mothur →
1.36.1-1 →
armhf → 2015-09-16 19:00:57
sbuild (Debian sbuild) 0.65.2 (24 Mar 2015) on bm-wb-02
╔══════════════════════════════════════════════════════════════════════════════╗
║ mothur 1.36.1-1 (armhf) 16 Sep 2015 15:40 ║
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Package: mothur
Version: 1.36.1-1
Source Version: 1.36.1-1
Distribution: stretch-staging
Machine Architecture: armhf
Host Architecture: armhf
Build Architecture: armhf
I: NOTICE: Log filtering will replace 'build/mothur-gLK1Q8/mothur-1.36.1' with '«PKGBUILDDIR»'
I: NOTICE: Log filtering will replace 'build/mothur-gLK1Q8' with '«BUILDDIR»'
I: NOTICE: Log filtering will replace 'var/lib/schroot/mount/stretch-staging-armhf-sbuild-1efb3d51-8325-4c2a-a417-9b90449aeec6' with '«CHROOT»'
┌──────────────────────────────────────────────────────────────────────────────┐
│ Update chroot │
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Get:1 http://172.17.0.1 stretch-staging InRelease [11.3 kB]
Get:2 http://172.17.0.1 stretch-staging/main Sources [8299 kB]
Get:3 http://172.17.0.1 stretch-staging/main armhf Packages [10.2 MB]
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┌──────────────────────────────────────────────────────────────────────────────┐
│ Fetch source files │
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NOTICE: 'mothur' packaging is maintained in the 'Git' version control system at:
git://anonscm.debian.org/debian-med/mothur.git
Need to get 1804 kB of source archives.
Get:1 http://172.17.0.1/private/ stretch-staging/main mothur 1.36.1-1 (dsc) [2120 B]
Get:2 http://172.17.0.1/private/ stretch-staging/main mothur 1.36.1-1 (tar) [1785 kB]
Get:3 http://172.17.0.1/private/ stretch-staging/main mothur 1.36.1-1 (diff) [16.3 kB]
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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-PCXu4s/apt_archive/sbuild-build-depends-core-dummy.deb'.
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┌──────────────────────────────────────────────────────────────────────────────┐
│ Install core build dependencies (apt-based resolver) │
└──────────────────────────────────────────────────────────────────────────────┘
Installing build dependencies
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Building dependency tree...
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The following NEW packages will be installed:
sbuild-build-depends-core-dummy
debconf: delaying package configuration, since apt-utils is not installed
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Merged Build-Depends: libc6-dev | libc-dev, gcc (>= 4:4.9.1), g++ (>= 4:4.9.1), make, dpkg-dev (>= 1.17.11), debhelper (>= 9), libreadline-dev, gfortran, libopenmpi-dev, zlib1g-dev, libboost-iostreams-dev
Filtered Build-Depends: libc6-dev, gcc (>= 4:4.9.1), g++ (>= 4:4.9.1), make, dpkg-dev (>= 1.17.11), debhelper (>= 9), libreadline-dev, gfortran, libopenmpi-dev, zlib1g-dev, libboost-iostreams-dev
dpkg-deb: building package 'sbuild-build-depends-mothur-dummy' in '/«BUILDDIR»/resolver-u43Ulx/apt_archive/sbuild-build-depends-mothur-dummy.deb'.
OK
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┌──────────────────────────────────────────────────────────────────────────────┐
│ Install mothur build dependencies (apt-based resolver) │
└──────────────────────────────────────────────────────────────────────────────┘
Installing build dependencies
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Building dependency tree...
Reading state information...
The following extra packages will be installed:
bsdmainutils debhelper file gettext gettext-base gfortran gfortran-5
groff-base icu-devtools intltool-debian libasprintf0v5
libboost-iostreams-dev libboost-iostreams1.58-dev libboost-iostreams1.58.0
libboost-regex1.58-dev libboost-regex1.58.0 libboost1.58-dev libcr0
libcroco3 libffi6 libgfortran-5-dev libgfortran3 libglib2.0-0 libhwloc-dev
libhwloc5 libibverbs-dev libibverbs1 libicu-dev libicu55 libltdl-dev
libltdl7 libmagic1 libopenmpi-dev libopenmpi1.6 libpipeline1 libreadline-dev
libreadline6-dev libtinfo-dev libunistring0 libxml2 man-db openmpi-common
po-debconf zlib1g-dev
Suggested packages:
wamerican wordlist whois vacation dh-make gettext-doc gfortran-doc
gfortran-5-doc libgfortran3-dbg groff libboost1.58-doc
libboost-atomic1.58-dev libboost-chrono1.58-dev libboost-context1.58-dev
libboost-coroutine1.58-dev libboost-date-time1.58-dev
libboost-exception1.58-dev libboost-filesystem1.58-dev
libboost-graph1.58-dev libboost-graph-parallel1.58-dev
libboost-locale1.58-dev libboost-log1.58-dev libboost-math1.58-dev
libboost-mpi1.58-dev libboost-mpi-python1.58-dev
libboost-program-options1.58-dev libboost-python1.58-dev
libboost-random1.58-dev libboost-serialization1.58-dev
libboost-signals1.58-dev libboost-system1.58-dev libboost-test1.58-dev
libboost-thread1.58-dev libboost-timer1.58-dev libboost-wave1.58-dev
libboost1.58-tools-dev libmpfrc++-dev libntl-dev blcr-dkms
libhwloc-contrib-plugins icu-doc libtool-doc readline-doc less www-browser
libmail-box-perl
Recommended packages:
curl wget lynx-cur autopoint libasprintf-dev libgettextpo-dev
libglib2.0-data shared-mime-info xdg-user-dirs libhwloc-plugins libtool
xml-core libmail-sendmail-perl
The following NEW packages will be installed:
bsdmainutils debhelper file gettext gettext-base gfortran gfortran-5
groff-base icu-devtools intltool-debian libasprintf0v5
libboost-iostreams-dev libboost-iostreams1.58-dev libboost-iostreams1.58.0
libboost-regex1.58-dev libboost-regex1.58.0 libboost1.58-dev libcr0
libcroco3 libffi6 libgfortran-5-dev libgfortran3 libglib2.0-0 libhwloc-dev
libhwloc5 libibverbs-dev libibverbs1 libicu-dev libicu55 libltdl-dev
libltdl7 libmagic1 libopenmpi-dev libopenmpi1.6 libpipeline1 libreadline-dev
libreadline6-dev libtinfo-dev libunistring0 libxml2 man-db openmpi-common
po-debconf sbuild-build-depends-mothur-dummy zlib1g-dev
0 upgraded, 45 newly installed, 0 to remove and 1 not upgraded.
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Get:1 http://172.17.0.1/private/ stretch-staging/main groff-base armhf 1.22.3-1 [1085 kB]
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Get:3 http://172.17.0.1/private/ stretch-staging/main libpipeline1 armhf 1.4.1-1 [23.9 kB]
Get:4 http://172.17.0.1/private/ stretch-staging/main man-db armhf 2.7.3-1 [975 kB]
Get:5 http://172.17.0.1/private/ stretch-staging/main libasprintf0v5 armhf 0.19.5.1-1 [32.0 kB]
Get:6 http://172.17.0.1/private/ stretch-staging/main libmagic1 armhf 1:5.22+15-2 [244 kB]
Get:7 http://172.17.0.1/private/ stretch-staging/main libxml2 armhf 2.9.1+dfsg1-5 [703 kB]
Get:8 http://172.17.0.1/private/ stretch-staging/main libffi6 armhf 3.2.1-3 [18.5 kB]
Get:9 http://172.17.0.1/private/ stretch-staging/main libglib2.0-0 armhf 2.44.1-1.1 [2312 kB]
Get:10 http://172.17.0.1/private/ stretch-staging/main libcroco3 armhf 0.6.8-3 [121 kB]
Get:11 http://172.17.0.1/private/ stretch-staging/main libgfortran3 armhf 5.2.1-16+rpi1 [154 kB]
Get:12 http://172.17.0.1/private/ stretch-staging/main libltdl7 armhf 2.4.2-1.11 [42.5 kB]
Get:13 http://172.17.0.1/private/ stretch-staging/main libunistring0 armhf 0.9.3-5.2 [253 kB]
Get:14 http://172.17.0.1/private/ stretch-staging/main libhwloc5 armhf 1.11.0-1 [73.5 kB]
Get:15 http://172.17.0.1/private/ stretch-staging/main libboost-iostreams1.58.0 armhf 1.58.0+dfsg-3 [47.6 kB]
Get:16 http://172.17.0.1/private/ stretch-staging/main file armhf 1:5.22+15-2 [59.9 kB]
Get:17 http://172.17.0.1/private/ stretch-staging/main gettext-base armhf 0.19.5.1-1 [118 kB]
Get:18 http://172.17.0.1/private/ stretch-staging/main gettext armhf 0.19.5.1-1 [1386 kB]
Get:19 http://172.17.0.1/private/ stretch-staging/main intltool-debian all 0.35.0+20060710.2 [25.9 kB]
Get:20 http://172.17.0.1/private/ stretch-staging/main po-debconf all 1.0.18 [248 kB]
Get:21 http://172.17.0.1/private/ stretch-staging/main debhelper all 9.20150811 [817 kB]
Get:22 http://172.17.0.1/private/ stretch-staging/main libgfortran-5-dev armhf 5.2.1-16+rpi1 [183 kB]
Get:23 http://172.17.0.1/private/ stretch-staging/main gfortran-5 armhf 5.2.1-16+rpi1 [23.8 MB]
Get:24 http://172.17.0.1/private/ stretch-staging/main gfortran armhf 4:5.2.1-4+rpi2 [1364 B]
Get:25 http://172.17.0.1/private/ stretch-staging/main libicu55 armhf 55.1-5 [7378 kB]
Get:26 http://172.17.0.1/private/ stretch-staging/main icu-devtools armhf 55.1-5 [162 kB]
Get:27 http://172.17.0.1/private/ stretch-staging/main libboost1.58-dev armhf 1.58.0+dfsg-3 [6234 kB]
Get:28 http://172.17.0.1/private/ stretch-staging/main libboost-regex1.58.0 armhf 1.58.0+dfsg-3 [226 kB]
Get:29 http://172.17.0.1/private/ stretch-staging/main libicu-dev armhf 55.1-5 [8339 kB]
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Get:32 http://172.17.0.1/private/ stretch-staging/main libboost-iostreams-dev armhf 1.58.0.1 [3112 B]
Get:33 http://172.17.0.1/private/ stretch-staging/main libcr0 armhf 0.8.5-2.2 [30.0 kB]
Get:34 http://172.17.0.1/private/ stretch-staging/main libltdl-dev armhf 2.4.2-1.11 [155 kB]
Get:35 http://172.17.0.1/private/ stretch-staging/main libtinfo-dev armhf 6.0+20150810-1 [65.8 kB]
Get:36 http://172.17.0.1/private/ stretch-staging/main libreadline6-dev armhf 6.3-8+b3 [105 kB]
Get:37 http://172.17.0.1/private/ stretch-staging/main libreadline-dev armhf 6.3-8+b3 [958 B]
Get:38 http://172.17.0.1/private/ stretch-staging/main zlib1g-dev armhf 1:1.2.8.dfsg-2+b1 [197 kB]
Get:39 http://172.17.0.1/private/ stretch-staging/main libhwloc-dev armhf 1.11.0-1 [131 kB]
Get:40 http://172.17.0.1/private/ stretch-staging/main libibverbs1 armhf 1.1.8-1.1 [28.5 kB]
Get:41 http://172.17.0.1/private/ stretch-staging/main libibverbs-dev armhf 1.1.8-1.1 [82.6 kB]
Get:42 http://172.17.0.1/private/ stretch-staging/main libopenmpi1.6 armhf 1.6.5-10+rpi1 [1240 kB]
Get:43 http://172.17.0.1/private/ stretch-staging/main openmpi-common all 1.6.5-10+rpi1 [111 kB]
Get:44 http://172.17.0.1/private/ stretch-staging/main libopenmpi-dev armhf 1.6.5-10+rpi1 [447 kB]
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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 libpipeline1:armhf (1.4.1-1) ...
Setting up man-db (2.7.3-1) ...
Not building database; man-db/auto-update is not 'true'.
Setting up libasprintf0v5:armhf (0.19.5.1-1) ...
Setting up libmagic1:armhf (1:5.22+15-2) ...
Setting up libxml2:armhf (2.9.1+dfsg1-5) ...
Setting up libffi6:armhf (3.2.1-3) ...
Setting up libglib2.0-0:armhf (2.44.1-1.1) ...
No schema files found: doing nothing.
Setting up libcroco3:armhf (0.6.8-3) ...
Setting up libgfortran3:armhf (5.2.1-16+rpi1) ...
Setting up libltdl7:armhf (2.4.2-1.11) ...
Setting up libunistring0:armhf (0.9.3-5.2) ...
Setting up libhwloc5:armhf (1.11.0-1) ...
Setting up libboost-iostreams1.58.0:armhf (1.58.0+dfsg-3) ...
Setting up file (1:5.22+15-2) ...
Setting up gettext-base (0.19.5.1-1) ...
Setting up gettext (0.19.5.1-1) ...
Setting up intltool-debian (0.35.0+20060710.2) ...
Setting up po-debconf (1.0.18) ...
Setting up debhelper (9.20150811) ...
Setting up libgfortran-5-dev:armhf (5.2.1-16+rpi1) ...
Setting up gfortran-5 (5.2.1-16+rpi1) ...
Setting up gfortran (4:5.2.1-4+rpi2) ...
update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f95 (f95) in auto mode
update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f77 (f77) in auto mode
Setting up libicu55:armhf (55.1-5) ...
Setting up icu-devtools (55.1-5) ...
Setting up libboost1.58-dev:armhf (1.58.0+dfsg-3) ...
Setting up libboost-regex1.58.0:armhf (1.58.0+dfsg-3) ...
Setting up libicu-dev:armhf (55.1-5) ...
Setting up libboost-regex1.58-dev:armhf (1.58.0+dfsg-3) ...
Setting up libboost-iostreams1.58-dev:armhf (1.58.0+dfsg-3) ...
Setting up libboost-iostreams-dev:armhf (1.58.0.1) ...
Setting up libcr0 (0.8.5-2.2) ...
Setting up libltdl-dev:armhf (2.4.2-1.11) ...
Setting up libtinfo-dev:armhf (6.0+20150810-1) ...
Setting up libreadline6-dev:armhf (6.3-8+b3) ...
Setting up libreadline-dev:armhf (6.3-8+b3) ...
Setting up zlib1g-dev:armhf (1:1.2.8.dfsg-2+b1) ...
Setting up libhwloc-dev:armhf (1.11.0-1) ...
Setting up libibverbs1 (1.1.8-1.1) ...
Setting up libibverbs-dev (1.1.8-1.1) ...
Setting up libopenmpi1.6 (1.6.5-10+rpi1) ...
Setting up openmpi-common (1.6.5-10+rpi1) ...
Setting up libopenmpi-dev (1.6.5-10+rpi1) ...
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 (2.19-19) ...
