4T/apt_archive/sbuild-build-depends-core-dummy.deb'. OK Reading package lists... ┌──────────────────────────────────────────────────────────────────────────────┐ │ Install core build dependencies (apt-based resolver) │ └──────────────────────────────────────────────────────────────────────────────┘ Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following NEW packages will be installed: sbuild-build-depends-core-dummy debconf: delaying package configuration, since apt-utils is not installed 0 upgraded, 1 newly installed, 0 to remove and 2 not upgraded. Need to get 0 B/704 B of archives. After this operation, 0 B of additional disk space will be used. Selecting previously unselected package sbuild-build-depends-core-dummy. (Reading database ... 10681 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 (>= 9), libreadline-dev, gfortran Filtered Build-Depends: libc6-dev, gcc (>= 4:4.4.3), g++ (>= 4:4.4.3), make, dpkg-dev (>= 1.13.5), debhelper (>= 9), libreadline-dev, gfortran dpkg-deb: building package `sbuild-build-depends-mothur-dummy' in `/«BUILDDIR»/resolver-3P_2Np/apt_archive/sbuild-build-depends-mothur-dummy.deb'. OK Reading package lists... ┌──────────────────────────────────────────────────────────────────────────────┐ │ Install mothur build dependencies (apt-based resolver) │ └──────────────────────────────────────────────────────────────────────────────┘ Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following extra packages will be installed: bsdmainutils debhelper file gettext gettext-base gfortran gfortran-4.6 groff-base html2text intltool-debian libcroco3 libffi5 libgfortran3 libglib2.0-0 libmagic1 libpcre3 libpipeline1 libreadline-dev libreadline6-dev libtinfo-dev libunistring0 libxml2 man-db po-debconf Suggested packages: wamerican wordlist whois vacation dh-make gettext-doc gfortran-doc gfortran-4.6-doc libgfortran3-dbg groff less www-browser libmail-box-perl Recommended packages: curl wget lynx-cur autopoint libglib2.0-data shared-mime-info xml-core libmail-sendmail-perl The following NEW packages will be installed: bsdmainutils debhelper file gettext gettext-base gfortran gfortran-4.6 groff-base html2text intltool-debian libcroco3 libffi5 libgfortran3 libglib2.0-0 libmagic1 libpcre3 libpipeline1 libreadline-dev libreadline6-dev libtinfo-dev libunistring0 libxml2 man-db po-debconf sbuild-build-depends-mothur-dummy debconf: delaying package configuration, since apt-utils is not installed 0 upgraded, 25 newly installed, 0 to remove and 2 not upgraded. Need to get 0 B/14.8 MB of archives. After this operation, 37.7 MB of additional disk space will be used. Selecting previously unselected package libpcre3:armhf. (Reading database ... 10681 files and directories currently installed.) Unpacking libpcre3:armhf (from .../libpcre3_1%3a8.30-4_armhf.deb) ... Selecting previously unselected package libpipeline1:armhf. Unpacking libpipeline1:armhf (from .../libpipeline1_1.2.1-1_armhf.deb) ... Selecting previously unselected package libmagic1:armhf. Unpacking libmagic1:armhf (from .../libmagic1_5.11-1_armhf.deb) ... Selecting previously unselected package libxml2:armhf. Unpacking libxml2:armhf (from .../libxml2_2.7.8.dfsg-9_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_2.32.0-4_armhf.deb) ... Selecting previously unselected package libcroco3:armhf. Unpacking libcroco3:armhf (from .../libcroco3_0.6.5-1_armhf.deb) ... Selecting previously unselected package libgfortran3:armhf. Unpacking libgfortran3:armhf (from .../libgfortran3_4.7.0-1.1+rpi_armhf.deb) ... Selecting previously unselected package libunistring0:armhf. Unpacking libunistring0:armhf (from .../libunistring0_0.9.3-5_armhf.deb) ... Selecting previously unselected package bsdmainutils. Unpacking bsdmainutils (from .../bsdmainutils_9.0.1_armhf.deb) ... Selecting previously unselected package groff-base. Unpacking groff-base (from .../groff-base_1.21-7_armhf.deb) ... Selecting previously unselected package man-db. Unpacking man-db (from .../man-db_2.6.1-2_armhf.deb) ... Selecting previously unselected package file. Unpacking file (from .../archives/file_5.11-1_armhf.deb) ... Selecting previously unselected package gettext-base. Unpacking gettext-base (from .../gettext-base_0.18.1.1-5+rpi1_armhf.deb) ... Selecting previously unselected package html2text. Unpacking html2text (from .../html2text_1.3.2a-15_armhf.deb) ... Selecting previously unselected package gettext. Unpacking gettext (from .../gettext_0.18.1.1-5+rpi1_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_9.20120419_all.deb) ... Selecting previously unselected package gfortran-4.6. Unpacking gfortran-4.6 (from .../gfortran-4.6_4.6.3-1.1+rpi2_armhf.deb) ... Selecting previously unselected package gfortran. Unpacking gfortran (from .../gfortran_4%3a4.6.2-4_armhf.deb) ... Selecting previously unselected package libtinfo-dev:armhf. Unpacking libtinfo-dev:armhf (from .../libtinfo-dev_5.9-6_armhf.deb) ... Selecting previously unselected package libreadline6-dev:armhf. Unpacking libreadline6-dev:armhf (from .../libreadline6-dev_6.2-8_armhf.deb) ... Selecting previously unselected package libreadline-dev:armhf. Unpacking libreadline-dev:armhf (from .../libreadline-dev_6.2-8_armhf.deb) ... Selecting previously unselected package sbuild-build-depends-mothur-dummy. Unpacking sbuild-build-depends-mothur-dummy (from .../sbuild-build-depends-mothur-dummy.deb) ... Setting up libpcre3:armhf (1:8.30-4) ... Setting up libpipeline1:armhf (1.2.1-1) ... Setting up libmagic1:armhf (5.11-1) ... Setting up libxml2:armhf (2.7.8.dfsg-9) ... Setting up libffi5:armhf (3.0.10-3+b3) ... Setting up libglib2.0-0:armhf (2.32.0-4) ... No schema files found: doing nothing. Setting up libcroco3:armhf (0.6.5-1) ... Setting up libgfortran3:armhf (4.7.0-1.1+rpi) ... Setting up libunistring0:armhf (0.9.3-5) ... Setting up bsdmainutils (9.0.1) ... 