mothur →
1.31.2+dfsg-2 →
armhf → 2014-01-12 08:32:18
sbuild (Debian sbuild) 0.63.2 (18 Aug 2012) on bm-wb-04
╔══════════════════════════════════════════════════════════════════════════════╗
║ mothur 1.31.2+dfsg-2 (armhf) 12 Jan 2014 06:15 ║
╚══════════════════════════════════════════════════════════════════════════════╝
Package: mothur
Version: 1.31.2+dfsg-2
Source Version: 1.31.2+dfsg-2
Distribution: jessie-staging
Machine Architecture: armhf
Host Architecture: armhf
Build Architecture: armhf
I: NOTICE: Log filtering will replace 'build/mothur-y9MZC3/mothur-1.31.2+dfsg' with '«PKGBUILDDIR»'
I: NOTICE: Log filtering will replace 'build/mothur-y9MZC3' with '«BUILDDIR»'
I: NOTICE: Log filtering will replace 'var/lib/schroot/mount/jessie-staging-armhf-sbuild-aa8e1e94-fea3-4afb-a801-ae66e681fb7d' with '«CHROOT»'
┌──────────────────────────────────────────────────────────────────────────────┐
│ Update chroot │
└──────────────────────────────────────────────────────────────────────────────┘
Get:1 http://172.17.0.1 jessie-staging InRelease [11.3 kB]
Get:2 http://172.17.0.1 jessie-staging/main Sources [7177 kB]
Get:3 http://172.17.0.1 jessie-staging/main armhf Packages [8298 kB]
Ign http://172.17.0.1 jessie-staging/main Translation-en
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┌──────────────────────────────────────────────────────────────────────────────┐
│ Fetch source files │
└──────────────────────────────────────────────────────────────────────────────┘
Check APT
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Checking available source versions...
Download source files with APT
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Reading package lists...
Building dependency tree...
Reading state information...
NOTICE: 'mothur' packaging is maintained in the 'Svn' version control system at:
svn://anonscm.debian.org/debian-med/trunk/packages/mothur/trunk/
Need to get 820 kB of source archives.
Get:1 http://172.17.0.1/private/ jessie-staging/main mothur 1.31.2+dfsg-2 (dsc) [2120 B]
Get:2 http://172.17.0.1/private/ jessie-staging/main mothur 1.31.2+dfsg-2 (tar) [802 kB]
Get:3 http://172.17.0.1/private/ jessie-staging/main mothur 1.31.2+dfsg-2 (diff) [15.3 kB]
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Check arch
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Merged Build-Depends: build-essential, fakeroot
Filtered Build-Depends: build-essential, fakeroot
dpkg-deb: building package `sbuild-build-depends-core-dummy' in `/«BUILDDIR»/resolver-sGwepo/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 24 not upgraded.
Need to get 0 B/758 B of archives.
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Selecting previously unselected package sbuild-build-depends-core-dummy.
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Unpacking sbuild-build-depends-core-dummy (0.invalid.0) ...
Setting up sbuild-build-depends-core-dummy (0.invalid.0) ...
Merged Build-Depends: base-files, base-passwd, bash, bsdutils, coreutils, dash, debianutils, diffutils, dpkg, e2fsprogs, findutils, grep, gzip, hostname, libc-bin, login, mount, ncurses-base, ncurses-bin, perl-base, sed, sysvinit, sysvinit-utils, tar, util-linux, 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, libopenmpi-dev
Filtered Build-Depends: base-files, base-passwd, bash, bsdutils, coreutils, dash, debianutils, diffutils, dpkg, e2fsprogs, findutils, grep, gzip, hostname, libc-bin, login, mount, ncurses-base, ncurses-bin, perl-base, sed, sysvinit, sysvinit-utils, tar, util-linux, libc6-dev, gcc (>= 4:4.4.3), g++ (>= 4:4.4.3), make, dpkg-dev (>= 1.13.5), debhelper (>= 9), libreadline-dev, gfortran, libopenmpi-dev
dpkg-deb: building package `sbuild-build-depends-mothur-dummy' in `/«BUILDDIR»/resolver-XdABXS/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:
adduser bsdmainutils cpp-4.8 debhelper file g++-4.8 gcc-4.8 gcc-4.8-base
gettext gettext-base gfortran gfortran-4.8 groff-base intltool-debian
libasan0 libasprintf0c2 libatomic1 libcr0 libcroco3 libffi6 libgcc-4.8-dev
libgcc1 libgfortran-4.8-dev libgfortran3 libglib2.0-0 libgomp1 libhwloc-dev
libhwloc5 libibverbs-dev libibverbs1 libltdl7 libmagic1 libopenmpi-dev
libopenmpi1.6 libpci-dev libpci3 libpipeline1 libreadline-dev
libreadline6-dev libstdc++-4.8-dev libstdc++6 libtinfo-dev libtorque2
libunistring0 libxml2 libxml2-dev man-db openmpi-common po-debconf
zlib1g-dev
Suggested packages:
wamerican wordlist whois vacation gcc-4.8-locales dh-make gcc-4.8-doc
libstdc++6-4.8-dbg libgcc1-dbg libgomp1-dbg libitm1-dbg libatomic1-dbg
libasan0-dbg libtsan0-dbg libbacktrace1-dbg libquadmath-dbg gettext-doc
gfortran-doc gfortran-4.8-doc libgfortran3-dbg groff blcr-dkms
libhwloc-contrib-plugins libstdc++-4.8-doc pkg-config less www-browser
libmail-box-perl
Recommended packages:
curl wget lynx-cur autopoint libasprintf-dev libgettextpo-dev
libglib2.0-data shared-mime-info libhwloc-plugins xml-core
libmail-sendmail-perl
The following NEW packages will be installed:
adduser bsdmainutils debhelper file gettext gettext-base gfortran
gfortran-4.8 groff-base intltool-debian libasprintf0c2 libcr0 libcroco3
libffi6 libgfortran-4.8-dev libgfortran3 libglib2.0-0 libhwloc-dev libhwloc5
libibverbs-dev libibverbs1 libltdl7 libmagic1 libopenmpi-dev libopenmpi1.6
libpci-dev libpci3 libpipeline1 libreadline-dev libreadline6-dev
libtinfo-dev libtorque2 libunistring0 libxml2 libxml2-dev man-db
openmpi-common po-debconf sbuild-build-depends-mothur-dummy zlib1g-dev
The following packages will be upgraded:
cpp-4.8 g++-4.8 gcc-4.8 gcc-4.8-base libasan0 libatomic1 libgcc-4.8-dev
libgcc1 libgomp1 libstdc++-4.8-dev libstdc++6
11 upgraded, 40 newly installed, 0 to remove and 13 not upgraded.