┌──────────────────────────────────────────────────────────────────────────────┐
│ Build environment │
└──────────────────────────────────────────────────────────────────────────────┘
Kernel: Linux 3.19.0-trunk-armmp armhf (armv7l)
Toolchain package versions: binutils_2.25.1-1 dpkg-dev_1.18.2 g++-4.9_4.9.3-4 g++-5_5.2.1-16+rpi1 gcc-4.9_4.9.3-4 gcc-5_5.2.1-16+rpi1 libc6-dev_2.19-19 libstdc++-4.9-dev_4.9.3-4 libstdc++-5-dev_5.2.1-16+rpi1 libstdc++6_5.2.1-16+rpi1 linux-libc-dev_3.16.7-ckt4-1+rpi1+b2
Package versions: acl_2.2.52-2 adduser_3.113+nmu3 apt_1.0.10.2 base-files_9.4+rpi1 base-passwd_3.5.38 bash_4.3-14 binutils_2.25.1-1 bsdmainutils_9.0.6 bsdutils_1:2.26.2-9 build-essential_11.7 bzip2_1.0.6-8 coreutils_8.23-4 cpio_2.11+dfsg-4.1 cpp_4:5.2.1-4+rpi2 cpp-4.9_4.9.3-4 cpp-5_5.2.1-16+rpi1 dash_0.5.7-4 debconf_1.5.57 debfoster_2.7-2 debhelper_9.20150811 debianutils_4.5.1 diffutils_1:3.3-1 dmsetup_2:1.02.104-1 dpkg_1.18.2 dpkg-dev_1.18.2 e2fslibs_1.42.13-1 e2fsprogs_1.42.13-1 fakeroot_1.20.2-1 file_1:5.22+15-2 findutils_4.4.2-9 g++_4:5.2.1-4+rpi2 g++-4.9_4.9.3-4 g++-5_5.2.1-16+rpi1 gcc_4:5.2.1-4+rpi2 gcc-4.6-base_4.6.4-5+rpi1 gcc-4.7-base_4.7.3-11+rpi1 gcc-4.8-base_4.8.4-4 gcc-4.9_4.9.3-4 gcc-4.9-base_4.9.3-4 gcc-5_5.2.1-16+rpi1 gcc-5-base_5.2.1-16+rpi1 gettext_0.19.5.1-1 gettext-base_0.19.5.1-1 gfortran_4:5.2.1-4+rpi2 gfortran-5_5.2.1-16+rpi1 gnupg_1.4.19-5 gpgv_1.4.19-5 grep_2.21-2 groff-base_1.22.3-1 gzip_1.6-4 hostname_3.16 icu-devtools_55.1-5 init_1.23 init-system-helpers_1.23 initramfs-tools_0.120 initscripts_2.88dsf-59.2 insserv_1.14.0-5 intltool-debian_0.35.0+20060710.2 klibc-utils_2.0.4-2+rpi1 kmod_21-1 libacl1_2.2.52-2 libapparmor1_2.9.2-3 libapt-pkg4.12_1.0.9.10 libapt-pkg4.16_1.0.10.2 libasan1_4.9.3-4 libasan2_5.2.1-16+rpi1 libasprintf0v5_0.19.5.1-1 libatomic1_5.2.1-16+rpi1 libattr1_1:2.4.47-2 libaudit-common_1:2.4.4-1 libaudit1_1:2.4.4-1 libblkid1_2.26.2-9 libboost-iostreams-dev_1.58.0.1 libboost-iostreams1.58-dev_1.58.0+dfsg-3 libboost-iostreams1.58.0_1.58.0+dfsg-3 libboost-regex1.58-dev_1.58.0+dfsg-3 libboost-regex1.58.0_1.58.0+dfsg-3 libboost1.58-dev_1.58.0+dfsg-3 libbz2-1.0_1.0.6-8 libc-bin_2.19-19 libc-dev-bin_2.19-19 libc6_2.19-19 libc6-dev_2.19-19 libcap2_1:2.24-11 libcap2-bin_1:2.24-11 libcc1-0_5.2.1-16+rpi1 libcloog-isl4_0.18.3-1 libcomerr2_1.42.13-1 libcr0_0.8.5-2.2 libcroco3_0.6.8-3 libcryptsetup4_2:1.6.6-5 libdb5.3_5.3.28-11 libdbus-1-3_1.8.20-1 libdebconfclient0_0.195 libdevmapper1.02.1_2:1.02.104-1 libdpkg-perl_1.18.2 libdrm2_2.4.64-1 libfakeroot_1.20.2-1 libfdisk1_2.26.2-9 libffi6_3.2.1-3 libgc1c2_1:7.2d-6.4 libgcc-4.9-dev_4.9.3-4 libgcc-5-dev_5.2.1-16+rpi1 libgcc1_1:5.2.1-16+rpi1 libgcrypt20_1.6.3-2 libgdbm3_1.8.3-13.1 libgfortran-5-dev_5.2.1-16+rpi1 libgfortran3_5.2.1-16+rpi1 libglib2.0-0_2.44.1-1.1 libgmp10_2:6.0.0+dfsg-7+rpi1 libgomp1_5.2.1-16+rpi1 libgpg-error0_1.19-2 libhwloc-dev_1.11.0-1 libhwloc5_1.11.0-1 libibverbs-dev_1.1.8-1.1 libibverbs1_1.1.8-1.1 libicu-dev_55.1-5 libicu55_55.1-5 libisl13_0.14-2 libklibc_2.0.4-2+rpi1 libkmod2_21-1 liblocale-gettext-perl_1.05-9 libltdl-dev_2.4.2-1.11 libltdl7_2.4.2-1.11 liblzma5_5.1.1alpha+20120614-2.1 libmagic1_1:5.22+15-2 libmount1_2.26.2-9 libmpc3_1.0.3-1 libmpfr4_3.1.3-1 libncurses5_6.0+20150810-1 libncursesw5_6.0+20150810-1 libnih-dbus1_1.0.3-4.3 libnih1_1.0.3-4.3 libopenmpi-dev_1.6.5-10+rpi1 libopenmpi1.6_1.6.5-10+rpi1 libpam-modules_1.1.8-3.1 libpam-modules-bin_1.1.8-3.1 libpam-runtime_1.1.8-3.1 libpam0g_1.1.8-3.1 libpcre3_2:8.35-7.1 libpipeline1_1.4.1-1 libpng12-0_1.2.50-2+b2 libprocps3_2:3.3.9-9 libprocps4_2:3.3.10-2 libreadline-dev_6.3-8+b3 libreadline6_6.3-8+b3 libreadline6-dev_6.3-8+b3 libseccomp2_2.2.3-2 libselinux1_2.3-2 libsemanage-common_2.3-1 libsemanage1_2.3-1 libsepol1_2.3-2 libslang2_2.3.0-2+b1 libsmartcols1_2.26.2-9 libss2_1.42.13-1 libstdc++-4.9-dev_4.9.3-4 libstdc++-5-dev_5.2.1-16+rpi1 libstdc++6_5.2.1-16+rpi1 libsystemd0_225-1 libtext-charwidth-perl_0.04-7+b4 libtext-iconv-perl_1.7-5+b5 libtext-wrapi18n-perl_0.06-7.1 libtimedate-perl_2.3000-2 libtinfo-dev_6.0+20150810-1 libtinfo5_6.0+20150810-1 libubsan0_5.2.1-16+rpi1 libudev1_225-1 libunistring0_0.9.3-5.2 libusb-0.1-4_2:0.1.12-27 libustr-1.0-1_1.0.4-5 libuuid1_2.26.2-9 libxml2_2.9.1+dfsg1-5 linux-libc-dev_3.16.7-ckt4-1+rpi1+b2 login_1:4.2-3 lsb-base_4.1+Debian13+rpi1+nmu1 make_4.0-8.2 makedev_2.3.1-93 man-db_2.7.3-1 mawk_1.3.3-17 mount_2.26.2-9 mountall_2.54 multiarch-support_2.19-19 ncurses-base_6.0+20150810-1 ncurses-bin_6.0+20150810-1 openmpi-common_1.6.5-10+rpi1 passwd_1:4.2-3 patch_2.7.5-1 perl_5.20.2-6 perl-base_5.20.2-6 perl-modules_5.20.2-6 plymouth_0.9.0-9 po-debconf_1.0.18 procps_2:3.3.10-2 raspbian-archive-keyring_20120528.2 readline-common_6.3-8 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-mothur-dummy_0.invalid.0 sed_4.2.2-6.1 sensible-utils_0.0.9 startpar_0.59-3 systemd_225-1 systemd-sysv_225-1 sysv-rc_2.88dsf-59.2 sysvinit-utils_2.88dsf-59.2 tar_1.28-1 tzdata_2015f-1 udev_225-1 util-linux_2.26.2-9 xz-utils_5.1.1alpha+20120614-2.1 zlib1g_1:1.2.8.dfsg-2+b1 zlib1g-dev_1:1.2.8.dfsg-2+b1
┌──────────────────────────────────────────────────────────────────────────────┐
│ Build │
└──────────────────────────────────────────────────────────────────────────────┘
Unpack source
─────────────
gpgv: keyblock resource `/sbuild-nonexistent/.gnupg/trustedkeys.gpg': file open error
gpgv: Signature made Mon Sep 7 09:11:23 2015 UTC using RSA key ID 24B17D29
gpgv: Can't check signature: public key not found
dpkg-source: warning: failed to verify signature on ./mothur_1.36.1-1.dsc
dpkg-source: info: extracting mothur in mothur-1.36.1
dpkg-source: info: unpacking mothur_1.36.1.orig.tar.gz
dpkg-source: info: unpacking mothur_1.36.1-1.debian.tar.xz
dpkg-source: info: applying 0001-Don-t-link-uchime-statically-and-don-t-strip-it.patch
dpkg-source: info: applying 0002-Some-spelling-corrections.patch
dpkg-source: info: applying 0003-Don-t-link-against-lncurses-no-symbols-are-used.patch
dpkg-source: info: applying 0004-Fix-for-FTBFS-cc1plus-error-unrecognized-command-lin.patch
dpkg-source: info: applying 0005-Don-t-redirect-anything-to-dev-tty.patch
dpkg-source: info: applying 0006-Turn-off-unportable-optimizations-in-makefile.patch
dpkg-source: info: applying 0007-Fix-file-searching-logic.patch
dpkg-source: info: applying 0008-Fix-catchall-command.patch
dpkg-source: info: applying 0009-Fix-boost_iostreams-flags.patch
dpkg-source: info: applying 0010-Pass-hardening-flags-to-uchime-build.patch
dpkg-source: info: applying 0011-Don-t-hardcode-mpic-as-the-compiler.patch
Check disc space
────────────────
Sufficient free space for build
User Environment
────────────────
DEB_BUILD_OPTIONS=parallel=4
HOME=/sbuild-nonexistent
LOGNAME=buildd
PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games
SCHROOT_ALIAS_NAME=stretch-staging-armhf-sbuild
SCHROOT_CHROOT_NAME=stretch-staging-armhf-sbuild
SCHROOT_COMMAND=env
SCHROOT_GID=109
SCHROOT_GROUP=buildd
SCHROOT_SESSION_ID=stretch-staging-armhf-sbuild-1efb3d51-8325-4c2a-a417-9b90449aeec6
SCHROOT_UID=104
SCHROOT_USER=buildd
SHELL=/bin/sh
USER=buildd
dpkg-buildpackage
─────────────────
dpkg-buildpackage: source package mothur
dpkg-buildpackage: source version 1.36.1-1
dpkg-buildpackage: source distribution unstable
dpkg-source --before-build mothur-1.36.1
dpkg-buildpackage: host architecture armhf
fakeroot debian/rules clean
dh clean --parallel
dh_testdir -O--parallel
debian/rules override_dh_auto_clean
make[1]: Entering directory '/«PKGBUILDDIR»'
rm -f mothur mothur-mpi
make clean
make[2]: Entering directory '/«PKGBUILDDIR»'
make[2]: Leaving directory '/«PKGBUILDDIR»'
( cd source/uchime_src && rm -f *.o mk.stdout mk.stderr tmp.stderr )
make[1]: Leaving directory '/«PKGBUILDDIR»'
dh_clean -O--parallel
debian/rules build-arch
dh build-arch --parallel
dh_testdir -a -O--parallel
dh_auto_configure -a -O--parallel
debian/rules override_dh_auto_build
make[1]: Entering directory '/«PKGBUILDDIR»'
dh_auto_build -- 64BIT_VERSION=no USEMPI=yes
make -j4 64BIT_VERSION=no USEMPI=yes
make[2]: Entering directory '/«PKGBUILDDIR»'
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/randomnumber.o source/randomnumber.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/myseqdist.o source/myseqdist.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/consensus.o source/consensus.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/mothurout.o source/mothurout.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/mothur.o source/mothur.cpp
source/mothurout.cpp: In member function 'bool MothurOut::mkDir(std::__cxx11::string&)':
source/mothurout.cpp:964:45: warning: ignoring return value of 'int system(const char*)', declared with attribute warn_unused_result [-Wunused-result]
system(makeDirectoryCommand.c_str());
^
source/mothurout.cpp: In member function 'int MothurOut::renameFile(std::__cxx11::string, std::__cxx11::string)':
source/mothurout.cpp:1541:27: warning: ignoring return value of 'int system(const char*)', declared with attribute warn_unused_result [-Wunused-result]
system(command.c_str());
^
source/mothurout.cpp:1545:26: warning: ignoring return value of 'int system(const char*)', declared with attribute warn_unused_result [-Wunused-result]
system(command.c_str());
^
source/mothurout.cpp: In member function 'std::__cxx11::string MothurOut::sortFile(std::__cxx11::string, std::__cxx11::string)':
source/mothurout.cpp:1792:27: warning: ignoring return value of 'int system(const char*)', declared with attribute warn_unused_result [-Wunused-result]
system(command.c_str());
^
source/mothur.cpp: In function 'int main(int, char**)':
source/mothur.cpp:52:19: warning: ignoring return value of 'int system(const char*)', declared with attribute warn_unused_result [-Wunused-result]
system("clear");
^
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/subsample.o source/subsample.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/engine.o source/engine.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/linearalgebra.o source/linearalgebra.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/inputdata.o source/inputdata.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calcsparcc.o source/calcsparcc.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/clusterclassic.o source/clusterclassic.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/gotohoverlap.o source/gotohoverlap.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/weightedlinkage.o source/weightedlinkage.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/sharedutilities.o source/sharedutilities.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/singlelinkage.o source/singlelinkage.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/seqnoise.o source/seqnoise.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/hcluster.o source/hcluster.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/raredisplay.o source/raredisplay.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/heatmapsim.o source/heatmapsim.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/refchimeratest.o source/refchimeratest.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/progress.o source/progress.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/heatmap.o source/heatmap.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/validparameter.o source/validparameter.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/trialSwap2.o source/trialSwap2.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/averagelinkage.o source/averagelinkage.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commandfactory.o source/commandfactory.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/validcalculator.o source/validcalculator.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commandoptionparser.o source/commandoptionparser.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/fileoutput.o source/fileoutput.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/rarecalc.o source/rarecalc.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/dlibshuff.o source/dlibshuff.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/completelinkage.o source/completelinkage.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/overlap.o source/overlap.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/cluster.o source/cluster.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/libshuff.o source/libshuff.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/optionparser.o source/optionparser.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/nastreport.o source/nastreport.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/rarefact.o source/rarefact.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/wilcox.o source/wilcox.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/noalign.o source/noalign.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/slibshuff.o source/slibshuff.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/nast.o source/nast.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/venn.o source/venn.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/collect.o source/collect.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/needlemanoverlap.o source/needlemanoverlap.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/trimoligos.o source/trimoligos.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/calculator.o source/calculators/calculator.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/prng.o source/calculators/prng.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/sharedthetayc.o source/calculators/sharedthetayc.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/coverage.o source/calculators/coverage.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/structchi2.o source/calculators/structchi2.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/sharedmorisitahorn.o source/calculators/sharedmorisitahorn.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/sharedace.o source/calculators/sharedace.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/qstat.o source/calculators/qstat.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/bergerparker.o source/calculators/bergerparker.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/sharedsobs.o source/calculators/sharedsobs.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/goodscoverage.o source/calculators/goodscoverage.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/canberra.o source/calculators/canberra.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/parsimony.o source/calculators/parsimony.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/sharedrjsd.o source/calculators/sharedrjsd.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/smithwilson.o source/calculators/smithwilson.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/sharedbraycurtis.o source/calculators/sharedbraycurtis.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/simpson.o source/calculators/simpson.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/mempearson.o source/calculators/mempearson.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/spearman.o source/calculators/spearman.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/logsd.o source/calculators/logsd.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/shen.o source/calculators/shen.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/memchord.o source/calculators/memchord.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/manhattan.o source/calculators/manhattan.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/geom.o source/calculators/geom.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/jackknife.o source/calculators/jackknife.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/whittaker.o source/calculators/whittaker.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/efron.o source/calculators/efron.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/bootstrap.o source/calculators/bootstrap.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/hamming.o source/calculators/hamming.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/invsimpson.o source/calculators/invsimpson.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/sharedthetan.o source/calculators/sharedthetan.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/sharedsorclass.o source/calculators/sharedsorclass.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/shannon.o source/calculators/shannon.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/weighted.o source/calculators/weighted.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/sharedjackknife.o source/calculators/sharedjackknife.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/npshannon.o source/calculators/npshannon.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/structeuclidean.o source/calculators/structeuclidean.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/sharedchao1.o source/calculators/sharedchao1.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/chao1.o source/calculators/chao1.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/simpsoneven.o source/calculators/simpsoneven.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/sharedjclass.o source/calculators/sharedjclass.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/shannonrange.o source/calculators/shannonrange.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/structkulczynski.o source/calculators/structkulczynski.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/gower.o source/calculators/gower.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/structchord.o source/calculators/structchord.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/shannoneven.o source/calculators/shannoneven.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/bstick.o source/calculators/bstick.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/sharedjsd.o source/calculators/sharedjsd.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/sharedjest.o source/calculators/sharedjest.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/uvest.o source/calculators/uvest.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/sharedsobscollectsummary.o source/calculators/sharedsobscollectsummary.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/sharedanderbergs.o source/calculators/sharedanderbergs.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/odum.o source/calculators/odum.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/structpearson.o source/calculators/structpearson.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/ace.o source/calculators/ace.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/sharedlennon.o source/calculators/sharedlennon.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/memeuclidean.o source/calculators/memeuclidean.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/memchi2.o source/calculators/memchi2.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/sharedjabund.o source/calculators/sharedjabund.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/unweighted.o source/calculators/unweighted.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/boneh.o source/calculators/boneh.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/sharedsorest.o source/calculators/sharedsorest.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/soergel.o source/calculators/soergel.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/heip.o source/calculators/heip.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/sharedkulczynskicody.o source/calculators/sharedkulczynskicody.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/sharedmarczewski.o source/calculators/sharedmarczewski.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/sharedsorabund.o source/calculators/sharedsorabund.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/solow.o source/calculators/solow.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/sharedkstest.o source/calculators/sharedkstest.cpp
source/venn.cpp: In member function 'std::vector<std::__cxx11::basic_string<char> > Venn::getPic(std::vector<SharedRAbundVector*>, std::vector<Calculator*>)':
source/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) {
^