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 file (5.11-1) ... Setting up gettext-base (0.18.1.1-5+rpi1) ... Setting up html2text (1.3.2a-15) ... Setting up gettext (0.18.1.1-5+rpi1) ... Setting up intltool-debian (0.35.0+20060710.1) ... Setting up po-debconf (1.0.16+nmu2) ... Setting up debhelper (9.20120419) ... Setting up gfortran-4.6 (4.6.3-1.1+rpi2) ... Setting up gfortran (4:4.6.2-4) ... update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f95 (f95) in auto mode. Setting up libtinfo-dev:armhf (5.9-6) ... Setting up libreadline6-dev:armhf (6.2-8) ... Setting up libreadline-dev:armhf (6.2-8) ... Setting up sbuild-build-depends-mothur-dummy (0.invalid.0) ... ┌──────────────────────────────────────────────────────────────────────────────┐ │ Build environment │ └──────────────────────────────────────────────────────────────────────────────┘ Kernel: Linux 3.2.0-2-mx5 armhf (armv7l) Toolchain package versions: binutils_2.22-6 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_3.2.12-1 Package versions: apt_0.8.15.10 base-files_6.7 base-passwd_3.5.24 bash_4.2-2 binutils_2.22-6 bsdmainutils_9.0.1 bsdutils_1:2.20.1-4 build-essential_11.5+b1 bzip2_1.0.6-1 coreutils_8.13-3.1 cpp_4:4.6.2-4 cpp-4.6_4.6.3-1.1+rpi2 dash_0.5.7-3 debconf_1.5.42 debfoster_2.7-1.1 debhelper_9.20120419 debian-archive-keyring_2010.08.28 debianutils_4.3 diffutils_1:3.2-6 dpkg_1.16.3 dpkg-dev_1.16.3 e2fslibs_1.42.2-2 e2fsprogs_1.42.2-2 fakeroot_1.18.3-1 file_5.11-1 findutils_4.4.2-4 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_0.18.1.1-5+rpi1 gettext-base_0.18.1.1-5+rpi1 gfortran_4:4.6.2-4 gfortran-4.6_4.6.3-1.1+rpi2 gnupg_1.4.12-4 gpgv_1.4.12-4 grep_2.11-3 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_2.2.51-5 libattr1_1:2.4.46-5 libblkid1_2.20.1-4 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 libffi5_3.0.10-3+b3 libfile-fcntllock-perl_0.14-1 libgc1c2_1:7.1-8 libgcc1_1:4.7.0-1.1+rpi libgdbm3_1.8.3-10 libgfortran3_4.7.0-1.1+rpi libglib2.0-0_2.32.0-4 libgmp10_2:5.0.4+dfsg-1 libgomp1_4.7.0-1.1+rpi liblocale-gettext-perl_1.05-7 liblzma5_5.1.1alpha+20110809-3 libmagic1_5.11-1 libmount1_2.20.1-4 libmpc2_0.9-4 libmpfr4_3.1.0-4 libncurses5_5.9-6 libncursesw5_5.9-6 libpam-modules_1.1.3-7 libpam-modules-bin_1.1.3-7 libpam-runtime_1.1.3-7 libpam0g_1.1.3-7 libpcre3_1:8.30-4 libpipeline1_1.2.1-1 libreadline-dev_6.2-8 libreadline6_6.2-8 libreadline6-dev_6.2-8 libselinux1_2.1.9-2 libsemanage-common_2.1.6-2 libsemanage1_2.1.6-2 libsepol1_2.1.4-1 libslang2_2.2.4-10 libss2_1.42.2-2 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 libtinfo-dev_5.9-6 libtinfo5_5.9-6 libunistring0_0.9.3-5 libusb-0.1-4_2:0.1.12-20 libustr-1.0-1_1.0.4-2 libuuid1_2.20.1-4 libxml2_2.7.8.dfsg-9 linux-libc-dev_3.2.12-1 login_1:4.1.5-1 lsb-base_4.1+Debian2 make_3.81-8.2 man-db_2.6.1-2 mawk_1.3.3-17 mount_2.20.1-4 multiarch-support_2.13-32 ncurses-base_5.9-6 ncurses-bin_5.9-6 passwd_1:4.1.5-1 patch_2.6.1-3 perl_5.14.2-9 perl-base_5.14.2-9 perl-modules_5.14.2-9 po-debconf_1.0.16+nmu2 readline-common_6.2-8 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-mothur-dummy_0.invalid.0 sed_4.2.1-9 sensible-utils_0.0.6 sysv-rc_2.88dsf-22.1 sysvinit_2.88dsf-22.1 sysvinit-utils_2.88dsf-22.1 tar_1.26-4 tzdata_2012c-1 ucf_3.0025+nmu3 util-linux_2.20.1-4 xz-utils_5.1.1alpha+20110809-3 zlib1g_1:1.2.6.dfsg-2 ┌──────────────────────────────────────────────────────────────────────────────┐ │ Build │ └──────────────────────────────────────────────────────────────────────────────┘ Unpack source ───────────── gpgv: keyblock resource `/sbuild-nonexistent/.gnupg/trustedkeys.gpg': file open error gpgv: Signature made Tue Apr 3 09:00:56 2012 UTC using DSA key ID C09FD35A gpgv: Can't check signature: public key not found dpkg-source: warning: failed to verify signature on ./mothur_1.24.1-1.dsc dpkg-source: info: extracting mothur in mothur-1.24.1 dpkg-source: info: unpacking mothur_1.24.1.orig.tar.gz dpkg-source: info: unpacking mothur_1.24.1-1.debian.tar.gz dpkg-source: info: applying makefile.patch dpkg-source: info: applying no_lcurses.patch dpkg-source: info: applying drop_sse_option.patch 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-b74f7c75-e675-4156-8571-c57cea52e89e SCHROOT_UID=106 SCHROOT_USER=buildd SHELL=/bin/sh USER=buildd dpkg-buildpackage ───────────────── dpkg-buildpackage: source package mothur dpkg-buildpackage: source version 1.24.1-1 dpkg-source --before-build mothur-1.24.1 dpkg-buildpackage: host architecture armhf fakeroot debian/rules clean dh clean dh_testdir debian/rules override_dh_auto_clean make[1]: Entering directory `/«PKGBUILDDIR»' rm -f mothur *.o make clean make[2]: Entering directory `/«PKGBUILDDIR»' make[2]: Leaving directory `/«PKGBUILDDIR»' ( cd uchime_src && rm -f *.o mk.stdout mk.stderr tmp.stderr ) make[1]: Leaving directory `/«PKGBUILDDIR»' dh_clean debian/rules build-arch dh build-arch dh_testdir -a dh_auto_configure -a debian/rules override_dh_auto_build make[1]: Entering directory `/«PKGBUILDDIR»' if [ 32 -eq 64 ] ; then \ dh_auto_build 64BIT_VERSION=yes ; \ else \ dh_auto_build ; \ fi make[2]: Entering directory `/«PKGBUILDDIR»' gfortran -c *.f g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o ace.o ace.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o aligncommand.o aligncommand.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o alignment.o alignment.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o alignmentcell.o alignmentcell.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o alignmentdb.o alignmentdb.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o amovacommand.o amovacommand.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o anosimcommand.o anosimcommand.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o averagelinkage.o averagelinkage.