Need to get 32.6 MB/32.6 MB of archives.
After this operation, 52.3 MB of additional disk space will be used.
Get:1 http://172.17.0.1/private/ jessie-staging/main libgomp1 armhf 4.8.2-12 [22.4 kB]
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Get:19 http://172.17.0.1/private/ jessie-staging/main libxml2 armhf 2.9.1+dfsg1-3 [836 kB]
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Get:22 http://172.17.0.1/private/ jessie-staging/main libcroco3 armhf 0.6.8-2 [119 kB]
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Get:24 http://172.17.0.1/private/ jessie-staging/main libltdl7 armhf 2.4.2-1.6 [349 kB]
Get:25 http://172.17.0.1/private/ jessie-staging/main libunistring0 armhf 0.9.3-5 [408 kB]
Get:26 http://172.17.0.1/private/ jessie-staging/main libhwloc5 armhf 1.8-1 [86.4 kB]
Get:27 http://172.17.0.1/private/ jessie-staging/main adduser all 3.113+nmu3 [264 kB]
Get:28 http://172.17.0.1/private/ jessie-staging/main file armhf 1:5.14-2 [53.8 kB]
Get:29 http://172.17.0.1/private/ jessie-staging/main gettext-base armhf 0.18.3.1-2 [135 kB]
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Get:31 http://172.17.0.1/private/ jessie-staging/main intltool-debian all 0.35.0+20060710.1 [29.8 kB]
Get:32 http://172.17.0.1/private/ jessie-staging/main po-debconf all 1.0.16+nmu2 [223 kB]
Get:33 http://172.17.0.1/private/ jessie-staging/main debhelper all 9.20131227 [687 kB]
Get:34 http://172.17.0.1/private/ jessie-staging/main libgfortran-4.8-dev armhf 4.8.2-12 [180 kB]
Get:35 http://172.17.0.1/private/ jessie-staging/main gfortran-4.8 armhf 4.8.2-12 [4092 kB]
Get:36 http://172.17.0.1/private/ jessie-staging/main gfortran armhf 4:4.8.2-1 [1138 B]
Get:37 http://172.17.0.1/private/ jessie-staging/main libcr0 armhf 0.8.5-2.1 [33.5 kB]
Get:38 http://172.17.0.1/private/ jessie-staging/main zlib1g-dev armhf 1:1.2.8.dfsg-1 [212 kB]
Get:39 http://172.17.0.1/private/ jessie-staging/main libpci-dev armhf 1:3.2.1-1 [74.8 kB]
Get:40 http://172.17.0.1/private/ jessie-staging/main libtinfo-dev armhf 5.9+20130608-1 [92.5 kB]
Get:41 http://172.17.0.1/private/ jessie-staging/main libreadline6-dev armhf 6.2+dfsg-0.1 [164 kB]
Get:42 http://172.17.0.1/private/ jessie-staging/main libreadline-dev armhf 6.2+dfsg-0.1 [898 B]
Get:43 http://172.17.0.1/private/ jessie-staging/main libtorque2 armhf 2.4.16+dfsg-1.3 [108 kB]
Get:44 http://172.17.0.1/private/ jessie-staging/main libxml2-dev armhf 2.9.1+dfsg1-3 [837 kB]
Get:45 http://172.17.0.1/private/ jessie-staging/main libhwloc-dev armhf 1.8-1 [158 kB]
Get:46 http://172.17.0.1/private/ jessie-staging/main libibverbs1 armhf 1.1.7-1 [31.0 kB]
Get:47 http://172.17.0.1/private/ jessie-staging/main libibverbs-dev armhf 1.1.7-1 [82.3 kB]
Get:48 http://172.17.0.1/private/ jessie-staging/main libopenmpi1.6 armhf 1.6.5-5+rpi2 [2112 kB]
Get:49 http://172.17.0.1/private/ jessie-staging/main openmpi-common all 1.6.5-5+rpi2 [123 kB]
Get:50 http://172.17.0.1/private/ jessie-staging/main libopenmpi-dev armhf 1.6.5-5+rpi2 [566 kB]
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Unpacking libopenmpi-dev (1.6.5-5+rpi2) ...
Selecting previously unselected package sbuild-build-depends-mothur-dummy.
Preparing to unpack .../sbuild-build-depends-mothur-dummy.deb ...
Unpacking sbuild-build-depends-mothur-dummy (0.invalid.0) ...
Setting up libgomp1:armhf (4.8.2-12) ...
Setting up libasan0:armhf (4.8.2-12) ...
Setting up libatomic1:armhf (4.8.2-12) ...
Setting up cpp-4.8 (4.8.2-12) ...
Setting up libgcc-4.8-dev:armhf (4.8.2-12) ...