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/hellinger.o source/calculators/hellinger.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/sharedochiai.o source/calculators/sharedochiai.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/sharedkulczynski.o source/calculators/sharedkulczynski.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/speciesprofile.o source/calculators/speciesprofile.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/chimera/pintail.o source/chimera/pintail.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/chimera/myPerseus.o source/chimera/myPerseus.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/chimera/bellerophon.o source/chimera/bellerophon.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/chimera/maligner.o source/chimera/maligner.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/chimera/chimeraslayer.o source/chimera/chimeraslayer.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/chimera/chimera.o source/chimera/chimera.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/chimera/slayer.o source/chimera/slayer.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/chimera/ccode.o source/chimera/ccode.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/chimera/chimerarealigner.o source/chimera/chimerarealigner.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/chimera/chimeracheckrdp.o source/chimera/chimeracheckrdp.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/chimera/decalc.o source/chimera/decalc.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/classifier/classify.o source/classifier/classify.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/classifier/phylosummary.o source/classifier/phylosummary.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/classifier/taxonomyequalizer.o source/classifier/taxonomyequalizer.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/classifier/kmernode.o source/classifier/kmernode.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/classifier/phylotree.o source/classifier/phylotree.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/classifier/aligntree.o source/classifier/aligntree.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/classifier/kmertree.o source/classifier/kmertree.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/classifier/knn.o source/classifier/knn.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/classifier/alignnode.o source/classifier/alignnode.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/classifier/bayesian.o source/classifier/bayesian.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/classifier/taxonomynode.o source/classifier/taxonomynode.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/clearcut/distclearcut.o source/clearcut/distclearcut.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/clearcut/clearcut.o source/clearcut/clearcut.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/clearcut/fasta.o source/clearcut/fasta.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/clearcut/dmat.o source/clearcut/dmat.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/clearcut/getopt_long.o source/clearcut/getopt_long.cpp
source/clearcut/dmat.cpp: In function 'DMAT* NJ_parse_distance_matrix(NJ_ARGS*)':
source/clearcut/dmat.cpp:476:36: warning: ignoring return value of 'int fscanf(FILE*, const char*, ...)', declared with attribute warn_unused_result [-Wunused-result]
fscanf(fp, "%ld\n", &dmat->ntaxa);
^
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/clearcut/cmdargs.o source/clearcut/cmdargs.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/distancecommand.o source/commands/distancecommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/getotuscommand.o source/commands/getotuscommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/clearcutcommand.o source/commands/clearcutcommand.cpp
source/commands/distancecommand.cpp: In member function 'virtual int DistanceCommand::execute()':
source/commands/distancecommand.cpp:490:45: warning: ignoring return value of 'int system(const char*)', declared with attribute warn_unused_result [-Wunused-result]
system(("gzip -v " + outputFile).c_str());
^
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/listseqscommand.o source/commands/listseqscommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/clusterdoturcommand.o source/commands/clusterdoturcommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/setlogfilecommand.o source/commands/setlogfilecommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/heatmapcommand.o source/commands/heatmapcommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/mergetaxsummarycommand.o source/commands/mergetaxsummarycommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/quitcommand.o source/commands/quitcommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/indicatorcommand.o source/commands/indicatorcommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/removegroupscommand.o source/commands/removegroupscommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/pipelinepdscommand.o source/commands/pipelinepdscommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/clusterfragmentscommand.o source/commands/clusterfragmentscommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/getgroupscommand.o source/commands/getgroupscommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/kruskalwalliscommand.o source/commands/kruskalwalliscommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/getotulabelscommand.o source/commands/getotulabelscommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/removeseqscommand.o source/commands/removeseqscommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/mimarksattributescommand.o source/commands/mimarksattributescommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/renameseqscommand.o source/commands/renameseqscommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/makegroupcommand.o source/commands/makegroupcommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/deuniqueseqscommand.o source/commands/deuniqueseqscommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/classifyseqscommand.o source/commands/classifyseqscommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/makefilecommand.o source/commands/makefilecommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/getdistscommand.o source/commands/getdistscommand.cpp
source/commands/makefilecommand.cpp: In member function 'virtual int MakeFileCommand::execute()':
source/commands/makefilecommand.cpp:137:36: warning: ignoring return value of 'int system(const char*)', declared with attribute warn_unused_result [-Wunused-result]
system(findCommand.c_str());
^
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/sensspeccommand.o source/commands/sensspeccommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/summaryqualcommand.o source/commands/summaryqualcommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/unifracweightedcommand.o source/commands/unifracweightedcommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/getcoremicrobiomecommand.o source/commands/getcoremicrobiomecommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/createdatabasecommand.o source/commands/createdatabasecommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/splitgroupscommand.o source/commands/splitgroupscommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/sffmultiplecommand.o source/commands/sffmultiplecommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/removerarecommand.o source/commands/removerarecommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/parselistscommand.o source/commands/parselistscommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/normalizesharedcommand.o source/commands/normalizesharedcommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/heatmapsimcommand.o source/commands/heatmapsimcommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/clustercommand.o source/commands/clustercommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/mgclustercommand.o source/commands/mgclustercommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/summarytaxcommand.o source/commands/summarytaxcommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/unifracunweightedcommand.o source/commands/unifracunweightedcommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/systemcommand.o source/commands/systemcommand.cpp
source/commands/systemcommand.cpp: In member function 'virtual int SystemCommand::execute()':
source/commands/systemcommand.cpp:101:26: warning: ignoring return value of 'int system(const char*)', declared with attribute warn_unused_result [-Wunused-result]
system(command.c_str());
^
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/seqerrorcommand.o source/commands/seqerrorcommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/aligncommand.o source/commands/aligncommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/otuhierarchycommand.o source/commands/otuhierarchycommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/getrelabundcommand.o source/commands/getrelabundcommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/removelineagecommand.o source/commands/removelineagecommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/chimeraccodecommand.o source/commands/chimeraccodecommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/chimerabellerophoncommand.o source/commands/chimerabellerophoncommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/getsharedotucommand.o source/commands/getsharedotucommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/parsefastaqcommand.o source/commands/parsefastaqcommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/countgroupscommand.o source/commands/countgroupscommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/cooccurrencecommand.o source/commands/cooccurrencecommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/screenseqscommand.o source/commands/screenseqscommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/parsimonycommand.o source/commands/parsimonycommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/sracommand.o source/commands/sracommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/trimseqscommand.o source/commands/trimseqscommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/amovacommand.o source/commands/amovacommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/splitabundcommand.o source/commands/splitabundcommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/primerdesigncommand.o source/commands/primerdesigncommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/getrabundcommand.o source/commands/getrabundcommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/catchallcommand.o source/commands/catchallcommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/treegroupscommand.o source/commands/treegroupscommand.cpp
source/commands/catchallcommand.cpp: In member function 'virtual int CatchAllCommand::execute()':
source/commands/catchallcommand.cpp:322:38: warning: ignoring return value of 'int system(const char*)', declared with attribute warn_unused_result [-Wunused-result]
system(catchAllCommand.c_str());
^
source/commands/catchallcommand.cpp:385:38: warning: ignoring return value of 'int system(const char*)', declared with attribute warn_unused_result [-Wunused-result]
system(catchAllCommand.c_str());
^
source/commands/catchallcommand.cpp:470:36: warning: ignoring return value of 'int system(const char*)', declared with attribute warn_unused_result [-Wunused-result]
system(catchAllCommand.c_str());
^
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/deconvolutecommand.o source/commands/deconvolutecommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/mantelcommand.o source/commands/mantelcommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/matrixoutputcommand.o source/commands/matrixoutputcommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/makecontigscommand.o source/commands/makecontigscommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/makelookupcommand.o source/commands/makelookupcommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/rarefactcommand.o source/commands/rarefactcommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/summarysharedcommand.o source/commands/summarysharedcommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/getlineagecommand.o source/commands/getlineagecommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/nmdscommand.o source/commands/nmdscommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/getcommandinfocommand.o source/commands/getcommandinfocommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/listotulabelscommand.o source/commands/listotulabelscommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/getsabundcommand.o source/commands/getsabundcommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/lefsecommand.o source/commands/lefsecommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/removeotulabelscommand.o source/commands/removeotulabelscommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/removeotuscommand.o source/commands/removeotuscommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/hclustercommand.o source/commands/hclustercommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/phylodiversitycommand.o source/commands/phylodiversitycommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/venncommand.o source/commands/venncommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/filtersharedcommand.o source/commands/filtersharedcommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/shhhercommand.o source/commands/shhhercommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/mergesfffilecommand.o source/commands/mergesfffilecommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/secondarystructurecommand.o source/commands/secondarystructurecommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/pcacommand.o source/commands/pcacommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/metastatscommand.o source/commands/metastatscommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/subsamplecommand.o source/commands/subsamplecommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/chimeraslayercommand.o source/commands/chimeraslayercommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/chopseqscommand.o source/commands/chopseqscommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/seqsummarycommand.o source/commands/seqsummarycommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/makebiomcommand.o source/commands/makebiomcommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/getlistcountcommand.o source/commands/getlistcountcommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/getlabelcommand.o source/commands/getlabelcommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/consensusseqscommand.o source/commands/consensusseqscommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/sffinfocommand.o source/commands/sffinfocommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/corraxescommand.o source/commands/corraxescommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/preclustercommand.o source/commands/preclustercommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/setdircommand.o source/commands/setdircommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/classifytreecommand.o source/commands/classifytreecommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/getseqscommand.o source/commands/getseqscommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/collectsharedcommand.o source/commands/collectsharedcommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/getmimarkspackagecommand.o source/commands/getmimarkspackagecommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/setcurrentcommand.o source/commands/setcurrentcommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/getmetacommunitycommand.o source/commands/getmetacommunitycommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/setseedcommand.o source/commands/setseedcommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/sharedcommand.o source/commands/sharedcommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/mergefilecommand.o source/commands/mergefilecommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/pcoacommand.o source/commands/pcoacommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/classifyrfsharedcommand.o source/commands/classifyrfsharedcommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/clearmemorycommand.o source/commands/clearmemorycommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/getgroupcommand.o source/commands/getgroupcommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/makefastqcommand.o source/commands/makefastqcommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/helpcommand.o source/commands/helpcommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/pcrseqscommand.o source/commands/pcrseqscommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/anosimcommand.o source/commands/anosimcommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/chimeraperseuscommand.o source/commands/chimeraperseuscommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/deuniquetreecommand.o source/commands/deuniquetreecommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/binsequencecommand.o source/commands/binsequencecommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/makelefsecommand.o source/commands/makelefsecommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/loadlogfilecommand.o source/commands/loadlogfilecommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/trimflowscommand.o source/commands/trimflowscommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/classifyotucommand.o source/commands/classifyotucommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/sortseqscommand.o source/commands/sortseqscommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/otuassociationcommand.o source/commands/otuassociationcommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/removedistscommand.o source/commands/removedistscommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/homovacommand.o source/commands/homovacommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/filterseqscommand.o source/commands/filterseqscommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/classifysvmsharedcommand.o source/commands/classifysvmsharedcommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/countseqscommand.o source/commands/countseqscommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/chimerauchimecommand.o source/commands/chimerauchimecommand.cpp
source/commands/countseqscommand.cpp: In member function 'long long unsigned int CountSeqsCommand::processLarge(std::__cxx11::string)':
source/commands/countseqscommand.cpp:707:40: warning: ignoring return value of 'int system(const char*)', declared with attribute warn_unused_result [-Wunused-result]
system(command.c_str());
^
source/commands/countseqscommand.cpp:709:40: warning: ignoring return value of 'int system(const char*)', declared with attribute warn_unused_result [-Wunused-result]
system(command.c_str());
^
source/commands/chimerauchimecommand.cpp: In member function 'int ChimeraUchimeCommand::driver(std::__cxx11::string, std::__cxx11::string, std::__cxx11::string, std::__cxx11::string, int&)':
source/commands/chimerauchimecommand.cpp:1533:32: warning: ignoring return value of 'int system(const char*)', declared with attribute warn_unused_result [-Wunused-result]
system(commandString.c_str());
^
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/libshuffcommand.o source/commands/libshuffcommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/chimerapintailcommand.o source/commands/chimerapintailcommand.cpp
In file included from /usr/include/string.h:640:0,
from /usr/include/boost/range/detail/implementation_help.hpp:18,
from /usr/include/boost/range/end.hpp:24,
from /usr/include/boost/range/functions.hpp:19,
from /usr/include/boost/range/iterator_range_core.hpp:38,
from /usr/include/boost/range/iterator_range.hpp:13,
from /usr/include/boost/iostreams/traits.hpp:39,
from /usr/include/boost/iostreams/pipeline.hpp:18,
from /usr/include/boost/iostreams/detail/push.hpp:22,
from /usr/include/boost/iostreams/filtering_stream.hpp:19,
from source/mothur.h:21,
from source/commands/chimerauchimecommand.h:14,
from source/commands/chimerauchimecommand.cpp:10:
In function 'char* strcpy(char*, const char*)',