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o bayesian.o bayesian.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o bellerophon.o bellerophon.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o bergerparker.o bergerparker.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o binsequencecommand.o binsequencecommand.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o blastalign.o blastalign.cpp blastalign.cpp: In member function 'virtual void BlastAlignment::align(std::string, std::string)': blastalign.cpp:63:30: warning: ignoring return value of 'int system(const char*)', declared with attribute warn_unused_result [-Wunused-result] g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o blastdb.o blastdb.cpp blastdb.cpp: In member function 'virtual void BlastDB::generateDB()': blastdb.cpp:376:34: warning: ignoring return value of 'int system(const char*)', declared with attribute warn_unused_result [-Wunused-result] blastdb.cpp: In member function 'virtual std::vector BlastDB::findClosestMegaBlast(Sequence*, int, int)': blastdb.cpp:305:31: warning: ignoring return value of 'int system(const char*)', declared with attribute warn_unused_result [-Wunused-result] blastdb.cpp: In member function 'virtual std::vector BlastDB::findClosestSequences(Sequence*, int)': blastdb.cpp:240:31: warning: ignoring return value of 'int system(const char*)', declared with attribute warn_unused_result [-Wunused-result] g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o boneh.o boneh.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o bootstrap.o bootstrap.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o bootstrapsharedcommand.o bootstrapsharedcommand.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o bstick.o bstick.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o calculator.o calculator.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o canberra.o canberra.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o catchallcommand.o catchallcommand.cpp catchallcommand.cpp: In member function 'virtual int CatchAllCommand::execute()': catchallcommand.cpp:237:38: warning: ignoring return value of 'int system(const char*)', declared with attribute warn_unused_result [-Wunused-result] catchallcommand.cpp:281:38: warning: ignoring return value of 'int system(const char*)', declared with attribute warn_unused_result [-Wunused-result] catchallcommand.cpp:346:36: warning: ignoring return value of 'int system(const char*)', declared with attribute warn_unused_result [-Wunused-result] g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o ccode.o ccode.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o chao1.o chao1.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o chimera.o chimera.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o chimerabellerophoncommand.o chimerabellerophoncommand.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o chimeraccodecommand.o chimeraccodecommand.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o chimeracheckcommand.o chimeracheckcommand.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o chimeracheckrdp.o chimeracheckrdp.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o chimeraperseuscommand.o chimeraperseuscommand.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o chimerapintailcommand.o chimerapintailcommand.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o chimerarealigner.o chimerarealigner.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o chimeraslayer.o chimeraslayer.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o chimeraslayercommand.o chimeraslayercommand.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o chimerauchimecommand.o chimerauchimecommand.cpp chimerauchimecommand.cpp: In member function 'int ChimeraUchimeCommand::driver(std::string, std::string, std::string, std::string, int&)': chimerauchimecommand.cpp:1250:32: warning: ignoring return value of 'int system(const char*)', declared with attribute warn_unused_result [-Wunused-result] g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o chopseqscommand.o chopseqscommand.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o classify.o classify.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o classifyotucommand.o classifyotucommand.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o classifyseqscommand.o classifyseqscommand.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o classifytreecommand.o classifytreecommand.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o clearcut.o clearcut.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o clearcutcommand.o clearcutcommand.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o clearmemorycommand.o clearmemorycommand.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o cluster.o cluster.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o clusterclassic.o clusterclassic.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o clustercommand.o clustercommand.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o clusterdoturcommand.o clusterdoturcommand.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o clusterfragmentscommand.o clusterfragmentscommand.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o clustersplitcommand.o clustersplitcommand.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o cmdargs.o cmdargs.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o collect.o collect.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o collectcommand.o collectcommand.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o collectsharedcommand.o collectsharedcommand.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o commandfactory.o commandfactory.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o commandoptionparser.o commandoptionparser.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o completelinkage.o completelinkage.