Setting up libstdc++-4.8-dev:armhf (4.8.2-12) ...
Setting up gcc-4.8 (4.8.2-12) ...
Setting up g++-4.8 (4.8.2-12) ...
Setting up libpipeline1:armhf (1.2.6-1) ...
Setting up groff-base (1.22.2-3) ...
Setting up bsdmainutils (9.0.5) ...
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 man-db (2.6.5-2) ...
Not building database; man-db/auto-update is not 'true'.
Setting up libasprintf0c2:armhf (0.18.3.1-2) ...
Setting up libmagic1:armhf (1:5.14-2) ...
Setting up libpci3:armhf (1:3.2.1-1) ...
Setting up libxml2:armhf (2.9.1+dfsg1-3) ...
Setting up libffi6:armhf (3.0.13-4) ...
Setting up libglib2.0-0:armhf (2.36.4-1) ...
No schema files found: doing nothing.
Setting up libcroco3:armhf (0.6.8-2) ...
Setting up libgfortran3:armhf (4.8.2-12) ...
Setting up libltdl7:armhf (2.4.2-1.6) ...
Setting up libunistring0:armhf (0.9.3-5) ...
Setting up libhwloc5:armhf (1.8-1) ...
Setting up adduser (3.113+nmu3) ...
Setting up file (1:5.14-2) ...
Setting up gettext-base (0.18.3.1-2) ...
Setting up gettext (0.18.3.1-2) ...
Setting up intltool-debian (0.35.0+20060710.1) ...
Setting up po-debconf (1.0.16+nmu2) ...
Setting up debhelper (9.20131227) ...
Setting up libgfortran-4.8-dev:armhf (4.8.2-12) ...
Setting up gfortran-4.8 (4.8.2-12) ...
Setting up gfortran (4:4.8.2-1) ...
update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f95 (f95) in auto mode
Setting up libcr0 (0.8.5-2.1) ...
Setting up zlib1g-dev:armhf (1:1.2.8.dfsg-1) ...
Setting up libpci-dev (1:3.2.1-1) ...
Setting up libtinfo-dev:armhf (5.9+20130608-1) ...
Setting up libreadline6-dev:armhf (6.2+dfsg-0.1) ...
Setting up libreadline-dev:armhf (6.2+dfsg-0.1) ...
Setting up libtorque2 (2.4.16+dfsg-1.3) ...
Setting up libxml2-dev:armhf (2.9.1+dfsg1-3) ...
Setting up libhwloc-dev:armhf (1.8-1) ...
Setting up libibverbs1 (1.1.7-1) ...
Setting up libibverbs-dev (1.1.7-1) ...
Setting up libopenmpi1.6 (1.6.5-5+rpi2) ...
Setting up openmpi-common (1.6.5-5+rpi2) ...
Setting up libopenmpi-dev (1.6.5-5+rpi2) ...
update-alternatives: using /usr/lib/openmpi/include to provide /usr/include/mpi (mpi) in auto mode
Setting up sbuild-build-depends-mothur-dummy (0.invalid.0) ...
Processing triggers for libc-bin (2.17-97) ...
┌──────────────────────────────────────────────────────────────────────────────┐
│ Build environment │
└──────────────────────────────────────────────────────────────────────────────┘
Kernel: Linux 3.11.0-armv7-x13 armhf (armv7l)
Toolchain package versions: binutils_2.24-2 dpkg-dev_1.17.5 g++-4.8_4.8.2-12 gcc-4.8_4.8.2-12 libc6-dev_2.17-97 libstdc++-4.8-dev_4.8.2-12 libstdc++6_4.8.2-12 linux-libc-dev_3.10.11-1+rpi1
Package versions: adduser_3.113+nmu3 apt_0.9.14.1+rpi1 base-files_7.2+rpi1 base-passwd_3.5.28 bash_4.2+dfsg-1 binutils_2.24-2 bsdmainutils_9.0.5 bsdutils_1:2.20.1-5.5 build-essential_11.6 bzip2_1.0.6-5 coreutils_8.21-1 cpio_2.11+dfsg-1 cpp_4:4.8.2-1 cpp-4.8_4.8.2-12 dash_0.5.7-3 debconf_1.5.52 debconf-i18n_1.5.52 debfoster_2.7-1.2 debhelper_9.20131227 debianutils_4.4 diffutils_1:3.3-1 dpkg_1.17.5 dpkg-dev_1.17.5 e2fslibs_1.42.8-1 e2fsprogs_1.42.8-1 fakeroot_1.18.4-2 file_1:5.14-2 findutils_4.4.2-7 g++_4:4.8.2-1 g++-4.8_4.8.2-12 gcc_4:4.8.2-1 gcc-4.5-base_4.5.3-12+rpi1 gcc-4.6-base_4.6.4-5+rpi1 gcc-4.7-base_4.7.3-9+rpi1 gcc-4.8_4.8.2-12 gcc-4.8-base_4.8.2-12 gettext_0.18.3.1-2 gettext-base_0.18.3.1-2 gfortran_4:4.8.2-1 gfortran-4.8_4.8.2-12 gnupg_1.4.15-3 gpgv_1.4.15-3 grep_2.15-2 groff-base_1.22.2-3 gzip_1.6-2 hostname_3.15 initramfs-tools_0.115 initscripts_2.88dsf-43 insserv_1.14.0-5 intltool-debian_0.35.0+20060710.1 klibc-utils_2.0.2-1+rpi1 kmod_9-3 libacl1_2.2.52-1 libapt-pkg4.12_0.9.14.1+rpi1 libasan0_4.8.2-12 libasprintf0c2_0.18.3.1-2 libatomic1_4.8.2-12 libattr1_1:2.4.47-1 libaudit-common_1:2.3.2-2 libaudit1_1:2.3.2-2 libblkid1_2.20.1-5.5 libbz2-1.0_1.0.6-5 libc-bin_2.17-97 libc-dev-bin_2.17-97 libc6_2.17-97 libc6-dev_2.17-97 libcap2_1:2.22-1.2 libcloog-isl4_0.18.1-3 libcomerr2_1.42.8-1 libcr0_0.8.5-2.1 libcroco3_0.6.8-2 libdb5.1_5.1.29-6 libdbus-1-3_1.6.18-2 libdpkg-perl_1.17.5 libffi6_3.0.13-4 libgc1c2_1:7.2d-6 libgcc-4.8-dev_4.8.2-12 libgcc1_1:4.8.2-12 libgdbm3_1.8.3-12 libgfortran-4.8-dev_4.8.2-12 libgfortran3_4.8.2-12 libglib2.0-0_2.36.4-1 libgmp10_2:5.1.3+dfsg-1 libgomp1_4.8.2-12 libhwloc-dev_1.8-1 libhwloc5_1.8-1 libibverbs-dev_1.1.7-1 libibverbs1_1.1.7-1 libisl10_0.12.1-2 libklibc_2.0.2-1+rpi1 libkmod2_9-3 liblocale-gettext-perl_1.05-7+b3 libltdl7_2.4.2-1.6 liblzma5_5.1.1alpha+20120614-2 libmagic1_1:5.14-2 libmount1_2.20.1-5.5 libmpc3_1.0.1-1 libmpfr4_3.1.2-1 libncurses5_5.9+20130608-1 libncursesw5_5.9+20130608-1 libnih-dbus1_1.0.3-4.2 libnih1_1.0.3-4.2 libopenmpi-dev_1.6.5-5+rpi2 libopenmpi1.6_1.6.5-5+rpi2 libpam-modules_1.1.3-9 libpam-modules-bin_1.1.3-9 libpam-runtime_1.1.3-9 libpam0g_1.1.3-9 libpci-dev_1:3.2.1-1 libpci3_1:3.2.1-1 libpcre3_1:8.31-2 libpipeline1_1.2.6-1 libprocps0_1:3.3.4-2 libreadline-dev_6.2+dfsg-0.1 libreadline6_6.2+dfsg-0.1 libreadline6-dev_6.2+dfsg-0.1 libselinux1_2.2.1-1 libsemanage-common_2.2-1 libsemanage1_2.2-1 libsepol1_2.2-1 libslang2_2.2.4-16 libss2_1.42.8-1 libstdc++-4.8-dev_4.8.2-12 libstdc++6_4.8.2-12 libtext-charwidth-perl_0.04-7+b3 libtext-iconv-perl_1.7-5+b3 libtext-wrapi18n-perl_0.06-7 libtimedate-perl_2.3000-1 libtinfo-dev_5.9+20130608-1 libtinfo5_5.9+20130608-1 libtorque2_2.4.16+dfsg-1.3 libudev1_204-5 libunistring0_0.9.3-5 libusb-0.1-4_2:0.1.12-23.3 libustr-1.0-1_1.0.4-3 libuuid1_2.20.1-5.5 libxml2_2.9.1+dfsg1-3 libxml2-dev_2.9.1+dfsg1-3 linux-libc-dev_3.10.11-1+rpi1 login_1:4.1.5.1-1 lsb-base_4.1+Debian12+rpi1 make_3.81-8.3 makedev_2.3.1-93 man-db_2.6.5-2 mawk_1.3.3-17 mount_2.20.1-5.5 mountall_2.52 multiarch-support_2.17-97 ncurses-base_5.9+20130608-1 ncurses-bin_5.9+20130608-1 openmpi-common_1.6.5-5+rpi2 passwd_1:4.1.5.1-1 patch_2.7.1-4 perl_5.18.1-5 perl-base_5.18.1-5 perl-modules_5.18.1-5 plymouth_0.8.8-6+deb8u3 po-debconf_1.0.16+nmu2 procps_1:3.3.4-2 raspbian-archive-keyring_20120528.2 readline-common_6.2+dfsg-0.1 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-mothur-dummy_0.invalid.0 sed_4.2.2-3 sensible-utils_0.0.9 sysv-rc_2.88dsf-43 sysvinit_2.88dsf-43 sysvinit-utils_2.88dsf-43 tar_1.26+dfsg-8 tzdata_2013i-1 udev_204-5 util-linux_2.20.1-5.5 xz-utils_5.1.1alpha+20120614-2 zlib1g_1:1.2.8.dfsg-1 zlib1g-dev_1:1.2.8.dfsg-1
┌──────────────────────────────────────────────────────────────────────────────┐
│ Build │
└──────────────────────────────────────────────────────────────────────────────┘
Unpack source
─────────────
gpgv: keyblock resource `/sbuild-nonexistent/.gnupg/trustedkeys.gpg': file open error
gpgv: Signature made Thu Sep 5 03:24:20 2013 UTC using RSA key ID F14A64A2
gpgv: Can't check signature: public key not found
dpkg-source: warning: failed to verify signature on ./mothur_1.31.2+dfsg-2.dsc
dpkg-source: info: extracting mothur in mothur-1.31.2+dfsg
dpkg-source: info: unpacking mothur_1.31.2+dfsg.orig.tar.xz
dpkg-source: info: unpacking mothur_1.31.2+dfsg-2.debian.tar.gz
dpkg-source: info: applying makefile.patch