inlined from 'int ChimeraUchimeCommand::driver(std::__cxx11::string, std::__cxx11::string, std::__cxx11::string, std::__cxx11::string, int&)' at source/commands/chimerauchimecommand.cpp:1504:28:
/usr/include/arm-linux-gnueabihf/bits/string3.h:104:63: warning: call to void* __builtin___memcpy_chk(void*, const void*, unsigned int, unsigned int) will always overflow destination buffer
return __builtin___strcpy_chk (__dest, __src, __bos (__dest));
^
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/chimeracheckcommand.o source/commands/chimeracheckcommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/clustersplitcommand.o source/commands/clustersplitcommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/pairwiseseqscommand.o source/commands/pairwiseseqscommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/mergegroupscommand.o source/commands/mergegroupscommand.cpp
source/commands/pairwiseseqscommand.cpp: In member function 'virtual int PairwiseSeqsCommand::execute()':
source/commands/pairwiseseqscommand.cpp:475:46: warning: ignoring return value of 'int system(const char*)', declared with attribute warn_unused_result [-Wunused-result]
system(("gzip -v " + outputFile).c_str());
^
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/getoturepcommand.o source/commands/getoturepcommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/nocommands.o source/commands/nocommands.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/sparcccommand.o source/commands/sparcccommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/phylotypecommand.o source/commands/phylotypecommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/rarefactsharedcommand.o source/commands/rarefactsharedcommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/newcommandtemplate.o source/commands/newcommandtemplate.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/shhhseqscommand.o source/commands/shhhseqscommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/summarycommand.o source/commands/summarycommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/reversecommand.o source/commands/reversecommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/degapseqscommand.o source/commands/degapseqscommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/getcurrentcommand.o source/commands/getcurrentcommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/collectcommand.o source/commands/collectcommand.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/communitytype/communitytype.o source/communitytype/communitytype.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/communitytype/pam.o source/communitytype/pam.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/communitytype/kmeans.o source/communitytype/kmeans.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/communitytype/qFinderDMM.o source/communitytype/qFinderDMM.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/datastructures/listvector.o source/datastructures/listvector.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/datastructures/fastqread.o source/datastructures/fastqread.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/datastructures/sharedrabundfloatvector.o source/datastructures/sharedrabundfloatvector.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/datastructures/suffixtree.o source/datastructures/suffixtree.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/datastructures/qualityscores.o source/datastructures/qualityscores.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/datastructures/kmeralign.o source/datastructures/kmeralign.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/datastructures/ordervector.o source/datastructures/ordervector.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/datastructures/sequence.o source/datastructures/sequence.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/datastructures/suffixnodes.o source/datastructures/suffixnodes.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/datastructures/kmer.o source/datastructures/kmer.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/datastructures/referencedb.o source/datastructures/referencedb.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/datastructures/flowdata.o source/datastructures/flowdata.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/datastructures/oligos.o source/datastructures/oligos.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/datastructures/sharedordervector.o source/datastructures/sharedordervector.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/datastructures/fastamap.o source/datastructures/fastamap.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/datastructures/treemap.o source/datastructures/treemap.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/datastructures/sparsematrix.o source/datastructures/sparsematrix.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/datastructures/sharedlistvector.o source/datastructures/sharedlistvector.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/datastructures/sequencedb.o source/datastructures/sequencedb.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/datastructures/treenode.o source/datastructures/treenode.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/datastructures/distancedb.o source/datastructures/distancedb.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/datastructures/groupmap.o source/datastructures/groupmap.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/datastructures/sequenceparser.o source/datastructures/sequenceparser.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/datastructures/reportfile.o source/datastructures/reportfile.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/datastructures/alignment.o source/datastructures/alignment.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/datastructures/sequencecountparser.o source/datastructures/sequencecountparser.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/datastructures/fullmatrix.o source/datastructures/fullmatrix.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/datastructures/blastalign.o source/datastructures/blastalign.cpp
source/datastructures/blastalign.cpp: In member function 'virtual void BlastAlignment::align(std::__cxx11::string, std::__cxx11::string)':
source/datastructures/blastalign.cpp:63:30: warning: ignoring return value of 'int system(const char*)', declared with attribute warn_unused_result [-Wunused-result]
system(blastCommand.c_str()); // Here we assume that "bl2seq" is in the users path or in the same folder as
^
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/datastructures/tree.o source/datastructures/tree.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/datastructures/database.o source/datastructures/database.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/datastructures/counttable.o source/datastructures/counttable.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/datastructures/alignmentcell.o source/datastructures/alignmentcell.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/datastructures/rabundvector.o source/datastructures/rabundvector.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/datastructures/nameassignment.o source/datastructures/nameassignment.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/datastructures/kmerdb.o source/datastructures/kmerdb.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/datastructures/designmap.o source/datastructures/designmap.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/datastructures/sharedsabundvector.o source/datastructures/sharedsabundvector.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/datastructures/blastdb.o source/datastructures/blastdb.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/datastructures/suffixdb.o source/datastructures/suffixdb.cpp
source/datastructures/blastdb.cpp: In member function 'virtual std::vector<int> BlastDB::findClosestSequences(Sequence*, int)':
source/datastructures/blastdb.cpp:230:31: warning: ignoring return value of 'int system(const char*)', declared with attribute warn_unused_result [-Wunused-result]
system(blastCommand.c_str());
^
source/datastructures/blastdb.cpp: In member function 'virtual std::vector<int> BlastDB::findClosestMegaBlast(Sequence*, int, int)':
source/datastructures/blastdb.cpp:295:31: warning: ignoring return value of 'int system(const char*)', declared with attribute warn_unused_result [-Wunused-result]
system(blastCommand.c_str());
^
source/datastructures/blastdb.cpp: In member function 'virtual void BlastDB::generateDB()':
source/datastructures/blastdb.cpp:366:34: warning: ignoring return value of 'int system(const char*)', declared with attribute warn_unused_result [-Wunused-result]
system(formatdbCommand.c_str()); // to get the right sequence names, i think. -p F
^
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/datastructures/sabundvector.o source/datastructures/sabundvector.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/datastructures/sharedrabundvector.o source/datastructures/sharedrabundvector.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/datastructures/alignmentdb.o source/datastructures/alignmentdb.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/datastructures/sparsedistancematrix.o source/datastructures/sparsedistancematrix.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/metastats/mothurfisher.o source/metastats/mothurfisher.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/metastats/mothurmetastats.o source/metastats/mothurmetastats.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/randomforest/regularizeddecisiontree.o source/randomforest/regularizeddecisiontree.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/randomforest/rftreenode.o source/randomforest/rftreenode.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/randomforest/randomforest.o source/randomforest/randomforest.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/randomforest/decisiontree.o source/randomforest/decisiontree.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/randomforest/regularizedrandomforest.o source/randomforest/regularizedrandomforest.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/randomforest/abstractdecisiontree.o source/randomforest/abstractdecisiontree.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/randomforest/abstractrandomforest.o source/randomforest/abstractrandomforest.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/randomforest/forest.o source/randomforest/forest.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/read/formatcolumn.o source/read/formatcolumn.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/read/splitmatrix.o source/read/splitmatrix.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/read/readphylipvector.o source/read/readphylipvector.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/read/readblast.o source/read/readblast.cpp
source/read/formatcolumn.cpp: In member function 'virtual int FormatColumnMatrix::read(NameAssignment*)':
source/read/formatcolumn.cpp:87:27: warning: ignoring return value of 'int system(const char*)', declared with attribute warn_unused_result [-Wunused-result]
system(command.c_str());
^
source/read/formatcolumn.cpp: In member function 'virtual int FormatColumnMatrix::read(CountTable*)':
source/read/formatcolumn.cpp:250:32: warning: ignoring return value of 'int system(const char*)', declared with attribute warn_unused_result [-Wunused-result]
system(command.c_str());
^
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/read/readcluster.o source/read/readcluster.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/read/treereader.o source/read/treereader.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/read/readtree.o source/read/readtree.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/read/formatphylip.o source/read/formatphylip.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/read/readcolumn.o source/read/readcolumn.cpp
source/read/formatphylip.cpp: In member function 'virtual int FormatPhylipMatrix::read(NameAssignment*)':
source/read/formatphylip.cpp:108:29: warning: ignoring return value of 'int system(const char*)', declared with attribute warn_unused_result [-Wunused-result]
system(command.c_str());
^
source/read/formatphylip.cpp: In member function 'virtual int FormatPhylipMatrix::read(CountTable*)':
source/read/formatphylip.cpp:338:36: warning: ignoring return value of 'int system(const char*)', declared with attribute warn_unused_result [-Wunused-result]
system(command.c_str());
^
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/read/readphylip.o source/read/readphylip.cpp
mpic++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/svm/svm.o source/svm/svm.cpp
echo ENV_CXX="mpic++"
ENV_CXX=mpic++
echo ENV_GCC_OPTS="-D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/"
ENV_GCC_OPTS=-D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="7/27/2015" -DVERSION="1.36.1" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/
echo ENV_LINK_OPTS="-Wl,-z,relro -Lsource/ -Lsource/calculators/ -Lsource/chimera/ -Lsource/classifier/ -Lsource/clearcut/ -Lsource/commands/ -Lsource/communitytype/ -Lsource/datastructures/ -Lsource/metastats/ -Lsource/randomforest/ -Lsource/read/ -Lsource/svm/"
ENV_LINK_OPTS=-Wl,-z,relro -Lsource/ -Lsource/calculators/ -Lsource/chimera/ -Lsource/classifier/ -Lsource/clearcut/ -Lsource/commands/ -Lsource/communitytype/ -Lsource/datastructures/ -Lsource/metastats/ -Lsource/randomforest/ -Lsource/read/ -Lsource/svm/
cd source/uchime_src && ENV_CXX="mpic++" ENV_GCC_OPTS="-D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/" ENV_LINK_OPTS="-Wl,-z,relro -Lsource/ -Lsource/calculators/ -Lsource/chimera/ -Lsource/classifier/ -Lsource/clearcut/ -Lsource/commands/ -Lsource/communitytype/ -Lsource/datastructures/ -Lsource/metastats/ -Lsource/randomforest/ -Lsource/read/ -Lsource/svm/" ./mk && mv uchime ../../ && cd ..
addtargets2
+ mpic++ -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security '-DRELEASE_DATE="7/27/2015"' '-DVERSION="1.36.1"' -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -c -D_FILE_OFFSET_BITS=64 -DNDEBUG=1 -DUCHIMES=1 addtargets2.cpp -o addtargets2.o
+ set +x
alignchime
+ mpic++ -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security '-DRELEASE_DATE="7/27/2015"' '-DVERSION="1.36.1"' -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -c -D_FILE_OFFSET_BITS=64 -DNDEBUG=1 -DUCHIMES=1 alignchime.cpp -o alignchime.o
+ set +x
alignchimel
+ mpic++ -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security '-DRELEASE_DATE="7/27/2015"' '-DVERSION="1.36.1"' -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -c -D_FILE_OFFSET_BITS=64 -DNDEBUG=1 -DUCHIMES=1 alignchimel.cpp -o alignchimel.o
+ set +x
alnparams
+ mpic++ -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security '-DRELEASE_DATE="7/27/2015"' '-DVERSION="1.36.1"' -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -c -D_FILE_OFFSET_BITS=64 -DNDEBUG=1 -DUCHIMES=1 alnparams.cpp -o alnparams.o
+ set +x
alpha
+ mpic++ -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security '-DRELEASE_DATE="7/27/2015"' '-DVERSION="1.36.1"' -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -c -D_FILE_OFFSET_BITS=64 -DNDEBUG=1 -DUCHIMES=1 alpha.cpp -o alpha.o
+ set +x
alpha2
+ mpic++ -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security '-DRELEASE_DATE="7/27/2015"' '-DVERSION="1.36.1"' -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -c -D_FILE_OFFSET_BITS=64 -DNDEBUG=1 -DUCHIMES=1 alpha2.cpp -o alpha2.o
+ set +x
fractid
+ mpic++ -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security '-DRELEASE_DATE="7/27/2015"' '-DVERSION="1.36.1"' -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -c -D_FILE_OFFSET_BITS=64 -DNDEBUG=1 -DUCHIMES=1 fractid.cpp -o fractid.o
+ set +x
getparents
+ mpic++ -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security '-DRELEASE_DATE="7/27/2015"' '-DVERSION="1.36.1"' -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -c -D_FILE_OFFSET_BITS=64 -DNDEBUG=1 -DUCHIMES=1 getparents.cpp -o getparents.o
+ set +x
globalalign2
+ mpic++ -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security '-DRELEASE_DATE="7/27/2015"' '-DVERSION="1.36.1"' -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -c -D_FILE_OFFSET_BITS=64 -DNDEBUG=1 -DUCHIMES=1 globalalign2.cpp -o globalalign2.o
+ set +x
make3way
+ mpic++ -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security '-DRELEASE_DATE="7/27/2015"' '-DVERSION="1.36.1"' -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -c -D_FILE_OFFSET_BITS=64 -DNDEBUG=1 -DUCHIMES=1 make3way.cpp -o make3way.o
+ set +x
mx
+ mpic++ -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security '-DRELEASE_DATE="7/27/2015"' '-DVERSION="1.36.1"' -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -c -D_FILE_OFFSET_BITS=64 -DNDEBUG=1 -DUCHIMES=1 mx.cpp -o mx.o
+ set +x
myutils
+ mpic++ -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security '-DRELEASE_DATE="7/27/2015"' '-DVERSION="1.36.1"' -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -c -D_FILE_OFFSET_BITS=64 -DNDEBUG=1 -DUCHIMES=1 myutils.cpp -o myutils.o
+ set +x
path
+ mpic++ -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security '-DRELEASE_DATE="7/27/2015"' '-DVERSION="1.36.1"' -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -c -D_FILE_OFFSET_BITS=64 -DNDEBUG=1 -DUCHIMES=1 path.cpp -o path.o
+ set +x
searchchime
+ mpic++ -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security '-DRELEASE_DATE="7/27/2015"' '-DVERSION="1.36.1"' -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -c -D_FILE_OFFSET_BITS=64 -DNDEBUG=1 -DUCHIMES=1 searchchime.cpp -o searchchime.o
+ set +x
seqdb
+ mpic++ -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security '-DRELEASE_DATE="7/27/2015"' '-DVERSION="1.36.1"' -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -c -D_FILE_OFFSET_BITS=64 -DNDEBUG=1 -DUCHIMES=1 seqdb.cpp -o seqdb.o
+ set +x
setnucmx
+ mpic++ -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security '-DRELEASE_DATE="7/27/2015"' '-DVERSION="1.36.1"' -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -c -D_FILE_OFFSET_BITS=64 -DNDEBUG=1 -DUCHIMES=1 setnucmx.cpp -o setnucmx.o
+ set +x
sfasta
+ mpic++ -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security '-DRELEASE_DATE="7/27/2015"' '-DVERSION="1.36.1"' -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -c -D_FILE_OFFSET_BITS=64 -DNDEBUG=1 -DUCHIMES=1 sfasta.cpp -o sfasta.o
+ set +x
tracebackbit
+ mpic++ -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security '-DRELEASE_DATE="7/27/2015"' '-DVERSION="1.36.1"' -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -c -D_FILE_OFFSET_BITS=64 -DNDEBUG=1 -DUCHIMES=1 tracebackbit.cpp -o tracebackbit.o
+ set +x
uchime_main
+ mpic++ -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security '-DRELEASE_DATE="7/27/2015"' '-DVERSION="1.36.1"' -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -c -D_FILE_OFFSET_BITS=64 -DNDEBUG=1 -DUCHIMES=1 uchime_main.cpp -o uchime_main.o
+ set +x
usort
+ mpic++ -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security '-DRELEASE_DATE="7/27/2015"' '-DVERSION="1.36.1"' -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -c -D_FILE_OFFSET_BITS=64 -DNDEBUG=1 -DUCHIMES=1 usort.cpp -o usort.o
+ set +x
viterbifast
+ mpic++ -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security '-DRELEASE_DATE="7/27/2015"' '-DVERSION="1.36.1"' -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -c -D_FILE_OFFSET_BITS=64 -DNDEBUG=1 -DUCHIMES=1 viterbifast.cpp -o viterbifast.o
+ set +x
writechhit
+ mpic++ -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security '-DRELEASE_DATE="7/27/2015"' '-DVERSION="1.36.1"' -DUSE_READLINE -DUSE_MPI -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -c -D_FILE_OFFSET_BITS=64 -DNDEBUG=1 -DUCHIMES=1 writechhit.cpp -o writechhit.o
+ set +x
-rwxrwxr-x 1 buildd buildd 5.7M Sep 16 17:23 uchime
13594 5816