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o consensuscommand.o consensuscommand.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o consensusseqscommand.o consensusseqscommand.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o cooccurrencecommand.o cooccurrencecommand.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o corraxescommand.o corraxescommand.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o countgroupscommand.o countgroupscommand.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o countseqscommand.o countseqscommand.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o coverage.o coverage.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o database.o database.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o decalc.o decalc.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o deconvolutecommand.o deconvolutecommand.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o degapseqscommand.o degapseqscommand.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o deuniqueseqscommand.o deuniqueseqscommand.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o deuniquetreecommand.o deuniquetreecommand.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o distancecommand.o distancecommand.cpp distancecommand.cpp: In member function 'virtual int DistanceCommand::execute()': distancecommand.cpp:495:45: warning: ignoring return value of 'int system(const char*)', declared with attribute warn_unused_result [-Wunused-result] g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o distancedb.o distancedb.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o distclearcut.o distclearcut.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o dlibshuff.o dlibshuff.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o dmat.o dmat.cpp dmat.cpp: In function 'DMAT* NJ_parse_distance_matrix(NJ_ARGS*)': dmat.cpp:476:36: warning: ignoring return value of 'int fscanf(FILE*, const char*, ...)', declared with attribute warn_unused_result [-Wunused-result] g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o efron.o efron.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o engine.o engine.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o fasta.o fasta.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o fastamap.o fastamap.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o fileoutput.o fileoutput.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o filterseqscommand.o filterseqscommand.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o flowdata.o flowdata.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o formatcolumn.o formatcolumn.cpp formatcolumn.cpp: In member function 'virtual int FormatColumnMatrix::read(NameAssignment*)': formatcolumn.cpp:87:27: warning: ignoring return value of 'int system(const char*)', declared with attribute warn_unused_result [-Wunused-result] g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o formatphylip.o formatphylip.cpp formatphylip.cpp: In member function 'virtual int FormatPhylipMatrix::read(NameAssignment*)': formatphylip.cpp:101:29: warning: ignoring return value of 'int system(const char*)', declared with attribute warn_unused_result [-Wunused-result] g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o fullmatrix.o fullmatrix.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o geom.o geom.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o getcommandinfocommand.o getcommandinfocommand.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o getcurrentcommand.o getcurrentcommand.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o getgroupcommand.o getgroupcommand.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o getgroupscommand.o getgroupscommand.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o getlabelcommand.o getlabelcommand.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o getlineagecommand.o getlineagecommand.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o getlistcountcommand.o getlistcountcommand.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o getopt_long.o getopt_long.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o getoturepcommand.o getoturepcommand.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o getotuscommand.o getotuscommand.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o getrabundcommand.o getrabundcommand.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o getrelabundcommand.o getrelabundcommand.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o getsabundcommand.o getsabundcommand.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o getseqscommand.o getseqscommand.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o getsharedotucommand.o getsharedotucommand.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o goodscoverage.o goodscoverage.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o gotohoverlap.o gotohoverlap.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o gower.o gower.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o groupmap.o groupmap.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o hamming.o hamming.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o hcluster.o hcluster.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o hclustercommand.o hclustercommand.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o heatmap.o heatmap.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o heatmapcommand.o heatmapcommand.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o heatmapsim.o heatmapsim.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o heatmapsimcommand.o heatmapsimcommand.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o heip.o heip.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o hellinger.o hellinger.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o helpcommand.o helpcommand.