dpkg-source: info: applying no_lcurses.patch
dpkg-source: info: applying drop_sse_option.patch
dpkg-source: info: applying catchall_fix.patch
dpkg-source: info: applying build_without_tty.patch
dpkg-source: info: applying uchime_link_dynamically
dpkg-source: info: applying uchime_hardening.patch
dpkg-source: info: applying spelling.patch
Check disc space
────────────────
Sufficient free space for build
User Environment
────────────────
APT_CONFIG=/var/lib/sbuild/apt.conf
DEB_BUILD_OPTIONS=parallel=4
HOME=/sbuild-nonexistent
LANG=en_GB.UTF-8
LC_ALL=POSIX
LOGNAME=root
MAIL=/var/mail/root
PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games
PWD=/root
SCHROOT_ALIAS_NAME=jessie-staging-armhf-sbuild
SCHROOT_CHROOT_NAME=jessie-staging-armhf-sbuild
SCHROOT_COMMAND=env
SCHROOT_GID=109
SCHROOT_GROUP=buildd
SCHROOT_SESSION_ID=jessie-staging-armhf-sbuild-aa8e1e94-fea3-4afb-a801-ae66e681fb7d
SCHROOT_UID=104
SCHROOT_USER=buildd
SHELL=/bin/sh
SHLVL=1
SSH_CLIENT=172.17.0.6 59986 22
SSH_CONNECTION=172.17.0.6 59986 172.17.2.4 22
SSH_TTY=/dev/pts/1
TERM=xterm
USER=buildd
_=/etc/init.d/buildd
dpkg-buildpackage
─────────────────
dpkg-buildpackage: source package mothur
dpkg-buildpackage: source version 1.31.2+dfsg-2
dpkg-buildpackage: source distribution unstable
dpkg-source --before-build mothur-1.31.2+dfsg
dpkg-buildpackage: host architecture armhf
fakeroot debian/rules clean
dh clean
dh_testdir
debian/rules override_dh_auto_clean
make[1]: Entering directory `/«BUILDDIR»/mothur-1.31.2+dfsg'
rm -f mothur mothur-mpi *.o mothur.*.logfile
make clean
make[2]: Entering directory `/«BUILDDIR»/mothur-1.31.2+dfsg'
make[2]: Leaving directory `/«BUILDDIR»/mothur-1.31.2+dfsg'
( cd uchime_src && rm -f *.o mk.stdout mk.stderr tmp.stderr )
make[1]: Leaving directory `/«BUILDDIR»/mothur-1.31.2+dfsg'
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 `/«BUILDDIR»/mothur-1.31.2+dfsg'
if [ 32 -eq 64 ] ; then \
dh_auto_build -- 64BIT_VERSION=yes USEMPI=yes && \
mv mothur mothur-mpi && make clean && \
dh_auto_build -- 64BIT_VERSION=yes USEMPI=no ; \
else \
dh_auto_build -- 64BIT_VERSION=no ; \
fi
make[2]: Entering directory `/«BUILDDIR»/mothur-1.31.2+dfsg'
gfortran -c *.f
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o abstractdecisiontree.o abstractdecisiontree.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o abstractrandomforest.o abstractrandomforest.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o ace.o ace.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o aligncommand.o aligncommand.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o alignment.o alignment.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o alignmentcell.o alignmentcell.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o alignmentdb.o alignmentdb.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o alignnode.o alignnode.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o aligntree.o aligntree.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o amovacommand.o amovacommand.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o anosimcommand.o anosimcommand.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o averagelinkage.o averagelinkage.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o bayesian.o bayesian.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o bellerophon.o bellerophon.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o bergerparker.o bergerparker.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o binsequencecommand.o binsequencecommand.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o blastalign.o blastalign.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o blastdb.o blastdb.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o boneh.o boneh.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o bootstrap.o bootstrap.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o bstick.o bstick.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o calcsparcc.o calcsparcc.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o calculator.o calculator.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o canberra.o canberra.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o catchallcommand.o catchallcommand.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o ccode.o ccode.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o chao1.o chao1.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o chimera.o chimera.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o chimerabellerophoncommand.o chimerabellerophoncommand.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o chimeraccodecommand.o chimeraccodecommand.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o chimeracheckcommand.o chimeracheckcommand.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o chimeracheckrdp.o chimeracheckrdp.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o chimeraperseuscommand.o chimeraperseuscommand.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o chimerapintailcommand.o chimerapintailcommand.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o chimerarealigner.o chimerarealigner.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o chimeraslayer.o chimeraslayer.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o chimeraslayercommand.o chimeraslayercommand.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o chimerauchimecommand.o chimerauchimecommand.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o chopseqscommand.o chopseqscommand.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o classify.o classify.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o classifyotucommand.o classifyotucommand.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o classifyseqscommand.o classifyseqscommand.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o classifysharedcommand.o classifysharedcommand.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o classifytreecommand.o classifytreecommand.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o clearcut.o clearcut.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o clearcutcommand.o clearcutcommand.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o clearmemorycommand.o clearmemorycommand.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o cluster.o cluster.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o clusterclassic.o clusterclassic.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o clustercommand.o clustercommand.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o clusterdoturcommand.o clusterdoturcommand.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o clusterfragmentscommand.o clusterfragmentscommand.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o clustersplitcommand.o clustersplitcommand.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o cmdargs.o cmdargs.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o collect.o collect.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o collectcommand.o collectcommand.