mpic++ -Wl,-z,relro -Lsource/ -Lsource/calculators/ -Lsource/chimera/ -Lsource/classifier/ -Lsource/clearcut/ -Lsource/commands/ -Lsource/communitytype/ -Lsource/datastructures/ -Lsource/metastats/ -Lsource/randomforest/ -Lsource/read/ -Lsource/svm/ -o mothur source/randomnumber.o source/consensus.o source/calcsparcc.o source/gotohoverlap.o source/validparameter.o source/heatmap.o source/nast.o source/mothurout.o source/completelinkage.o source/averagelinkage.o source/collect.o source/seqnoise.o source/venn.o source/inputdata.o source/clusterclassic.o source/refchimeratest.o source/slibshuff.o source/trialSwap2.o source/sharedutilities.o source/fileoutput.o source/cluster.o source/nastreport.o source/needlemanoverlap.o source/myseqdist.o source/subsample.o source/commandfactory.o source/rarecalc.o source/rarefact.o source/weightedlinkage.o source/wilcox.o source/progress.o source/linearalgebra.o source/singlelinkage.o source/trimoligos.o source/validcalculator.o source/optionparser.o source/mothur.o source/engine.o source/hcluster.o source/dlibshuff.o source/heatmapsim.o source/raredisplay.o source/commandoptionparser.o source/libshuff.o source/noalign.o source/overlap.o source/calculators/calculator.o source/calculators/prng.o source/calculators/sharedthetayc.o source/calculators/coverage.o source/calculators/structchi2.o source/calculators/sharedmorisitahorn.o source/calculators/sharedace.o source/calculators/qstat.o source/calculators/bergerparker.o source/calculators/sharedsobs.o source/calculators/goodscoverage.o source/calculators/canberra.o source/calculators/parsimony.o source/calculators/sharedrjsd.o source/calculators/smithwilson.o source/calculators/sharedbraycurtis.o source/calculators/simpson.o source/calculators/mempearson.o source/calculators/spearman.o source/calculators/logsd.o source/calculators/shen.o source/calculators/memchord.o source/calculators/manhattan.o source/calculators/geom.o source/calculators/jackknife.o source/calculators/whittaker.o source/calculators/efron.o source/calculators/bootstrap.o source/calculators/hamming.o source/calculators/invsimpson.o source/calculators/sharedthetan.o source/calculators/sharedsorclass.o source/calculators/shannon.o source/calculators/weighted.o source/calculators/sharedjackknife.o source/calculators/npshannon.o source/calculators/structeuclidean.o source/calculators/sharedchao1.o source/calculators/chao1.o source/calculators/simpsoneven.o source/calculators/sharedjclass.o source/calculators/shannonrange.o source/calculators/structkulczynski.o source/calculators/gower.o source/calculators/structchord.o source/calculators/shannoneven.o source/calculators/bstick.o source/calculators/sharedjsd.o source/calculators/sharedjest.o source/calculators/uvest.o source/calculators/sharedsobscollectsummary.o source/calculators/sharedanderbergs.o source/calculators/odum.o source/calculators/structpearson.o source/calculators/ace.o source/calculators/sharedlennon.o source/calculators/memeuclidean.o source/calculators/memchi2.o source/calculators/sharedjabund.o source/calculators/unweighted.o source/calculators/boneh.o source/calculators/sharedsorest.o source/calculators/soergel.o source/calculators/heip.o source/calculators/sharedkulczynskicody.o source/calculators/sharedmarczewski.o source/calculators/sharedsorabund.o source/calculators/solow.o source/calculators/sharedkstest.o source/calculators/hellinger.o source/calculators/sharedochiai.o source/calculators/sharedkulczynski.o source/calculators/speciesprofile.o source/chimera/pintail.o source/chimera/myPerseus.o source/chimera/bellerophon.o source/chimera/maligner.o source/chimera/chimeraslayer.o source/chimera/chimera.o source/chimera/slayer.o source/chimera/ccode.o source/chimera/chimerarealigner.o source/chimera/chimeracheckrdp.o source/chimera/decalc.o source/classifier/classify.o source/classifier/phylosummary.o source/classifier/taxonomyequalizer.o source/classifier/kmernode.o source/classifier/phylotree.o source/classifier/aligntree.o source/classifier/kmertree.o source/classifier/knn.o source/classifier/alignnode.o source/classifier/bayesian.o source/classifier/taxonomynode.o source/clearcut/distclearcut.o source/clearcut/clearcut.o source/clearcut/fasta.o source/clearcut/dmat.o source/clearcut/getopt_long.o source/clearcut/cmdargs.o source/commands/distancecommand.o source/commands/getotuscommand.o source/commands/clearcutcommand.o source/commands/listseqscommand.o source/commands/clusterdoturcommand.o source/commands/setlogfilecommand.o source/commands/heatmapcommand.o source/commands/mergetaxsummarycommand.o source/commands/quitcommand.o source/commands/indicatorcommand.o source/commands/removegroupscommand.o source/commands/pipelinepdscommand.o source/commands/clusterfragmentscommand.o source/commands/getgroupscommand.o source/commands/kruskalwalliscommand.o source/commands/getotulabelscommand.o source/commands/removeseqscommand.o source/commands/mimarksattributescommand.o source/commands/renameseqscommand.o source/commands/makegroupcommand.o source/commands/deuniqueseqscommand.o source/commands/classifyseqscommand.o source/commands/makefilecommand.o source/commands/getdistscommand.o source/commands/sensspeccommand.o source/commands/summaryqualcommand.o source/commands/unifracweightedcommand.o source/commands/getcoremicrobiomecommand.o source/commands/createdatabasecommand.o source/commands/splitgroupscommand.o source/commands/sffmultiplecommand.o source/commands/removerarecommand.o source/commands/parselistscommand.o source/commands/normalizesharedcommand.o source/commands/heatmapsimcommand.o source/commands/clustercommand.o source/commands/mgclustercommand.o source/commands/summarytaxcommand.o source/commands/unifracunweightedcommand.o source/commands/systemcommand.o source/commands/seqerrorcommand.o source/commands/aligncommand.o source/commands/otuhierarchycommand.o source/commands/getrelabundcommand.o source/commands/removelineagecommand.o source/commands/chimeraccodecommand.o source/commands/chimerabellerophoncommand.o source/commands/getsharedotucommand.o source/commands/parsefastaqcommand.o source/commands/countgroupscommand.o source/commands/cooccurrencecommand.o source/commands/screenseqscommand.o source/commands/parsimonycommand.o source/commands/sracommand.o source/commands/trimseqscommand.o source/commands/amovacommand.o source/commands/splitabundcommand.o source/commands/primerdesigncommand.o source/commands/getrabundcommand.o source/commands/catchallcommand.o source/commands/treegroupscommand.o source/commands/deconvolutecommand.o source/commands/mantelcommand.o source/commands/matrixoutputcommand.o source/commands/makecontigscommand.o source/commands/makelookupcommand.o source/commands/rarefactcommand.o source/commands/summarysharedcommand.o source/commands/getlineagecommand.o source/commands/nmdscommand.o source/commands/getcommandinfocommand.o source/commands/listotulabelscommand.o source/commands/getsabundcommand.o source/commands/lefsecommand.o source/commands/removeotulabelscommand.o source/commands/removeotuscommand.o source/commands/hclustercommand.o source/commands/phylodiversitycommand.o source/commands/venncommand.o source/commands/filtersharedcommand.o source/commands/shhhercommand.o source/commands/mergesfffilecommand.o source/commands/secondarystructurecommand.o source/commands/pcacommand.o source/commands/metastatscommand.o source/commands/subsamplecommand.o source/commands/chimeraslayercommand.o source/commands/chopseqscommand.o source/commands/seqsummarycommand.o source/commands/makebiomcommand.o source/commands/getlistcountcommand.o source/commands/getlabelcommand.o source/commands/consensusseqscommand.o source/commands/sffinfocommand.o source/commands/corraxescommand.o source/commands/preclustercommand.o source/commands/setdircommand.o source/commands/classifytreecommand.o source/commands/getseqscommand.o source/commands/collectsharedcommand.o source/commands/getmimarkspackagecommand.o source/commands/setcurrentcommand.o source/commands/getmetacommunitycommand.o source/commands/setseedcommand.o source/commands/sharedcommand.o source/commands/mergefilecommand.o source/commands/pcoacommand.o source/commands/classifyrfsharedcommand.o source/commands/clearmemorycommand.o source/commands/getgroupcommand.o source/commands/makefastqcommand.o source/commands/helpcommand.o source/commands/pcrseqscommand.o source/commands/anosimcommand.o source/commands/chimeraperseuscommand.o source/commands/deuniquetreecommand.o source/commands/binsequencecommand.o source/commands/makelefsecommand.o source/commands/loadlogfilecommand.o source/commands/trimflowscommand.o source/commands/classifyotucommand.o source/commands/sortseqscommand.o source/commands/otuassociationcommand.o source/commands/removedistscommand.o source/commands/homovacommand.o source/commands/filterseqscommand.o source/commands/classifysvmsharedcommand.o source/commands/countseqscommand.o source/commands/chimerauchimecommand.o source/commands/libshuffcommand.o source/commands/chimerapintailcommand.o source/commands/chimeracheckcommand.o source/commands/clustersplitcommand.o source/commands/pairwiseseqscommand.o source/commands/mergegroupscommand.o source/commands/getoturepcommand.o source/commands/nocommands.o source/commands/sparcccommand.o source/commands/phylotypecommand.o source/commands/rarefactsharedcommand.o source/commands/newcommandtemplate.o source/commands/shhhseqscommand.o source/commands/summarycommand.o source/commands/reversecommand.o source/commands/degapseqscommand.o source/commands/getcurrentcommand.o source/commands/collectcommand.o source/communitytype/communitytype.o source/communitytype/pam.o source/communitytype/kmeans.o source/communitytype/qFinderDMM.o source/datastructures/kmer.o source/datastructures/sharedlistvector.o source/datastructures/fastamap.o source/datastructures/distancedb.o source/datastructures/alignment.o source/datastructures/sharedordervector.o source/datastructures/nameassignment.o source/datastructures/fastqread.o source/datastructures/suffixnodes.o source/datastructures/flowdata.o source/datastructures/sparsedistancematrix.o source/datastructures/kmeralign.o source/datastructures/sequenceparser.o source/datastructures/sparsematrix.o source/datastructures/alignmentdb.o source/datastructures/fullmatrix.o source/datastructures/blastalign.o source/datastructures/treenode.o source/datastructures/alignmentcell.o source/datastructures/suffixdb.o source/datastructures/sabundvector.o source/datastructures/rabundvector.o source/datastructures/suffixtree.o source/datastructures/qualityscores.o source/datastructures/groupmap.o source/datastructures/reportfile.o source/datastructures/sequencecountparser.o source/datastructures/oligos.o source/datastructures/counttable.o source/datastructures/treemap.o source/datastructures/kmerdb.o source/datastructures/blastdb.o source/datastructures/sharedrabundvector.o source/datastructures/referencedb.o source/datastructures/sharedrabundfloatvector.o source/datastructures/ordervector.o source/datastructures/sequence.o source/datastructures/sequencedb.o source/datastructures/database.o source/datastructures/designmap.o source/datastructures/sharedsabundvector.o source/datastructures/tree.o source/datastructures/listvector.o source/metastats/mothurfisher.o source/metastats/mothurmetastats.o source/randomforest/regularizeddecisiontree.o source/randomforest/rftreenode.o source/randomforest/randomforest.o source/randomforest/decisiontree.o source/randomforest/regularizedrandomforest.o source/randomforest/abstractdecisiontree.o source/randomforest/abstractrandomforest.o source/randomforest/forest.o source/read/formatcolumn.o source/read/splitmatrix.o source/read/readphylipvector.o source/read/readblast.o source/read/readcluster.o source/read/treereader.o source/read/readtree.o source/read/formatphylip.o source/read/readcolumn.o source/read/readphylip.o source/svm/svm.o -lreadline -lboost_iostreams
make[2]: Leaving directory '/«PKGBUILDDIR»'
mv mothur mothur-mpi
make clean
make[2]: Entering directory '/«PKGBUILDDIR»'
make[2]: Leaving directory '/«PKGBUILDDIR»'
dh_auto_build -- 64BIT_VERSION=no USEMPI=no
make -j4 64BIT_VERSION=no USEMPI=no
make[2]: Entering directory '/«PKGBUILDDIR»'
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/randomnumber.o source/randomnumber.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/myseqdist.o source/myseqdist.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/consensus.o source/consensus.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/mothurout.o source/mothurout.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/mothur.o source/mothur.cpp
source/mothurout.cpp: In member function 'bool MothurOut::mkDir(std::__cxx11::string&)':
source/mothurout.cpp:964:45: warning: ignoring return value of 'int system(const char*)', declared with attribute warn_unused_result [-Wunused-result]
system(makeDirectoryCommand.c_str());
^
source/mothurout.cpp: In member function 'int MothurOut::renameFile(std::__cxx11::string, std::__cxx11::string)':
source/mothurout.cpp:1541:27: warning: ignoring return value of 'int system(const char*)', declared with attribute warn_unused_result [-Wunused-result]
system(command.c_str());
^
source/mothurout.cpp:1545:26: warning: ignoring return value of 'int system(const char*)', declared with attribute warn_unused_result [-Wunused-result]
system(command.c_str());
^
source/mothurout.cpp: In member function 'std::__cxx11::string MothurOut::sortFile(std::__cxx11::string, std::__cxx11::string)':
source/mothurout.cpp:1792:27: warning: ignoring return value of 'int system(const char*)', declared with attribute warn_unused_result [-Wunused-result]
system(command.c_str());
^
source/mothur.cpp: In function 'int main(int, char**)':
source/mothur.cpp:52:19: warning: ignoring return value of 'int system(const char*)', declared with attribute warn_unused_result [-Wunused-result]
system("clear");
^
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/subsample.o source/subsample.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/engine.o source/engine.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/linearalgebra.o source/linearalgebra.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/inputdata.o source/inputdata.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calcsparcc.o source/calcsparcc.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/clusterclassic.o source/clusterclassic.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/gotohoverlap.o source/gotohoverlap.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/weightedlinkage.o source/weightedlinkage.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/sharedutilities.o source/sharedutilities.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/singlelinkage.o source/singlelinkage.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/seqnoise.o source/seqnoise.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/hcluster.o source/hcluster.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/raredisplay.o source/raredisplay.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/heatmapsim.o source/heatmapsim.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/refchimeratest.o source/refchimeratest.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/progress.o source/progress.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/heatmap.o source/heatmap.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/validparameter.o source/validparameter.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/trialSwap2.o source/trialSwap2.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/averagelinkage.o source/averagelinkage.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commandfactory.o source/commandfactory.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/validcalculator.o source/validcalculator.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commandoptionparser.o source/commandoptionparser.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/fileoutput.o source/fileoutput.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/rarecalc.o source/rarecalc.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/dlibshuff.o source/dlibshuff.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/completelinkage.o source/completelinkage.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/overlap.o source/overlap.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/cluster.o source/cluster.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/libshuff.o source/libshuff.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/optionparser.o source/optionparser.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/nastreport.o source/nastreport.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/rarefact.o source/rarefact.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/wilcox.o source/wilcox.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/noalign.o source/noalign.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/slibshuff.o source/slibshuff.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/nast.o source/nast.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/venn.o source/venn.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/collect.o source/collect.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/needlemanoverlap.o source/needlemanoverlap.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/trimoligos.o source/trimoligos.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/calculator.o source/calculators/calculator.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/prng.o source/calculators/prng.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/sharedthetayc.o source/calculators/sharedthetayc.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/coverage.o source/calculators/coverage.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/structchi2.o source/calculators/structchi2.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/sharedmorisitahorn.o source/calculators/sharedmorisitahorn.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/sharedace.o source/calculators/sharedace.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/qstat.o source/calculators/qstat.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/bergerparker.o source/calculators/bergerparker.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/sharedsobs.o source/calculators/sharedsobs.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/goodscoverage.o source/calculators/goodscoverage.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/canberra.o source/calculators/canberra.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/parsimony.o source/calculators/parsimony.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/sharedrjsd.o source/calculators/sharedrjsd.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/smithwilson.o source/calculators/smithwilson.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/sharedbraycurtis.o source/calculators/sharedbraycurtis.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/simpson.o source/calculators/simpson.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/mempearson.o source/calculators/mempearson.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/spearman.o source/calculators/spearman.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/logsd.o source/calculators/logsd.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/shen.o source/calculators/shen.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/memchord.o source/calculators/memchord.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/manhattan.o source/calculators/manhattan.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/geom.o source/calculators/geom.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/jackknife.o source/calculators/jackknife.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/whittaker.o source/calculators/whittaker.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/efron.o source/calculators/efron.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/bootstrap.o source/calculators/bootstrap.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/hamming.o source/calculators/hamming.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/invsimpson.o source/calculators/invsimpson.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/sharedthetan.o source/calculators/sharedthetan.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/sharedsorclass.o source/calculators/sharedsorclass.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/shannon.o source/calculators/shannon.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/weighted.o source/calculators/weighted.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/sharedjackknife.o source/calculators/sharedjackknife.