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o homovacommand.o homovacommand.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o indicatorcommand.o indicatorcommand.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o inputdata.o inputdata.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o invsimpson.o invsimpson.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o jackknife.o jackknife.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o kmer.o kmer.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o kmerdb.o kmerdb.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o knn.o knn.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o libshuff.o libshuff.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o libshuffcommand.o libshuffcommand.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o linearalgebra.o linearalgebra.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o listseqscommand.o listseqscommand.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o listvector.o listvector.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o logsd.o logsd.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o makefastqcommand.o makefastqcommand.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o makegroupcommand.o makegroupcommand.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o maligner.o maligner.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o manhattan.o manhattan.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o mantelcommand.o mantelcommand.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o matrixoutputcommand.o matrixoutputcommand.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o memchi2.o memchi2.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o memchord.o memchord.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o memeuclidean.o memeuclidean.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o mempearson.o mempearson.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o mergefilecommand.o mergefilecommand.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o mergegroupscommand.o mergegroupscommand.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o metastatscommand.o metastatscommand.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o mgclustercommand.o mgclustercommand.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o mothur.o mothur.cpp mothur.cpp: In function 'int main(int, char**)': mothur.cpp:50:19: warning: ignoring return value of 'int system(const char*)', declared with attribute warn_unused_result [-Wunused-result] g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o mothurfisher.o mothurfisher.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o mothurmetastats.o mothurmetastats.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o mothurout.o mothurout.cpp mothurout.cpp: In member function 'std::string MothurOut::sortFile(std::string, std::string)': mothurout.cpp:1003:27: warning: ignoring return value of 'int system(const char*)', declared with attribute warn_unused_result [-Wunused-result] mothurout.cpp: In member function 'int MothurOut::renameFile(std::string, std::string)': mothurout.cpp:901:27: warning: ignoring return value of 'int system(const char*)', declared with attribute warn_unused_result [-Wunused-result] mothurout.cpp:905:26: warning: ignoring return value of 'int system(const char*)', declared with attribute warn_unused_result [-Wunused-result] g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o myPerseus.o myPerseus.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o myseqdist.o myseqdist.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o nameassignment.o nameassignment.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o nast.o nast.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o nastreport.o nastreport.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o needlemanoverlap.o needlemanoverlap.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o nmdscommand.o nmdscommand.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o noalign.o noalign.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o nocommands.o nocommands.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o normalizesharedcommand.o normalizesharedcommand.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o npshannon.o npshannon.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o odum.o odum.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o optionparser.o optionparser.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o ordervector.o ordervector.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o otuassociationcommand.o otuassociationcommand.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o otuhierarchycommand.o otuhierarchycommand.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o overlap.o overlap.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o pairwiseseqscommand.o pairwiseseqscommand.cpp pairwiseseqscommand.cpp: In member function 'virtual int PairwiseSeqsCommand::execute()': pairwiseseqscommand.cpp:451:46: 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sharedthetayc.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o sharedutilities.o sharedutilities.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o shen.o shen.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o shhhercommand.o shhhercommand.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o shhhseqscommand.o shhhseqscommand.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o simpson.o simpson.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o simpsoneven.o simpsoneven.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o singlelinkage.o singlelinkage.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o slayer.o slayer.