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o collectsharedcommand.o collectsharedcommand.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o commandfactory.o commandfactory.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o commandoptionparser.o commandoptionparser.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o completelinkage.o completelinkage.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o consensus.o consensus.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o consensusseqscommand.o consensusseqscommand.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o cooccurrencecommand.o cooccurrencecommand.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o corraxescommand.o corraxescommand.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o countgroupscommand.o countgroupscommand.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o countseqscommand.o countseqscommand.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o counttable.o counttable.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o coverage.o coverage.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o createdatabasecommand.o createdatabasecommand.cpp
createdatabasecommand.cpp: In member function 'virtual int CreateDatabaseCommand::execute()':
createdatabasecommand.cpp:390:65: warning: name lookup of 'i' changed [enabled by default]
m->mothurOut("[ERROR: OTU " + otuLabels[i] + " is not in the repnames file. Make sure you are using files for the same distance.\n"); m->control_pressed = true; break;
^
createdatabasecommand.cpp:367:22: warning: matches this 'i' under ISO standard rules [enabled by default]
for (int i = 0; i < list->getNumBins(); i++) {
^
createdatabasecommand.cpp:383:30: warning: matches this 'i' under old rules [enabled by default]
for (int i = 0; i < binNames.size()-1; i++) {
^
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o database.o database.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o decalc.o decalc.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o decisiontree.o decisiontree.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o deconvolutecommand.o deconvolutecommand.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o degapseqscommand.o degapseqscommand.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o deuniqueseqscommand.o deuniqueseqscommand.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o deuniquetreecommand.o deuniquetreecommand.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o distancecommand.o distancecommand.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o distancedb.o distancedb.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o distclearcut.o distclearcut.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o dlibshuff.o dlibshuff.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o dmat.o dmat.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o efron.o efron.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o engine.o engine.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o fasta.o fasta.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o fastamap.o fastamap.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o fileoutput.o fileoutput.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o filterseqscommand.o filterseqscommand.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o filtersharedcommand.o filtersharedcommand.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o flowdata.o flowdata.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o forest.o forest.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o formatcolumn.o formatcolumn.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o formatphylip.o formatphylip.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o fullmatrix.o fullmatrix.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o geom.o geom.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o getcommandinfocommand.o getcommandinfocommand.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o getcoremicrobiomecommand.o getcoremicrobiomecommand.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o getcurrentcommand.o getcurrentcommand.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o getdistscommand.o getdistscommand.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o getgroupcommand.o getgroupcommand.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o getgroupscommand.o getgroupscommand.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o getlabelcommand.o getlabelcommand.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o getlineagecommand.o getlineagecommand.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o getlistcountcommand.o getlistcountcommand.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o getmetacommunitycommand.o getmetacommunitycommand.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o getopt_long.o getopt_long.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o getotulabelscommand.o getotulabelscommand.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o getoturepcommand.o getoturepcommand.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o getotuscommand.o getotuscommand.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o getrabundcommand.o getrabundcommand.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o getrelabundcommand.o getrelabundcommand.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o getsabundcommand.o getsabundcommand.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o getseqscommand.o getseqscommand.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o getsharedotucommand.o getsharedotucommand.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o goodscoverage.o goodscoverage.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o gotohoverlap.o gotohoverlap.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o gower.o gower.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o groupmap.o groupmap.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o hamming.o hamming.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o hcluster.o hcluster.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o hclustercommand.o hclustercommand.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o heatmap.o heatmap.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o heatmapcommand.o heatmapcommand.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o heatmapsim.o heatmapsim.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o heatmapsimcommand.o heatmapsimcommand.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o heip.o heip.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o hellinger.o hellinger.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o helpcommand.o helpcommand.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o homovacommand.o homovacommand.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o indicatorcommand.o indicatorcommand.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o inputdata.o inputdata.