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/npshannon.o source/calculators/npshannon.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/structeuclidean.o source/calculators/structeuclidean.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/sharedchao1.o source/calculators/sharedchao1.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/chao1.o source/calculators/chao1.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/simpsoneven.o source/calculators/simpsoneven.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/sharedjclass.o source/calculators/sharedjclass.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/shannonrange.o source/calculators/shannonrange.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/structkulczynski.o source/calculators/structkulczynski.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/gower.o source/calculators/gower.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/structchord.o source/calculators/structchord.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/shannoneven.o source/calculators/shannoneven.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/bstick.o source/calculators/bstick.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/sharedjsd.o source/calculators/sharedjsd.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/sharedjest.o source/calculators/sharedjest.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/uvest.o source/calculators/uvest.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/sharedsobscollectsummary.o source/calculators/sharedsobscollectsummary.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/sharedanderbergs.o source/calculators/sharedanderbergs.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/odum.o source/calculators/odum.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/structpearson.o source/calculators/structpearson.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/ace.o source/calculators/ace.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/sharedlennon.o source/calculators/sharedlennon.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/memeuclidean.o source/calculators/memeuclidean.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/memchi2.o source/calculators/memchi2.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/sharedjabund.o source/calculators/sharedjabund.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/unweighted.o source/calculators/unweighted.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/boneh.o source/calculators/boneh.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/sharedsorest.o source/calculators/sharedsorest.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/soergel.o source/calculators/soergel.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/heip.o source/calculators/heip.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/sharedkulczynskicody.o source/calculators/sharedkulczynskicody.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/sharedmarczewski.o source/calculators/sharedmarczewski.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/sharedsorabund.o source/calculators/sharedsorabund.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/solow.o source/calculators/solow.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/sharedkstest.o source/calculators/sharedkstest.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/hellinger.o source/calculators/hellinger.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/sharedochiai.o source/calculators/sharedochiai.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/sharedkulczynski.o source/calculators/sharedkulczynski.cpp
source/venn.cpp: In member function 'std::vector<std::__cxx11::basic_string<char> > Venn::getPic(std::vector<SharedRAbundVector*>, std::vector<Calculator*>)':
source/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 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/calculators/speciesprofile.o source/calculators/speciesprofile.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/chimera/pintail.o source/chimera/pintail.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/chimera/myPerseus.o source/chimera/myPerseus.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/chimera/bellerophon.o source/chimera/bellerophon.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/chimera/maligner.o source/chimera/maligner.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/chimera/chimeraslayer.o source/chimera/chimeraslayer.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/chimera/chimera.o source/chimera/chimera.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/chimera/slayer.o source/chimera/slayer.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/chimera/ccode.o source/chimera/ccode.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/chimera/chimerarealigner.o source/chimera/chimerarealigner.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/chimera/chimeracheckrdp.o source/chimera/chimeracheckrdp.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/chimera/decalc.o source/chimera/decalc.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/classifier/classify.o source/classifier/classify.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/classifier/phylosummary.o source/classifier/phylosummary.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/classifier/taxonomyequalizer.o source/classifier/taxonomyequalizer.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/classifier/kmernode.o source/classifier/kmernode.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/classifier/phylotree.o source/classifier/phylotree.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/classifier/aligntree.o source/classifier/aligntree.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/classifier/kmertree.o source/classifier/kmertree.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/classifier/knn.o source/classifier/knn.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/classifier/alignnode.o source/classifier/alignnode.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/classifier/bayesian.o source/classifier/bayesian.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/classifier/taxonomynode.o source/classifier/taxonomynode.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/clearcut/distclearcut.o source/clearcut/distclearcut.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/clearcut/clearcut.o source/clearcut/clearcut.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/clearcut/fasta.o source/clearcut/fasta.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/clearcut/dmat.o source/clearcut/dmat.cpp
source/clearcut/dmat.cpp: In function 'DMAT* NJ_parse_distance_matrix(NJ_ARGS*)':
source/clearcut/dmat.cpp:476:36: warning: ignoring return value of 'int fscanf(FILE*, const char*, ...)', declared with attribute warn_unused_result [-Wunused-result]
fscanf(fp, "%ld\n", &dmat->ntaxa);
^
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/clearcut/getopt_long.o source/clearcut/getopt_long.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/clearcut/cmdargs.o source/clearcut/cmdargs.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/distancecommand.o source/commands/distancecommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/getotuscommand.o source/commands/getotuscommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/clearcutcommand.o source/commands/clearcutcommand.cpp
source/commands/distancecommand.cpp: In member function 'virtual int DistanceCommand::execute()':
source/commands/distancecommand.cpp:490:45: warning: ignoring return value of 'int system(const char*)', declared with attribute warn_unused_result [-Wunused-result]
system(("gzip -v " + outputFile).c_str());
^
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/listseqscommand.o source/commands/listseqscommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/clusterdoturcommand.o source/commands/clusterdoturcommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/setlogfilecommand.o source/commands/setlogfilecommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/heatmapcommand.o source/commands/heatmapcommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/mergetaxsummarycommand.o source/commands/mergetaxsummarycommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/quitcommand.o source/commands/quitcommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/indicatorcommand.o source/commands/indicatorcommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/removegroupscommand.o source/commands/removegroupscommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/pipelinepdscommand.o source/commands/pipelinepdscommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/clusterfragmentscommand.o source/commands/clusterfragmentscommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/getgroupscommand.o source/commands/getgroupscommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/kruskalwalliscommand.o source/commands/kruskalwalliscommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/getotulabelscommand.o source/commands/getotulabelscommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/removeseqscommand.o source/commands/removeseqscommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/mimarksattributescommand.o source/commands/mimarksattributescommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/renameseqscommand.o source/commands/renameseqscommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/makegroupcommand.o source/commands/makegroupcommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/deuniqueseqscommand.o source/commands/deuniqueseqscommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/classifyseqscommand.o source/commands/classifyseqscommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/makefilecommand.o source/commands/makefilecommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/getdistscommand.o source/commands/getdistscommand.cpp
source/commands/makefilecommand.cpp: In member function 'virtual int MakeFileCommand::execute()':
source/commands/makefilecommand.cpp:137:36: warning: ignoring return value of 'int system(const char*)', declared with attribute warn_unused_result [-Wunused-result]
system(findCommand.c_str());
^
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/sensspeccommand.o source/commands/sensspeccommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/summaryqualcommand.o source/commands/summaryqualcommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/unifracweightedcommand.o source/commands/unifracweightedcommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/getcoremicrobiomecommand.o source/commands/getcoremicrobiomecommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/createdatabasecommand.o source/commands/createdatabasecommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/splitgroupscommand.o source/commands/splitgroupscommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/sffmultiplecommand.o source/commands/sffmultiplecommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/removerarecommand.o source/commands/removerarecommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/parselistscommand.o source/commands/parselistscommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/normalizesharedcommand.o source/commands/normalizesharedcommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/heatmapsimcommand.o source/commands/heatmapsimcommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/clustercommand.o source/commands/clustercommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/mgclustercommand.o source/commands/mgclustercommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/summarytaxcommand.o source/commands/summarytaxcommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/unifracunweightedcommand.o source/commands/unifracunweightedcommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/systemcommand.o source/commands/systemcommand.cpp
source/commands/systemcommand.cpp: In member function 'virtual int SystemCommand::execute()':
source/commands/systemcommand.cpp:101:26: warning: ignoring return value of 'int system(const char*)', declared with attribute warn_unused_result [-Wunused-result]
system(command.c_str());
^
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/seqerrorcommand.o source/commands/seqerrorcommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/aligncommand.o source/commands/aligncommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/otuhierarchycommand.o source/commands/otuhierarchycommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/getrelabundcommand.o source/commands/getrelabundcommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/removelineagecommand.o source/commands/removelineagecommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/chimeraccodecommand.o source/commands/chimeraccodecommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/chimerabellerophoncommand.o source/commands/chimerabellerophoncommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/getsharedotucommand.o source/commands/getsharedotucommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/parsefastaqcommand.o source/commands/parsefastaqcommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/countgroupscommand.o source/commands/countgroupscommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/cooccurrencecommand.o source/commands/cooccurrencecommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/screenseqscommand.o source/commands/screenseqscommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/parsimonycommand.o source/commands/parsimonycommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/sracommand.o source/commands/sracommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/trimseqscommand.o source/commands/trimseqscommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/amovacommand.o source/commands/amovacommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/splitabundcommand.o source/commands/splitabundcommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/primerdesigncommand.o source/commands/primerdesigncommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/getrabundcommand.o source/commands/getrabundcommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/catchallcommand.o source/commands/catchallcommand.cpp
source/commands/catchallcommand.cpp: In member function 'virtual int CatchAllCommand::execute()':
source/commands/catchallcommand.cpp:322:38: warning: ignoring return value of 'int system(const char*)', declared with attribute warn_unused_result [-Wunused-result]
system(catchAllCommand.c_str());
^
source/commands/catchallcommand.cpp:385:38: warning: ignoring return value of 'int system(const char*)', declared with attribute warn_unused_result [-Wunused-result]
system(catchAllCommand.c_str());
^
source/commands/catchallcommand.cpp:470:36: warning: ignoring return value of 'int system(const char*)', declared with attribute warn_unused_result [-Wunused-result]
system(catchAllCommand.c_str());
^
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/treegroupscommand.o source/commands/treegroupscommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/deconvolutecommand.o source/commands/deconvolutecommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/mantelcommand.o source/commands/mantelcommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/matrixoutputcommand.o source/commands/matrixoutputcommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/makecontigscommand.o source/commands/makecontigscommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/makelookupcommand.o source/commands/makelookupcommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/rarefactcommand.o source/commands/rarefactcommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/summarysharedcommand.o source/commands/summarysharedcommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/getlineagecommand.o source/commands/getlineagecommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/nmdscommand.o source/commands/nmdscommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/getcommandinfocommand.o source/commands/getcommandinfocommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/listotulabelscommand.o source/commands/listotulabelscommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/getsabundcommand.o source/commands/getsabundcommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/lefsecommand.o source/commands/lefsecommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/removeotulabelscommand.o source/commands/removeotulabelscommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/removeotuscommand.o source/commands/removeotuscommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/hclustercommand.o source/commands/hclustercommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/phylodiversitycommand.o source/commands/phylodiversitycommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/venncommand.o source/commands/venncommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/filtersharedcommand.o source/commands/filtersharedcommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/shhhercommand.o source/commands/shhhercommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/mergesfffilecommand.o source/commands/mergesfffilecommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/secondarystructurecommand.o source/commands/secondarystructurecommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/pcacommand.o source/commands/pcacommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/metastatscommand.o source/commands/metastatscommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/subsamplecommand.o source/commands/subsamplecommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/chimeraslayercommand.o source/commands/chimeraslayercommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/chopseqscommand.o source/commands/chopseqscommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/seqsummarycommand.o source/commands/seqsummarycommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/makebiomcommand.o source/commands/makebiomcommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/getlistcountcommand.o source/commands/getlistcountcommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/getlabelcommand.o source/commands/getlabelcommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/consensusseqscommand.o source/commands/consensusseqscommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/sffinfocommand.o source/commands/sffinfocommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/corraxescommand.o source/commands/corraxescommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/preclustercommand.o source/commands/preclustercommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/setdircommand.o source/commands/setdircommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/classifytreecommand.o source/commands/classifytreecommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/getseqscommand.o source/commands/getseqscommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/collectsharedcommand.o source/commands/collectsharedcommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/getmimarkspackagecommand.o source/commands/getmimarkspackagecommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/setcurrentcommand.o source/commands/setcurrentcommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/getmetacommunitycommand.o source/commands/getmetacommunitycommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/setseedcommand.o source/commands/setseedcommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/sharedcommand.o source/commands/sharedcommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/mergefilecommand.o source/commands/mergefilecommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/pcoacommand.o source/commands/pcoacommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/classifyrfsharedcommand.o source/commands/classifyrfsharedcommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/clearmemorycommand.o source/commands/clearmemorycommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/getgroupcommand.o source/commands/getgroupcommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/makefastqcommand.o source/commands/makefastqcommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/helpcommand.o source/commands/helpcommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/pcrseqscommand.o source/commands/pcrseqscommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/anosimcommand.o source/commands/anosimcommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/chimeraperseuscommand.o source/commands/chimeraperseuscommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/deuniquetreecommand.o source/commands/deuniquetreecommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/binsequencecommand.o source/commands/binsequencecommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/makelefsecommand.o source/commands/makelefsecommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/loadlogfilecommand.o source/commands/loadlogfilecommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/trimflowscommand.o source/commands/trimflowscommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/classifyotucommand.o source/commands/classifyotucommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/sortseqscommand.o source/commands/sortseqscommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/otuassociationcommand.o source/commands/otuassociationcommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/removedistscommand.o source/commands/removedistscommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/homovacommand.o source/commands/homovacommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/filterseqscommand.o source/commands/filterseqscommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/classifysvmsharedcommand.o source/commands/classifysvmsharedcommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/countseqscommand.o source/commands/countseqscommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/chimerauchimecommand.o source/commands/chimerauchimecommand.cpp