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o slibshuff.o slibshuff.cpp g++ 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-DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o sparsematrix.o sparsematrix.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o spearman.o spearman.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o speciesprofile.o speciesprofile.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o spline.o spline.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o splitabundcommand.o splitabundcommand.cpp g++ -g -O2 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-DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o structeuclidean.o structeuclidean.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o structkulczynski.o structkulczynski.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o structpearson.o structpearson.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o subsamplecommand.o subsamplecommand.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o suffixdb.o suffixdb.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o suffixnodes.o suffixnodes.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o suffixtree.o suffixtree.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o summarycommand.o summarycommand.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o summaryqualcommand.o summaryqualcommand.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o summarysharedcommand.o summarysharedcommand.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o summarytaxcommand.o summarytaxcommand.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o systemcommand.o systemcommand.cpp systemcommand.cpp: In member function 'virtual int SystemCommand::execute()': systemcommand.cpp:101:26: warning: ignoring return value of 'int system(const char*)', declared with attribute warn_unused_result [-Wunused-result] g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o taxonomyequalizer.o taxonomyequalizer.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o tree.o tree.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o treegroupscommand.o treegroupscommand.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o treemap.o treemap.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o treenode.o treenode.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o trialSwap2.o trialSwap2.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o trimflowscommand.o trimflowscommand.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o trimoligos.o trimoligos.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o trimseqscommand.o trimseqscommand.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o unifracunweightedcommand.o unifracunweightedcommand.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o unifracweightedcommand.o unifracweightedcommand.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o unweighted.o unweighted.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o uvest.o uvest.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o validcalculator.o validcalculator.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o validparameter.o validparameter.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o venn.o venn.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o venncommand.o venncommand.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o weighted.o weighted.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o weightedlinkage.o weightedlinkage.cpp g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -O3 -DRELEASE_DATE="\"3/16/2012\"" -DVERSION="\"1.24.1\"" -DUSE_READLINE -I. -D_FORTIFY_SOURCE=2 -c -o whittaker.o whittaker.cpp cc -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -c -o fisher2.o fisher2.c cc -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -c -o metastats2.o metastats2.c cd uchime_src && ./mk && mv uchime .. && cd .. ./mk: line 9: /dev/tty: No such device or address ./mk: line 9: /dev/tty: No such device or address ./mk: line 9: /dev/tty: No such device or address ./mk: line 9: /dev/tty: No such device or address ./mk: line 9: /dev/tty: No such device or address ./mk: line 9: /dev/tty: No such device or address ./mk: line 9: /dev/tty: No such device or address ./mk: line 9: /dev/tty: No such device or address ./mk: line 9: /dev/tty: No such device or address ./mk: line 9: /dev/tty: No such device or address ./mk: line 9: /dev/tty: No such device or address ./mk: line 9: /dev/tty: No such device or address myutils.cpp:515:6: note: the mangling of 'va_list' has changed in GCC 4.4 ./mk: line 9: /dev/tty: No such device or address ./mk: line 9: /dev/tty: No such device or address ./mk: line 9: /dev/tty: No such device or address ./mk: line 9: /dev/tty: No such device or address ./mk: line 9: /dev/tty: No such device or address ./mk: line 9: /dev/tty: No such device or address ./mk: line 9: /dev/tty: No such device or address ./mk: line 9: /dev/tty: No such device or address ./mk: line 9: /dev/tty: No such device or address ./mk: line 9: /dev/tty: No such device or address -rwxrwxr-x 1 buildd buildd 757K May 14 17:56 uchime 26908 757 g++ -Wl,-z,relro -o mothur ace.o aligncommand.o alignment.o alignmentcell.o alignmentdb.o amovacommand.o anosimcommand.o averagelinkage.o bayesian.o bellerophon.o bergerparker.o binsequencecommand.o blastalign.o blastdb.o boneh.o bootstrap.o bootstrapsharedcommand.o bstick.o calculator.o canberra.o catchallcommand.o ccode.o chao1.o chimera.o chimerabellerophoncommand.o chimeraccodecommand.o chimeracheckcommand.o chimeracheckrdp.o chimeraperseuscommand.o chimerapintailcommand.o chimerarealigner.o chimeraslayer.o chimeraslayercommand.o chimerauchimecommand.o chopseqscommand.o classify.o classifyotucommand.o classifyseqscommand.o classifytreecommand.o clearcut.o clearcutcommand.o clearmemorycommand.o cluster.o clusterclassic.o clustercommand.o clusterdoturcommand.o