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o invsimpson.o invsimpson.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o jackknife.o jackknife.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o kmer.o kmer.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o kmerdb.o kmerdb.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o kmernode.o kmernode.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o kmertree.o kmertree.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o knn.o knn.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o kruskalwalliscommand.o kruskalwalliscommand.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o libshuff.o libshuff.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o libshuffcommand.o libshuffcommand.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o linearalgebra.o linearalgebra.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o listotulabelscommand.o listotulabelscommand.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o listseqscommand.o listseqscommand.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o listvector.o listvector.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o loadlogfilecommand.o loadlogfilecommand.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o logsd.o logsd.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o makebiomcommand.o makebiomcommand.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o makecontigscommand.o makecontigscommand.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o makefastqcommand.o makefastqcommand.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o makegroupcommand.o makegroupcommand.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o makelookupcommand.o makelookupcommand.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o maligner.o maligner.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o manhattan.o manhattan.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o mantelcommand.o mantelcommand.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o matrixoutputcommand.o matrixoutputcommand.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o memchi2.o memchi2.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o memchord.o memchord.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o memeuclidean.o memeuclidean.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o mempearson.o mempearson.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o mergefilecommand.o mergefilecommand.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o mergegroupscommand.o mergegroupscommand.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o mergetaxsummarycommand.o mergetaxsummarycommand.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o metastatscommand.o metastatscommand.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o mgclustercommand.o mgclustercommand.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o mothur.o mothur.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o mothurfisher.o mothurfisher.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o mothurmetastats.o mothurmetastats.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o mothurout.o mothurout.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o myPerseus.o myPerseus.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o myseqdist.o myseqdist.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o nameassignment.o nameassignment.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o nast.o nast.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o nastreport.o nastreport.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o needlemanoverlap.o needlemanoverlap.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o newcommandtemplate.o newcommandtemplate.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o nmdscommand.o nmdscommand.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o noalign.o noalign.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o nocommands.o nocommands.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o normalizesharedcommand.o normalizesharedcommand.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o npshannon.o npshannon.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o odum.o odum.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o optionparser.o optionparser.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o ordervector.o ordervector.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o otuassociationcommand.o otuassociationcommand.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o otuhierarchycommand.o otuhierarchycommand.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o overlap.o overlap.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o pairwiseseqscommand.o pairwiseseqscommand.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o parsefastaqcommand.o parsefastaqcommand.cpp
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g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o treemap.o treemap.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o treenode.o treenode.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o treereader.o treereader.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o trialSwap2.o trialSwap2.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o trimflowscommand.o trimflowscommand.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o trimoligos.o trimoligos.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o trimseqscommand.o trimseqscommand.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o unifracunweightedcommand.o unifracunweightedcommand.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o unifracweightedcommand.o unifracweightedcommand.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o unweighted.o unweighted.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o uvest.o uvest.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o validcalculator.o validcalculator.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o validparameter.o validparameter.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o venn.o venn.cpp
venn.cpp: In member function 'std::vector<std::basic_string<char> > Venn::getPic(std::vector<SharedRAbundVector*>, std::vector<Calculator*>)':
venn.cpp:77:16: note: variable tracking size limit exceeded with -fvar-tracking-assignments, retrying without
vector<string> Venn::getPic(vector<SharedRAbundVector*> lookup, vector<Calculator*> vCalcs) {
^
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o venncommand.o venncommand.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o weighted.o weighted.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o weightedlinkage.o weightedlinkage.cpp
g++ -g -O2 -DRELEASE_DATE="\"6/13/2013\"" -DVERSION="\"1.31.2\"" -DUSE_READLINE -I. -c -o whittaker.o whittaker.cpp
echo ENV_GCC_OPTS=""
ENV_GCC_OPTS=
echo ENV_LINK_OPTS=""
ENV_LINK_OPTS=
cd uchime_src && ENV_GCC_OPTS="" ENV_LINK_OPTS="" ./mk && mv uchime .. && cd ..