source/commands/countseqscommand.cpp: In member function 'long long unsigned int CountSeqsCommand::processLarge(std::__cxx11::string)':
source/commands/countseqscommand.cpp:707:40: warning: ignoring return value of 'int system(const char*)', declared with attribute warn_unused_result [-Wunused-result]
system(command.c_str());
^
source/commands/countseqscommand.cpp:709:40: warning: ignoring return value of 'int system(const char*)', declared with attribute warn_unused_result [-Wunused-result]
system(command.c_str());
^
source/commands/chimerauchimecommand.cpp: In member function 'int ChimeraUchimeCommand::driver(std::__cxx11::string, std::__cxx11::string, std::__cxx11::string, std::__cxx11::string, int&)':
source/commands/chimerauchimecommand.cpp:1533:32: warning: ignoring return value of 'int system(const char*)', declared with attribute warn_unused_result [-Wunused-result]
system(commandString.c_str());
^
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/libshuffcommand.o source/commands/libshuffcommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/chimerapintailcommand.o source/commands/chimerapintailcommand.cpp
In file included from /usr/include/string.h:640:0,
from /usr/include/boost/range/detail/implementation_help.hpp:18,
from /usr/include/boost/range/end.hpp:24,
from /usr/include/boost/range/functions.hpp:19,
from /usr/include/boost/range/iterator_range_core.hpp:38,
from /usr/include/boost/range/iterator_range.hpp:13,
from /usr/include/boost/iostreams/traits.hpp:39,
from /usr/include/boost/iostreams/pipeline.hpp:18,
from /usr/include/boost/iostreams/detail/push.hpp:22,
from /usr/include/boost/iostreams/filtering_stream.hpp:19,
from source/mothur.h:21,
from source/commands/chimerauchimecommand.h:14,
from source/commands/chimerauchimecommand.cpp:10:
In function 'char* strcpy(char*, const char*)',
inlined from 'int ChimeraUchimeCommand::driver(std::__cxx11::string, std::__cxx11::string, std::__cxx11::string, std::__cxx11::string, int&)' at source/commands/chimerauchimecommand.cpp:1504:28:
/usr/include/arm-linux-gnueabihf/bits/string3.h:104:63: warning: call to void* __builtin___memcpy_chk(void*, const void*, unsigned int, unsigned int) will always overflow destination buffer
return __builtin___strcpy_chk (__dest, __src, __bos (__dest));
^
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/chimeracheckcommand.o source/commands/chimeracheckcommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/clustersplitcommand.o source/commands/clustersplitcommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/pairwiseseqscommand.o source/commands/pairwiseseqscommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/mergegroupscommand.o source/commands/mergegroupscommand.cpp
source/commands/pairwiseseqscommand.cpp: In member function 'virtual int PairwiseSeqsCommand::execute()':
source/commands/pairwiseseqscommand.cpp:475:46: warning: ignoring return value of 'int system(const char*)', declared with attribute warn_unused_result [-Wunused-result]
system(("gzip -v " + outputFile).c_str());
^
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/getoturepcommand.o source/commands/getoturepcommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/nocommands.o source/commands/nocommands.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/sparcccommand.o source/commands/sparcccommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/phylotypecommand.o source/commands/phylotypecommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/rarefactsharedcommand.o source/commands/rarefactsharedcommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/newcommandtemplate.o source/commands/newcommandtemplate.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/shhhseqscommand.o source/commands/shhhseqscommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/summarycommand.o source/commands/summarycommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/reversecommand.o source/commands/reversecommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/degapseqscommand.o source/commands/degapseqscommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/getcurrentcommand.o source/commands/getcurrentcommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/commands/collectcommand.o source/commands/collectcommand.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/communitytype/communitytype.o source/communitytype/communitytype.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/communitytype/pam.o source/communitytype/pam.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/communitytype/kmeans.o source/communitytype/kmeans.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/communitytype/qFinderDMM.o source/communitytype/qFinderDMM.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/datastructures/listvector.o source/datastructures/listvector.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/datastructures/fastqread.o source/datastructures/fastqread.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/datastructures/sharedrabundfloatvector.o source/datastructures/sharedrabundfloatvector.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/datastructures/suffixtree.o source/datastructures/suffixtree.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/datastructures/qualityscores.o source/datastructures/qualityscores.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/datastructures/kmeralign.o source/datastructures/kmeralign.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/datastructures/ordervector.o source/datastructures/ordervector.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/datastructures/sequence.o source/datastructures/sequence.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/datastructures/suffixnodes.o source/datastructures/suffixnodes.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/datastructures/kmer.o source/datastructures/kmer.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/datastructures/referencedb.o source/datastructures/referencedb.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/datastructures/flowdata.o source/datastructures/flowdata.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/datastructures/oligos.o source/datastructures/oligos.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/datastructures/sharedordervector.o source/datastructures/sharedordervector.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/datastructures/fastamap.o source/datastructures/fastamap.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/datastructures/treemap.o source/datastructures/treemap.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/datastructures/sparsematrix.o source/datastructures/sparsematrix.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/datastructures/sharedlistvector.o source/datastructures/sharedlistvector.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/datastructures/sequencedb.o source/datastructures/sequencedb.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/datastructures/treenode.o source/datastructures/treenode.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/datastructures/distancedb.o source/datastructures/distancedb.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/datastructures/groupmap.o source/datastructures/groupmap.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/datastructures/sequenceparser.o source/datastructures/sequenceparser.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/datastructures/reportfile.o source/datastructures/reportfile.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/datastructures/alignment.o source/datastructures/alignment.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/datastructures/sequencecountparser.o source/datastructures/sequencecountparser.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/datastructures/fullmatrix.o source/datastructures/fullmatrix.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/datastructures/blastalign.o source/datastructures/blastalign.cpp
source/datastructures/blastalign.cpp: In member function 'virtual void BlastAlignment::align(std::__cxx11::string, std::__cxx11::string)':
source/datastructures/blastalign.cpp:63:30: warning: ignoring return value of 'int system(const char*)', declared with attribute warn_unused_result [-Wunused-result]
system(blastCommand.c_str()); // Here we assume that "bl2seq" is in the users path or in the same folder as
^
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/datastructures/tree.o source/datastructures/tree.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/datastructures/database.o source/datastructures/database.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/datastructures/counttable.o source/datastructures/counttable.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/datastructures/alignmentcell.o source/datastructures/alignmentcell.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/datastructures/rabundvector.o source/datastructures/rabundvector.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/datastructures/nameassignment.o source/datastructures/nameassignment.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/datastructures/kmerdb.o source/datastructures/kmerdb.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/datastructures/designmap.o source/datastructures/designmap.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/datastructures/sharedsabundvector.o source/datastructures/sharedsabundvector.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/datastructures/blastdb.o source/datastructures/blastdb.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/datastructures/suffixdb.o source/datastructures/suffixdb.cpp
source/datastructures/blastdb.cpp: In member function 'virtual std::vector<int> BlastDB::findClosestSequences(Sequence*, int)':
source/datastructures/blastdb.cpp:230:31: warning: ignoring return value of 'int system(const char*)', declared with attribute warn_unused_result [-Wunused-result]
system(blastCommand.c_str());
^
source/datastructures/blastdb.cpp: In member function 'virtual std::vector<int> BlastDB::findClosestMegaBlast(Sequence*, int, int)':
source/datastructures/blastdb.cpp:295:31: warning: ignoring return value of 'int system(const char*)', declared with attribute warn_unused_result [-Wunused-result]
system(blastCommand.c_str());
^
source/datastructures/blastdb.cpp: In member function 'virtual void BlastDB::generateDB()':
source/datastructures/blastdb.cpp:366:34: warning: ignoring return value of 'int system(const char*)', declared with attribute warn_unused_result [-Wunused-result]
system(formatdbCommand.c_str()); // to get the right sequence names, i think. -p F
^
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/datastructures/sabundvector.o source/datastructures/sabundvector.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/datastructures/sharedrabundvector.o source/datastructures/sharedrabundvector.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/datastructures/alignmentdb.o source/datastructures/alignmentdb.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/datastructures/sparsedistancematrix.o source/datastructures/sparsedistancematrix.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/metastats/mothurfisher.o source/metastats/mothurfisher.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/metastats/mothurmetastats.o source/metastats/mothurmetastats.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/randomforest/regularizeddecisiontree.o source/randomforest/regularizeddecisiontree.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/randomforest/rftreenode.o source/randomforest/rftreenode.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/randomforest/randomforest.o source/randomforest/randomforest.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/randomforest/decisiontree.o source/randomforest/decisiontree.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/randomforest/regularizedrandomforest.o source/randomforest/regularizedrandomforest.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/randomforest/abstractdecisiontree.o source/randomforest/abstractdecisiontree.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/randomforest/abstractrandomforest.o source/randomforest/abstractrandomforest.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/randomforest/forest.o source/randomforest/forest.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/read/formatcolumn.o source/read/formatcolumn.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/read/splitmatrix.o source/read/splitmatrix.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/read/readphylipvector.o source/read/readphylipvector.cpp
source/read/formatcolumn.cpp: In member function 'virtual int FormatColumnMatrix::read(NameAssignment*)':
source/read/formatcolumn.cpp:87:27: warning: ignoring return value of 'int system(const char*)', declared with attribute warn_unused_result [-Wunused-result]
system(command.c_str());
^
source/read/formatcolumn.cpp: In member function 'virtual int FormatColumnMatrix::read(CountTable*)':
source/read/formatcolumn.cpp:250:32: warning: ignoring return value of 'int system(const char*)', declared with attribute warn_unused_result [-Wunused-result]
system(command.c_str());
^
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/read/readblast.o source/read/readblast.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/read/readcluster.o source/read/readcluster.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/read/treereader.o source/read/treereader.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/read/readtree.o source/read/readtree.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/read/formatphylip.o source/read/formatphylip.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/read/readcolumn.o source/read/readcolumn.cpp
source/read/formatphylip.cpp: In member function 'virtual int FormatPhylipMatrix::read(NameAssignment*)':
source/read/formatphylip.cpp:108:29: warning: ignoring return value of 'int system(const char*)', declared with attribute warn_unused_result [-Wunused-result]
system(command.c_str());
^
source/read/formatphylip.cpp: In member function 'virtual int FormatPhylipMatrix::read(CountTable*)':
source/read/formatphylip.cpp:338:36: warning: ignoring return value of 'int system(const char*)', declared with attribute warn_unused_result [-Wunused-result]
system(command.c_str());
^
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/read/readphylip.o source/read/readphylip.cpp
g++ -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -D_FORTIFY_SOURCE=2 -c -o source/svm/svm.o source/svm/svm.cpp
echo ENV_CXX="g++"
ENV_CXX=g++
echo ENV_GCC_OPTS="-D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/"
ENV_GCC_OPTS=-D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="7/27/2015" -DVERSION="1.36.1" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/
echo ENV_LINK_OPTS="-Wl,-z,relro -Lsource/ -Lsource/calculators/ -Lsource/chimera/ -Lsource/classifier/ -Lsource/clearcut/ -Lsource/commands/ -Lsource/communitytype/ -Lsource/datastructures/ -Lsource/metastats/ -Lsource/randomforest/ -Lsource/read/ -Lsource/svm/"
ENV_LINK_OPTS=-Wl,-z,relro -Lsource/ -Lsource/calculators/ -Lsource/chimera/ -Lsource/classifier/ -Lsource/clearcut/ -Lsource/commands/ -Lsource/communitytype/ -Lsource/datastructures/ -Lsource/metastats/ -Lsource/randomforest/ -Lsource/read/ -Lsource/svm/
cd source/uchime_src && ENV_CXX="g++" ENV_GCC_OPTS="-D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -DRELEASE_DATE="\"7/27/2015\"" -DVERSION="\"1.36.1\"" -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/" ENV_LINK_OPTS="-Wl,-z,relro -Lsource/ -Lsource/calculators/ -Lsource/chimera/ -Lsource/classifier/ -Lsource/clearcut/ -Lsource/commands/ -Lsource/communitytype/ -Lsource/datastructures/ -Lsource/metastats/ -Lsource/randomforest/ -Lsource/read/ -Lsource/svm/" ./mk && mv uchime ../../ && cd ..
addtargets2
+ g++ -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security '-DRELEASE_DATE="7/27/2015"' '-DVERSION="1.36.1"' -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -c -D_FILE_OFFSET_BITS=64 -DNDEBUG=1 -DUCHIMES=1 addtargets2.cpp -o addtargets2.o
+ set +x
alignchime
+ g++ -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security '-DRELEASE_DATE="7/27/2015"' '-DVERSION="1.36.1"' -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -c -D_FILE_OFFSET_BITS=64 -DNDEBUG=1 -DUCHIMES=1 alignchime.cpp -o alignchime.o
+ set +x
alignchimel
+ g++ -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security '-DRELEASE_DATE="7/27/2015"' '-DVERSION="1.36.1"' -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -c -D_FILE_OFFSET_BITS=64 -DNDEBUG=1 -DUCHIMES=1 alignchimel.cpp -o alignchimel.o
+ set +x
alnparams
+ g++ -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security '-DRELEASE_DATE="7/27/2015"' '-DVERSION="1.36.1"' -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -c -D_FILE_OFFSET_BITS=64 -DNDEBUG=1 -DUCHIMES=1 alnparams.cpp -o alnparams.o
+ set +x
alpha
+ g++ -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security '-DRELEASE_DATE="7/27/2015"' '-DVERSION="1.36.1"' -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -c -D_FILE_OFFSET_BITS=64 -DNDEBUG=1 -DUCHIMES=1 alpha.cpp -o alpha.o
+ set +x
alpha2
+ g++ -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security '-DRELEASE_DATE="7/27/2015"' '-DVERSION="1.36.1"' -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -c -D_FILE_OFFSET_BITS=64 -DNDEBUG=1 -DUCHIMES=1 alpha2.cpp -o alpha2.o
+ set +x
fractid
+ g++ -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security '-DRELEASE_DATE="7/27/2015"' '-DVERSION="1.36.1"' -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -c -D_FILE_OFFSET_BITS=64 -DNDEBUG=1 -DUCHIMES=1 fractid.cpp -o fractid.o
+ set +x
getparents
+ g++ -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security '-DRELEASE_DATE="7/27/2015"' '-DVERSION="1.36.1"' -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -c -D_FILE_OFFSET_BITS=64 -DNDEBUG=1 -DUCHIMES=1 getparents.cpp -o getparents.o
+ set +x
globalalign2
+ g++ -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security '-DRELEASE_DATE="7/27/2015"' '-DVERSION="1.36.1"' -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -c -D_FILE_OFFSET_BITS=64 -DNDEBUG=1 -DUCHIMES=1 globalalign2.cpp -o globalalign2.o
+ set +x
make3way
+ g++ -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security '-DRELEASE_DATE="7/27/2015"' '-DVERSION="1.36.1"' -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -c -D_FILE_OFFSET_BITS=64 -DNDEBUG=1 -DUCHIMES=1 make3way.cpp -o make3way.o