clusterfragmentscommand.o clustersplitcommand.o cmdargs.o collect.o collectcommand.o collectsharedcommand.o commandfactory.o commandoptionparser.o completelinkage.o consensuscommand.o consensusseqscommand.o cooccurrencecommand.o corraxescommand.o countgroupscommand.o countseqscommand.o coverage.o database.o decalc.o deconvolutecommand.o degapseqscommand.o deuniqueseqscommand.o deuniquetreecommand.o distancecommand.o distancedb.o distclearcut.o dlibshuff.o dmat.o efron.o engine.o fasta.o fastamap.o fileoutput.o filterseqscommand.o flowdata.o formatcolumn.o formatphylip.o fullmatrix.o geom.o getcommandinfocommand.o getcurrentcommand.o getgroupcommand.o getgroupscommand.o getlabelcommand.o getlineagecommand.o getlistcountcommand.o getopt_long.o getoturepcommand.o getotuscommand.o getrabundcommand.o getrelabundcommand.o getsabundcommand.o getseqscommand.o getsharedotucommand.o goodscoverage.o gotohoverlap.o gower.o groupmap.o hamming.o hcluster.o hclustercommand.o heatmap.o heatmapcommand.o heatmapsim.o heatmapsimcommand.o heip.o hellinger.o helpcommand.o homovacommand.o indicatorcommand.o inputdata.o invsimpson.o jackknife.o kmer.o kmerdb.o knn.o libshuff.o libshuffcommand.o linearalgebra.o listseqscommand.o listvector.o logsd.o makefastqcommand.o makegroupcommand.o maligner.o manhattan.o mantelcommand.o matrixoutputcommand.o memchi2.o memchord.o memeuclidean.o mempearson.o mergefilecommand.o mergegroupscommand.o metastatscommand.o mgclustercommand.o mothur.o mothurfisher.o mothurmetastats.o mothurout.o myPerseus.o myseqdist.o nameassignment.o nast.o nastreport.o needlemanoverlap.o nmdscommand.o noalign.o nocommands.o normalizesharedcommand.o npshannon.o odum.o optionparser.o ordervector.o otuassociationcommand.o otuhierarchycommand.o overlap.o pairwiseseqscommand.o parsefastaqcommand.o parselistscommand.o parsimony.o parsimonycommand.o pcacommand.o pcoacommand.o phylodiversity.o phylodiversitycommand.o phylosummary.o phylotree.o phylotypecommand.o pintail.o pipelinepdscommand.o preclustercommand.o prng.o progress.o qstat.o qualityscores.o quitcommand.o rabundvector.o rarecalc.o raredisplay.o rarefact.o rarefactcommand.o rarefactsharedcommand.o readblast.o readcluster.o readcolumn.o readdistcommand.o readotucommand.o readphylip.o readphylipvector.o readtree.o readtreecommand.o refchimeratest.o referencedb.o removegroupscommand.o removelineagecommand.o removeotuscommand.o removerarecommand.o removeseqscommand.o reportfile.o reversecommand.o sabundvector.o screenseqscommand.o secondarystructurecommand.o sensspeccommand.o seqerrorcommand.o seqnoise.o seqsummarycommand.o sequence.o sequencedb.o sequenceparser.o setcurrentcommand.o setdircommand.o setlogfilecommand.o sffinfocommand.o shannon.o shannoneven.o sharedace.o sharedanderbergs.o sharedbraycurtis.o sharedchao1.o sharedcommand.o sharedjabund.o sharedjackknife.o sharedjclass.o sharedjest.o sharedkstest.o sharedkulczynski.o sharedkulczynskicody.o sharedlennon.o sharedlistvector.o sharedmarczewski.o sharedmorisitahorn.o sharedochiai.o sharedordervector.o sharedrabundfloatvector.o sharedrabundvector.o sharedsabundvector.o sharedsobs.o sharedsobscollectsummary.o sharedsorabund.o sharedsorclass.o sharedsorest.o sharedthetan.o sharedthetayc.o sharedutilities.o shen.o shhhercommand.o shhhseqscommand.o simpson.o simpsoneven.o singlelinkage.o slayer.o slibshuff.o smithwilson.o soergel.o solow.o sortseqscommand.o sparsematrix.o spearman.o speciesprofile.o spline.o splitabundcommand.o splitgroupscommand.o splitmatrix.o structchi2.o structchord.o structeuclidean.o structkulczynski.o structpearson.o subsamplecommand.o suffixdb.o suffixnodes.o suffixtree.o summarycommand.o summaryqualcommand.o summarysharedcommand.o summarytaxcommand.o systemcommand.o taxonomyequalizer.o tree.o treegroupscommand.o treemap.o treenode.o trialSwap2.o trimflowscommand.o trimoligos.o trimseqscommand.o unifracunweightedcommand.o unifracweightedcommand.o unweighted.o uvest.o validcalculator.o validparameter.o venn.o venncommand.o weighted.o weightedlinkage.o whittaker.o fisher2.o metastats2.o bsplvb.o bsplvd.o bvalue.o daxpy.o ddot.o dpbfa.o dpbsl.o interv.o intrv.o sgram.o sinerp.o sslvrg.o stxwx.o -lreadline strip mothur make[2]: Leaving directory `/«PKGBUILDDIR»' make[1]: Leaving directory `/«PKGBUILDDIR»' dh_auto_test -a fakeroot debian/rules binary-arch dh binary-arch dh_testroot -a dh_prep -a dh_installdirs -a debian/rules override_dh_auto_install make[1]: Entering directory `/«PKGBUILDDIR»' dh_install make[1]: Leaving directory `/«PKGBUILDDIR»' dh_install -a dh_installdocs -a dh_installchangelogs -a dh_installexamples -a dh_installman -a dh_installcatalogs -a dh_installcron -a dh_installdebconf -a 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 dh_compress -a dh_fixperms -a dh_strip -a dh_makeshlibs -a dh_shlibdeps -a dpkg-shlibdeps: warning: debian/mothur/usr/bin/mothur contains an unresolvable reference to symbol __aeabi_unwind_cpp_pr1@GCC_3.5: it's probably a plugin. dh_installdeb -a dh_gencontrol -a dh_md5sums -a dh_builddeb -a dpkg-deb: building package `mothur' in `../mothur_1.24.1-1_armhf.deb'. dpkg-genchanges -B -mbuildd >../mothur_1.24.1-1_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 mothur-1.24.1 dpkg-buildpackage: binary only upload (no source included) ──────────────────────────────────────────────────────────────────────────────── Build finished at 20120514-1058 Finished ──────── I: Built successfully ┌──────────────────────────────────────────────────────────────────────────────┐ │ Changes │ └──────────────────────────────────────────────────────────────────────────────┘ mothur_1.24.1-1_armhf.changes: ────────────────────────────── Format: 1.8 Date: Tue, 03 Apr 2012 09:05:44 +0200 Source: mothur Binary: mothur Architecture: armhf Version: 1.24.1-1 Distribution: testing Urgency: low Maintainer: buildd Changed-By: Andreas Tille Description: mothur - sequence analysis suite for research on microbiota Changes: mothur (1.24.1-1) unstable; urgency=low . * New upstream version - adpated patches - droped debian/patches/kfreebsd.patch because it was applied upstream Checksums-Sha1: 5d9e5d7edd21ded0a179125b6b444d3487086c20 4049812 mothur_1.24.1-1_armhf.deb Checksums-Sha256: 7680080bc626e5d7b8e6af558703c80c00366a3eca00de39e0e93bb78add3dfa 4049812 mothur_1.24.1-1_armhf.deb Files: 384cf1a786bdf64c0b005671a9effc6a 4049812 science optional mothur_1.24.1-1_armhf.deb ┌──────────────────────────────────────────────────────────────────────────────┐ │ Package contents │ └──────────────────────────────────────────────────────────────────────────────┘ mothur_1.24.1-1_armhf.deb ───────────────────────── new debian package, version 2.0. size 4049812 bytes: control archive= 1051 bytes. 786 bytes, 16 lines control 379 bytes, 6 lines md5sums 185 bytes, 7 lines * postinst #!/bin/sh 160 bytes, 5 lines * postrm #!/bin/sh Package: mothur Version: 1.24.1-1 Architecture: armhf Maintainer: Debian Med Packaging Team Installed-Size: 8283 Depends: libc6 (>= 2.13-28), libgcc1 (>= 1:4.4.0), libreadline6 (>= 6.0), libstdc++6 (>= 4.6) Section: science Priority: optional Homepage: http://www.mothur.org Description: sequence analysis suite for research on microbiota Mothur seeks to develop a single piece of open-source, expandable software to fill the bioinformatics needs of the microbial ecology community. It has incorporated the functionality of dotur, sons, treeclimber, s-libshuff, unifrac, and much more. In addition to improving the flexibility of these algorithms, a number of other features including calculators and visualization tools were added. drwxr-xr-x root/root 0 2012-05-14 10:57 ./ drwxr-xr-x root/root 0 2012-05-14 10:57 ./usr/ drwxr-xr-x root/root 0 2012-05-14 10:57 ./usr/bin/ -rwxr-xr-x root/root 8432664 2012-05-14 10:57 ./usr/bin/mothur drwxr-xr-x root/root 0 2012-05-14 10:57 ./usr/share/ drwxr-xr-x root/root 0 2012-05-14 10:57 ./usr/share/menu/ -rw-r--r-- root/root 176 2011-01-30 03:11 ./usr/share/menu/mothur drwxr-xr-x root/root 0 2012-05-14 10:57 ./usr/share/doc/ drwxr-xr-x root/root 0 2012-05-14 10:57 ./usr/share/doc/mothur/ -rw-r--r-- root/root 259 2011-01-30 02:10 ./usr/share/doc/mothur/README.Debian -rw-r--r-- root/root 1440 2012-04-03 01:58 ./usr/share/doc/mothur/changelog.Debian.gz -rw-r--r-- root/root 4545 2012-03-08 06:44 ./usr/share/doc/mothur/copyright drwxr-xr-x root/root 0 2012-05-14 10:57 ./usr/share/man/ drwxr-xr-x root/root 0 2012-05-14 10:57 ./usr/share/man/man1/ -rw-r--r-- root/root 568 2012-05-14 10:57 ./usr/share/man/man1/mothur.1.gz ┌──────────────────────────────────────────────────────────────────────────────┐ │ Post Build │ └──────────────────────────────────────────────────────────────────────────────┘ ┌──────────────────────────────────────────────────────────────────────────────┐ │ Cleanup │ └──────────────────────────────────────────────────────────────────────────────┘ Purging /«BUILDDIR» Reading package lists... Building dependency tree... Reading state information... 0 upgraded, 0 newly installed, 0 to remove and 2 not upgraded. Reading package lists... Building dependency tree... Reading state information... The following packages will be REMOVED: bsdmainutils* debhelper* file* gettext* gettext-base* gfortran* gfortran-4.6* groff-base* html2text* intltool-debian* libcroco3* libffi5* libgfortran3* libglib2.0-0* libmagic1* libpcre3* libpipeline1* libreadline-dev* libreadline6-dev* libtinfo-dev* libunistring0* libxml2* man-db* po-debconf* sbuild-build-depends-core-dummy* sbuild-build-depends-mothur-dummy* 0 upgraded, 0 newly installed, 26 to remove and 2 not upgraded. After this operation, 37.7 MB disk space will be freed. (Reading database ... 12124 files and directories currently installed.) Removing sbuild-build-depends-mothur-dummy ... Removing debhelper ... Removing man-db ... Purging configuration files for man-db ... Removing bsdmainutils ... Purging configuration files for bsdmainutils ... Removing file ... Removing po-debconf ... Removing intltool-debian ... Removing gettext ... Removing gettext-base ... Removing gfortran ... Removing gfortran-4.6 ... Removing groff-base ... Purging configuration files for groff-base ... Removing html2text ... Purging configuration files for html2text ... Removing libcroco3:armhf ... Purging configuration files for libcroco3:armhf ... Removing libglib2.0-0:armhf ... Purging configuration files for libglib2.0-0:armhf ... Removing libffi5:armhf ... Purging configuration files for libffi5:armhf ... Removing libgfortran3:armhf ... Purging configuration files for libgfortran3:armhf ... Removing libmagic1:armhf ... Purging configuration files for libmagic1:armhf ... Removing libpcre3:armhf ... Purging configuration files for libpcre3:armhf ... Removing libpipeline1:armhf ... Purging configuration files for libpipeline1:armhf ... Removing libreadline-dev:armhf ... Removing libreadline6-dev:armhf ... Removing libtinfo-dev:armhf ... Removing libunistring0:armhf ... Purging configuration files for libunistring0:armhf ... Removing libxml2:armhf ... Purging configuration files for libxml2:armhf ... Removing sbuild-build-depends-core-dummy ... ┌──────────────────────────────────────────────────────────────────────────────┐ │ Summary │ └──────────────────────────────────────────────────────────────────────────────┘ Architecture: armhf Build-Space: 232032 Build-Time: 8892 Distribution: testing Install-Time: 60 Job: mothur_1.24.1-1 Package: mothur Package-Time: 8969 Source-Version: 1.24.1-1 Space: 232032 Status: successful Version: 1.24.1-1 ──────────────────────────────────────────────────────────────────────────────── Finished at 20120514-1058 Build needed 02:29:29, 232032k disc space