addtargets2
alignchime
alignchimel
alnparams
alpha
alpha2
fractid
getparents
globalalign2
make3way
mx
myutils
path
searchchime
seqdb
setnucmx
sfasta
tracebackbit
uchime_main
usort
viterbifast
writechhit
-rwxrwxr-x 1 buildd buildd 164K Jan 12 08:31 uchime
17733 164
g++ -o mothur abstractdecisiontree.o abstractrandomforest.o ace.o aligncommand.o alignment.o alignmentcell.o alignmentdb.o alignnode.o aligntree.o amovacommand.o anosimcommand.o averagelinkage.o bayesian.o bellerophon.o bergerparker.o binsequencecommand.o blastalign.o blastdb.o boneh.o bootstrap.o bstick.o calcsparcc.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 classifysharedcommand.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 consensus.o consensusseqscommand.o cooccurrencecommand.o corraxescommand.o countgroupscommand.o countseqscommand.o counttable.o coverage.o createdatabasecommand.o database.o decalc.o decisiontree.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 filtersharedcommand.o flowdata.o forest.o formatcolumn.o formatphylip.o fullmatrix.o geom.o getcommandinfocommand.o getcoremicrobiomecommand.o getcurrentcommand.o getdistscommand.o getgroupcommand.o getgroupscommand.o getlabelcommand.o getlineagecommand.o getlistcountcommand.o getmetacommunitycommand.o getopt_long.o getotulabelscommand.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 kmernode.o kmertree.o knn.o kruskalwalliscommand.o libshuff.o libshuffcommand.o linearalgebra.o listotulabelscommand.o listseqscommand.o listvector.o loadlogfilecommand.o logsd.o makebiomcommand.o makecontigscommand.o makefastqcommand.o makegroupcommand.o makelookupcommand.o maligner.o manhattan.o mantelcommand.o matrixoutputcommand.o memchi2.o memchord.o memeuclidean.o mempearson.o mergefilecommand.o mergegroupscommand.o mergetaxsummarycommand.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 newcommandtemplate.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 phylodiversitycommand.o phylosummary.o phylotree.o phylotypecommand.o pintail.o pipelinepdscommand.o prcseqscommand.o preclustercommand.o primerdesigncommand.o prng.o progress.o qFinderDMM.o qstat.o qualityscores.o quitcommand.o rabundvector.o randomforest.o randomnumber.o rarecalc.o raredisplay.o rarefact.o rarefactcommand.o rarefactsharedcommand.o readblast.o readcluster.o readcolumn.o readphylip.o readphylipvector.o readtree.o refchimeratest.o referencedb.o regularizeddecisiontree.o regularizedrandomforest.o removedistscommand.o removegroupscommand.o removelineagecommand.o removeotulabelscommand.o removeotuscommand.o removerarecommand.o removeseqscommand.o reportfile.o reversecommand.o rftreenode.o sabundvector.o screenseqscommand.o secondarystructurecommand.o sensspeccommand.o seqerrorcommand.o seqnoise.o seqsummarycommand.o sequence.o sequencecountparser.o sequencedb.o sequenceparser.o setcurrentcommand.o setdircommand.o setlogfilecommand.o sffinfocommand.o sffmultiplecommand.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 sparcccommand.o sparsedistancematrix.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 subsample.o subsamplecommand.o suffixdb.o suffixnodes.o suffixtree.o summarycommand.o summaryqualcommand.o summarysharedcommand.o summarytaxcommand.o systemcommand.o taxonomyequalizer.o taxonomynode.o tree.o treegroupscommand.o treemap.o treenode.o treereader.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 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 `/«BUILDDIR»/mothur-1.31.2+dfsg'
make[1]: Leaving directory `/«BUILDDIR»/mothur-1.31.2+dfsg'
dh_auto_test -a
fakeroot debian/rules binary-arch
dh binary-arch
dh_testroot -a
dh_prep -a
debian/rules override_dh_auto_install
make[1]: Entering directory `/«BUILDDIR»/mothur-1.31.2+dfsg'
true
make[1]: Leaving directory `/«BUILDDIR»/mothur-1.31.2+dfsg'
dh_install -a
dh_installdocs -a
dh_installchangelogs -a
dh_installman -a
dh_installmenu -a
dh_perl -a
dh_link -a
dh_compress -a
dh_fixperms -a
dh_strip -a
dh_makeshlibs -a
dh_shlibdeps -a
dh_installdeb -a
dh_gencontrol -a
dpkg-gencontrol: warning: File::FcntlLock not available; using flock which is not NFS-safe
dh_md5sums -a
dh_builddeb -a
dpkg-deb: building package `mothur' in `../mothur_1.31.2+dfsg-2_armhf.deb'.
dpkg-genchanges -B -mRaspbian wandboard test autobuilder <root@raspbian.org> >../mothur_1.31.2+dfsg-2_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-1.31.2+dfsg
dpkg-buildpackage: binary only upload (no source included)
────────────────────────────────────────────────────────────────────────────────
Build finished at 20140112-0833
Finished
────────
I: Built successfully
┌──────────────────────────────────────────────────────────────────────────────┐
│ Changes │
└──────────────────────────────────────────────────────────────────────────────┘
mothur_1.31.2+dfsg-2_armhf.changes:
───────────────────────────────────
Format: 1.8
Date: Wed, 04 Sep 2013 22:37:31 -0400
Source: mothur
Binary: mothur mothur-mpi
Architecture: armhf
Version: 1.31.2+dfsg-2
Distribution: jessie-staging
Urgency: low
Maintainer: Raspbian wandboard test autobuilder <root@raspbian.org>
Changed-By: Aaron M. Ucko <ucko@debian.org>
Description:
mothur - sequence analysis suite for research on microbiota
mothur-mpi - mpi-enabled binary for mothur
Closes: 721770
Changes:
mothur (1.31.2+dfsg-2) unstable; urgency=low
.
* Team upload.
* debian/patches/makefile.patch: Leave off -m64, which ia64 doesn't
support and other 64-bit architectures don't need. (Closes: #721770.)
Checksums-Sha1:
047fc4c0f87386d9ab3a04bea1dcaccd425bea82 2888436 mothur_1.31.2+dfsg-2_armhf.deb
Checksums-Sha256:
0057f6310c2536d28d939c82ed5b1aa0a410547647c45566963845d9e5775cfb 2888436 mothur_1.31.2+dfsg-2_armhf.deb
Files:
a8a42aab29829d405c8bcb80d1230eac 2888436 science optional mothur_1.31.2+dfsg-2_armhf.deb
┌──────────────────────────────────────────────────────────────────────────────┐
│ Package contents │
└──────────────────────────────────────────────────────────────────────────────┘
mothur_1.31.2+dfsg-2_armhf.deb
──────────────────────────────
new debian package, version 2.0.
size 2888436 bytes: control archive=1128 bytes.
823 bytes, 18 lines control
493 bytes, 8 lines md5sums
185 bytes, 7 lines * postinst #!/bin/sh
160 bytes, 5 lines * postrm #!/bin/sh
Package: mothur
Version: 1.31.2+dfsg-2
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 10374
Depends: libc6 (>= 2.4), libgcc1 (>= 1:4.4.0), libreadline6 (>= 6.0), libstdc++6 (>= 4.6)
Conflicts: uchime
Provides: uchime
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 2014-01-12 08:32 ./
drwxr-xr-x root/root 0 2014-01-12 08:32 ./usr/
drwxr-xr-x root/root 0 2014-01-12 08:32 ./usr/bin/
-rwxr-xr-x root/root 10443136 2014-01-12 08:32 ./usr/bin/mothur
-rwxr-xr-x root/root 167228 2014-01-12 08:32 ./usr/bin/uchime
drwxr-xr-x root/root 0 2014-01-12 08:32 ./usr/share/
drwxr-xr-x root/root 0 2014-01-12 08:32 ./usr/share/doc/
drwxr-xr-x root/root 0 2014-01-12 08:32 ./usr/share/doc/mothur/
-rw-r--r-- root/root 259 2013-09-05 02:02 ./usr/share/doc/mothur/README.Debian
-rw-r--r-- root/root 4654 2013-09-05 02:02 ./usr/share/doc/mothur/copyright
-rw-r--r-- root/root 2188 2013-09-05 02:37 ./usr/share/doc/mothur/changelog.Debian.gz
drwxr-xr-x root/root 0 2014-01-12 08:32 ./usr/share/man/
drwxr-xr-x root/root 0 2014-01-12 08:32 ./usr/share/man/man1/
-rw-r--r-- root/root 568 2014-01-12 08:32 ./usr/share/man/man1/mothur.1.gz
-rw-r--r-- root/root 3395 2014-01-12 08:32 ./usr/share/man/man1/uchime.1.gz
drwxr-xr-x root/root 0 2014-01-12 08:32 ./usr/share/menu/
-rw-r--r-- root/root 176 2013-09-05 02:02 ./usr/share/menu/mothur
┌──────────────────────────────────────────────────────────────────────────────┐
│ Post Build │
└──────────────────────────────────────────────────────────────────────────────┘
┌──────────────────────────────────────────────────────────────────────────────┐
│ Cleanup │
└──────────────────────────────────────────────────────────────────────────────┘
Purging /«BUILDDIR»
Not cleaning session: cloned chroot in use
┌──────────────────────────────────────────────────────────────────────────────┐
│ Summary │
└──────────────────────────────────────────────────────────────────────────────┘
Build Architecture: armhf
Build-Space: 335112
Build-Time: 7931
Distribution: jessie-staging
Host Architecture: armhf
Install-Time: 303
Job: mothur_1.31.2+dfsg-2
Machine Architecture: armhf
Package: mothur
Package-Time: 8290
Source-Version: 1.31.2+dfsg-2
Space: 335112
Status: successful
Version: 1.31.2+dfsg-2
────────────────────────────────────────────────────────────────────────────────
Finished at 20140112-0833
Build needed 02:18:10, 335112k disc space