+ set +x
mx
+ g++ -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security '-DRELEASE_DATE="7/27/2015"' '-DVERSION="1.36.1"' -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -c -D_FILE_OFFSET_BITS=64 -DNDEBUG=1 -DUCHIMES=1 mx.cpp -o mx.o
+ set +x
myutils
+ g++ -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security '-DRELEASE_DATE="7/27/2015"' '-DVERSION="1.36.1"' -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -c -D_FILE_OFFSET_BITS=64 -DNDEBUG=1 -DUCHIMES=1 myutils.cpp -o myutils.o
+ set +x
path
+ g++ -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security '-DRELEASE_DATE="7/27/2015"' '-DVERSION="1.36.1"' -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -c -D_FILE_OFFSET_BITS=64 -DNDEBUG=1 -DUCHIMES=1 path.cpp -o path.o
+ set +x
searchchime
+ g++ -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security '-DRELEASE_DATE="7/27/2015"' '-DVERSION="1.36.1"' -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -c -D_FILE_OFFSET_BITS=64 -DNDEBUG=1 -DUCHIMES=1 searchchime.cpp -o searchchime.o
+ set +x
seqdb
+ g++ -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security '-DRELEASE_DATE="7/27/2015"' '-DVERSION="1.36.1"' -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -c -D_FILE_OFFSET_BITS=64 -DNDEBUG=1 -DUCHIMES=1 seqdb.cpp -o seqdb.o
+ set +x
setnucmx
+ g++ -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security '-DRELEASE_DATE="7/27/2015"' '-DVERSION="1.36.1"' -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -c -D_FILE_OFFSET_BITS=64 -DNDEBUG=1 -DUCHIMES=1 setnucmx.cpp -o setnucmx.o
+ set +x
sfasta
+ g++ -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security '-DRELEASE_DATE="7/27/2015"' '-DVERSION="1.36.1"' -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -c -D_FILE_OFFSET_BITS=64 -DNDEBUG=1 -DUCHIMES=1 sfasta.cpp -o sfasta.o
+ set +x
tracebackbit
+ g++ -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security '-DRELEASE_DATE="7/27/2015"' '-DVERSION="1.36.1"' -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -c -D_FILE_OFFSET_BITS=64 -DNDEBUG=1 -DUCHIMES=1 tracebackbit.cpp -o tracebackbit.o
+ set +x
uchime_main
+ g++ -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security '-DRELEASE_DATE="7/27/2015"' '-DVERSION="1.36.1"' -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -c -D_FILE_OFFSET_BITS=64 -DNDEBUG=1 -DUCHIMES=1 uchime_main.cpp -o uchime_main.o
+ set +x
usort
+ g++ -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security '-DRELEASE_DATE="7/27/2015"' '-DVERSION="1.36.1"' -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -c -D_FILE_OFFSET_BITS=64 -DNDEBUG=1 -DUCHIMES=1 usort.cpp -o usort.o
+ set +x
viterbifast
+ g++ -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security '-DRELEASE_DATE="7/27/2015"' '-DVERSION="1.36.1"' -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -c -D_FILE_OFFSET_BITS=64 -DNDEBUG=1 -DUCHIMES=1 viterbifast.cpp -o viterbifast.o
+ set +x
writechhit
+ g++ -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security '-DRELEASE_DATE="7/27/2015"' '-DVERSION="1.36.1"' -DUSE_READLINE -DUSE_BOOST -I. -I source/ -I source/calculators/ -I source/chimera/ -I source/classifier/ -I source/clearcut/ -I source/commands/ -I source/communitytype/ -I source/datastructures/ -I source/metastats/ -I source/randomforest/ -I source/read/ -I source/svm/ -c -D_FILE_OFFSET_BITS=64 -DNDEBUG=1 -DUCHIMES=1 writechhit.cpp -o writechhit.o
+ set +x
-rwxrwxr-x 1 buildd buildd 5.7M Sep 16 18:57 uchime
45731 5816
g++ -Wl,-z,relro -Lsource/ -Lsource/calculators/ -Lsource/chimera/ -Lsource/classifier/ -Lsource/clearcut/ -Lsource/commands/ -Lsource/communitytype/ -Lsource/datastructures/ -Lsource/metastats/ -Lsource/randomforest/ -Lsource/read/ -Lsource/svm/ -o mothur source/randomnumber.o source/consensus.o source/calcsparcc.o source/gotohoverlap.o source/validparameter.o source/heatmap.o source/nast.o source/mothurout.o source/completelinkage.o source/averagelinkage.o source/collect.o source/seqnoise.o source/venn.o source/inputdata.o source/clusterclassic.o source/refchimeratest.o source/slibshuff.o source/trialSwap2.o source/sharedutilities.o source/fileoutput.o source/cluster.o source/nastreport.o source/needlemanoverlap.o source/myseqdist.o source/subsample.o source/commandfactory.o source/rarecalc.o source/rarefact.o source/weightedlinkage.o source/wilcox.o source/progress.o source/linearalgebra.o source/singlelinkage.o source/trimoligos.o source/validcalculator.o source/optionparser.o source/mothur.o source/engine.o source/hcluster.o source/dlibshuff.o source/heatmapsim.o source/raredisplay.o source/commandoptionparser.o source/libshuff.o source/noalign.o source/overlap.o source/calculators/calculator.o source/calculators/prng.o source/calculators/sharedthetayc.o source/calculators/coverage.o source/calculators/structchi2.o source/calculators/sharedmorisitahorn.o source/calculators/sharedace.o source/calculators/qstat.o source/calculators/bergerparker.o source/calculators/sharedsobs.o source/calculators/goodscoverage.o source/calculators/canberra.o source/calculators/parsimony.o source/calculators/sharedrjsd.o source/calculators/smithwilson.o source/calculators/sharedbraycurtis.o source/calculators/simpson.o source/calculators/mempearson.o source/calculators/spearman.o source/calculators/logsd.o source/calculators/shen.o source/calculators/memchord.o source/calculators/manhattan.o source/calculators/geom.o source/calculators/jackknife.o source/calculators/whittaker.o source/calculators/efron.o source/calculators/bootstrap.o source/calculators/hamming.o source/calculators/invsimpson.o source/calculators/sharedthetan.o source/calculators/sharedsorclass.o source/calculators/shannon.o source/calculators/weighted.o source/calculators/sharedjackknife.o source/calculators/npshannon.o source/calculators/structeuclidean.o source/calculators/sharedchao1.o source/calculators/chao1.o source/calculators/simpsoneven.o source/calculators/sharedjclass.o source/calculators/shannonrange.o source/calculators/structkulczynski.o source/calculators/gower.o source/calculators/structchord.o source/calculators/shannoneven.o source/calculators/bstick.o source/calculators/sharedjsd.o source/calculators/sharedjest.o source/calculators/uvest.o source/calculators/sharedsobscollectsummary.o source/calculators/sharedanderbergs.o source/calculators/odum.o source/calculators/structpearson.o source/calculators/ace.o source/calculators/sharedlennon.o source/calculators/memeuclidean.o source/calculators/memchi2.o source/calculators/sharedjabund.o source/calculators/unweighted.o source/calculators/boneh.o source/calculators/sharedsorest.o source/calculators/soergel.o source/calculators/heip.o source/calculators/sharedkulczynskicody.o source/calculators/sharedmarczewski.o source/calculators/sharedsorabund.o source/calculators/solow.o source/calculators/sharedkstest.o source/calculators/hellinger.o source/calculators/sharedochiai.o source/calculators/sharedkulczynski.o source/calculators/speciesprofile.o source/chimera/pintail.o source/chimera/myPerseus.o source/chimera/bellerophon.o source/chimera/maligner.o source/chimera/chimeraslayer.o source/chimera/chimera.o source/chimera/slayer.o source/chimera/ccode.o source/chimera/chimerarealigner.o source/chimera/chimeracheckrdp.o source/chimera/decalc.o source/classifier/classify.o source/classifier/phylosummary.o source/classifier/taxonomyequalizer.o source/classifier/kmernode.o source/classifier/phylotree.o source/classifier/aligntree.o source/classifier/kmertree.o source/classifier/knn.o source/classifier/alignnode.o source/classifier/bayesian.o source/classifier/taxonomynode.o source/clearcut/distclearcut.o source/clearcut/clearcut.o source/clearcut/fasta.o source/clearcut/dmat.o source/clearcut/getopt_long.o source/clearcut/cmdargs.o source/commands/distancecommand.o source/commands/getotuscommand.o source/commands/clearcutcommand.o source/commands/listseqscommand.o source/commands/clusterdoturcommand.o source/commands/setlogfilecommand.o source/commands/heatmapcommand.o source/commands/mergetaxsummarycommand.o source/commands/quitcommand.o source/commands/indicatorcommand.o source/commands/removegroupscommand.o source/commands/pipelinepdscommand.o source/commands/clusterfragmentscommand.o source/commands/getgroupscommand.o source/commands/kruskalwalliscommand.o source/commands/getotulabelscommand.o source/commands/removeseqscommand.o source/commands/mimarksattributescommand.o source/commands/renameseqscommand.o source/commands/makegroupcommand.o source/commands/deuniqueseqscommand.o source/commands/classifyseqscommand.o source/commands/makefilecommand.o source/commands/getdistscommand.o source/commands/sensspeccommand.o source/commands/summaryqualcommand.o source/commands/unifracweightedcommand.o source/commands/getcoremicrobiomecommand.o source/commands/createdatabasecommand.o source/commands/splitgroupscommand.o source/commands/sffmultiplecommand.o source/commands/removerarecommand.o source/commands/parselistscommand.o source/commands/normalizesharedcommand.o source/commands/heatmapsimcommand.o source/commands/clustercommand.o source/commands/mgclustercommand.o source/commands/summarytaxcommand.o source/commands/unifracunweightedcommand.o source/commands/systemcommand.o source/commands/seqerrorcommand.o source/commands/aligncommand.o source/commands/otuhierarchycommand.o source/commands/getrelabundcommand.o source/commands/removelineagecommand.o source/commands/chimeraccodecommand.o source/commands/chimerabellerophoncommand.o source/commands/getsharedotucommand.o source/commands/parsefastaqcommand.o source/commands/countgroupscommand.o source/commands/cooccurrencecommand.o source/commands/screenseqscommand.o source/commands/parsimonycommand.o source/commands/sracommand.o source/commands/trimseqscommand.o source/commands/amovacommand.o source/commands/splitabundcommand.o source/commands/primerdesigncommand.o source/commands/getrabundcommand.o source/commands/catchallcommand.o source/commands/treegroupscommand.o source/commands/deconvolutecommand.o source/commands/mantelcommand.o source/commands/matrixoutputcommand.o source/commands/makecontigscommand.o source/commands/makelookupcommand.o source/commands/rarefactcommand.o source/commands/summarysharedcommand.o source/commands/getlineagecommand.o source/commands/nmdscommand.o source/commands/getcommandinfocommand.o source/commands/listotulabelscommand.o source/commands/getsabundcommand.o source/commands/lefsecommand.o source/commands/removeotulabelscommand.o source/commands/removeotuscommand.o source/commands/hclustercommand.o source/commands/phylodiversitycommand.o source/commands/venncommand.o source/commands/filtersharedcommand.o source/commands/shhhercommand.o source/commands/mergesfffilecommand.o source/commands/secondarystructurecommand.o source/commands/pcacommand.o source/commands/metastatscommand.o source/commands/subsamplecommand.o source/commands/chimeraslayercommand.o source/commands/chopseqscommand.o source/commands/seqsummarycommand.o source/commands/makebiomcommand.o source/commands/getlistcountcommand.o source/commands/getlabelcommand.o source/commands/consensusseqscommand.o source/commands/sffinfocommand.o source/commands/corraxescommand.o source/commands/preclustercommand.o source/commands/setdircommand.o source/commands/classifytreecommand.o source/commands/getseqscommand.o source/commands/collectsharedcommand.o source/commands/getmimarkspackagecommand.o source/commands/setcurrentcommand.o source/commands/getmetacommunitycommand.o source/commands/setseedcommand.o source/commands/sharedcommand.o source/commands/mergefilecommand.o source/commands/pcoacommand.o source/commands/classifyrfsharedcommand.o source/commands/clearmemorycommand.o source/commands/getgroupcommand.o source/commands/makefastqcommand.o source/commands/helpcommand.o source/commands/pcrseqscommand.o source/commands/anosimcommand.o source/commands/chimeraperseuscommand.o source/commands/deuniquetreecommand.o source/commands/binsequencecommand.o source/commands/makelefsecommand.o source/commands/loadlogfilecommand.o source/commands/trimflowscommand.o source/commands/classifyotucommand.o source/commands/sortseqscommand.o source/commands/otuassociationcommand.o source/commands/removedistscommand.o source/commands/homovacommand.o source/commands/filterseqscommand.o source/commands/classifysvmsharedcommand.o source/commands/countseqscommand.o source/commands/chimerauchimecommand.o source/commands/libshuffcommand.o source/commands/chimerapintailcommand.o source/commands/chimeracheckcommand.o source/commands/clustersplitcommand.o source/commands/pairwiseseqscommand.o source/commands/mergegroupscommand.o source/commands/getoturepcommand.o source/commands/nocommands.o source/commands/sparcccommand.o source/commands/phylotypecommand.o source/commands/rarefactsharedcommand.o source/commands/newcommandtemplate.o source/commands/shhhseqscommand.o source/commands/summarycommand.o source/commands/reversecommand.o source/commands/degapseqscommand.o source/commands/getcurrentcommand.o source/commands/collectcommand.o source/communitytype/communitytype.o source/communitytype/pam.o source/communitytype/kmeans.o source/communitytype/qFinderDMM.o source/datastructures/kmer.o source/datastructures/sharedlistvector.o source/datastructures/fastamap.o source/datastructures/distancedb.o source/datastructures/alignment.o source/datastructures/sharedordervector.o source/datastructures/nameassignment.o source/datastructures/fastqread.o source/datastructures/suffixnodes.o source/datastructures/flowdata.o source/datastructures/sparsedistancematrix.o source/datastructures/kmeralign.o source/datastructures/sequenceparser.o source/datastructures/sparsematrix.o source/datastructures/alignmentdb.o source/datastructures/fullmatrix.o source/datastructures/blastalign.o source/datastructures/treenode.o source/datastructures/alignmentcell.o source/datastructures/suffixdb.o source/datastructures/sabundvector.o source/datastructures/rabundvector.o source/datastructures/suffixtree.o source/datastructures/qualityscores.o source/datastructures/groupmap.o source/datastructures/reportfile.o source/datastructures/sequencecountparser.o source/datastructures/oligos.o source/datastructures/counttable.o source/datastructures/treemap.o source/datastructures/kmerdb.o source/datastructures/blastdb.o source/datastructures/sharedrabundvector.o source/datastructures/referencedb.o source/datastructures/sharedrabundfloatvector.o source/datastructures/ordervector.o source/datastructures/sequence.o source/datastructures/sequencedb.o source/datastructures/database.o source/datastructures/designmap.o source/datastructures/sharedsabundvector.o source/datastructures/tree.o source/datastructures/listvector.o source/metastats/mothurfisher.o source/metastats/mothurmetastats.o source/randomforest/regularizeddecisiontree.o source/randomforest/rftreenode.o source/randomforest/randomforest.o source/randomforest/decisiontree.o source/randomforest/regularizedrandomforest.o source/randomforest/abstractdecisiontree.o source/randomforest/abstractrandomforest.o source/randomforest/forest.o source/read/formatcolumn.o source/read/splitmatrix.o source/read/readphylipvector.o source/read/readblast.o source/read/readcluster.o source/read/treereader.o source/read/readtree.o source/read/formatphylip.o source/read/readcolumn.o source/read/readphylip.o source/svm/svm.o -lreadline -lboost_iostreams
make[2]: Leaving directory '/«PKGBUILDDIR»'
# cp mothur mothur-mpi # XXX: debug
make[1]: Leaving directory '/«PKGBUILDDIR»'
dh_auto_test -a -O--parallel
fakeroot debian/rules binary-arch
dh binary-arch --parallel
dh_testroot -a -O--parallel
dh_prep -a -O--parallel
debian/rules override_dh_auto_install
make[1]: Entering directory '/«PKGBUILDDIR»'
true
make[1]: Leaving directory '/«PKGBUILDDIR»'
dh_install -a -O--parallel
dh_installdocs -a -O--parallel
dh_installchangelogs -a -O--parallel
dh_installman -a -O--parallel
dh_installmenu -a -O--parallel
dh_perl -a -O--parallel
dh_link -a -O--parallel
dh_compress -a -O--parallel
dh_fixperms -a -O--parallel
dh_strip -a -O--parallel
dh_makeshlibs -a -O--parallel
dh_shlibdeps -a -O--parallel
dpkg-shlibdeps: warning: debian/mothur/usr/bin/uchime contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/mothur/usr/bin/mothur contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/mothur-mpi/usr/bin/mothur-mpi contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/mothur-mpi/usr/bin/mothur-mpi was not linked against libmpi_cxx.so.1 (it uses none of the library's symbols)
dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/mothur-mpi/usr/bin/mothur-mpi was not linked against libhwloc.so.5 (it uses none of the library's symbols)
dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/mothur-mpi/usr/bin/mothur-mpi was not linked against libdl.so.2 (it uses none of the library's symbols)
dh_installdeb -a -O--parallel
dh_gencontrol -a -O--parallel
dpkg-gencontrol: warning: File::FcntlLock not available; using flock which is not NFS-safe
dpkg-gencontrol: warning: File::FcntlLock not available; using flock which is not NFS-safe
dh_md5sums -a -O--parallel
dh_builddeb -a -O--parallel
dpkg-deb: building package 'mothur-mpi' in '../mothur-mpi_1.36.1-1_armhf.deb'.
dpkg-deb: building package 'mothur' in '../mothur_1.36.1-1_armhf.deb'.
dpkg-genchanges -B -mRaspbian wandboard test autobuilder <root@raspbian.org> >../mothur_1.36.1-1_armhf.changes
dpkg-genchanges: binary-only arch-specific upload (source code and arch-indep packages not included)
dpkg-source --after-build mothur-1.36.1
dpkg-buildpackage: binary-only upload (no source included)
────────────────────────────────────────────────────────────────────────────────
Build finished at 20150916-1900
Finished
────────
I: Built successfully
┌──────────────────────────────────────────────────────────────────────────────┐
│ Post Build Chroot │
└──────────────────────────────────────────────────────────────────────────────┘
┌──────────────────────────────────────────────────────────────────────────────┐
│ Changes │
└──────────────────────────────────────────────────────────────────────────────┘
mothur_1.36.1-1_armhf.changes:
──────────────────────────────
Format: 1.8
Date: Mon, 07 Sep 2015 10:49:18 +0200
Source: mothur
Binary: mothur mothur-mpi
Architecture: armhf
Version: 1.36.1-1
Distribution: stretch-staging
Urgency: medium
Maintainer: Raspbian wandboard test autobuilder <root@raspbian.org>
Changed-By: Tomasz Buchert <tomasz@debian.org>
Description:
mothur - sequence analysis suite for research on microbiota
mothur-mpi - mpi-enabled binary for mothur
Changes:
mothur (1.36.1-1) unstable; urgency=medium
.
* Imported Upstream version 1.36.1
* d/watch: switch to github & don't repack
* d/copyright: update and improve
* d/rules: make build simpler
* d/patches: refresh and reapply
* d/control: build with boost library
* d/control: bump std-ver to 3.9.6
* d/patches: pass compiler flags properly
* Added myself as uploader
* move packaging from SVN to Git
Checksums-Sha1:
e1bff4df7033a658a7e5f0f9d94b7155fa40cb7f 3629080 mothur-mpi_1.36.1-1_armhf.deb
51d15be4769140e183578f3ccb858a631318c510 3622576 mothur_1.36.1-1_armhf.deb
Checksums-Sha256:
21c4439c41d977297c67bce3b6b366aae41f1273d70ecdf180a731046c099185 3629080 mothur-mpi_1.36.1-1_armhf.deb
a82765d9aa7c1a8a49fae154f93a22e507b149153e5616b235ff87e3bce36f37 3622576 mothur_1.36.1-1_armhf.deb
Files:
68aaaf7d3dabd898dc9d45c5d8862ea3 3629080 science optional mothur-mpi_1.36.1-1_armhf.deb
28d1f4ae5974224750f7105fc106ff81 3622576 science optional mothur_1.36.1-1_armhf.deb
┌──────────────────────────────────────────────────────────────────────────────┐
│ Package contents │
└──────────────────────────────────────────────────────────────────────────────┘
mothur-mpi_1.36.1-1_armhf.deb
─────────────────────────────
new debian package, version 2.0.
size 3629080 bytes: control archive=660 bytes.
610 bytes, 14 lines control
201 bytes, 3 lines md5sums
Package: mothur-mpi
Source: mothur
Version: 1.36.1-1
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 12874
Depends: libboost-iostreams1.58.0, libc6 (>= 2.4), libgcc1 (>= 1:4.4.0), libhwloc5 (>= 1.11.0), libopenmpi1.6, libreadline6 (>= 6.0), libstdc++6 (>= 5.2), mothur, openmpi-bin
Section: science
Priority: optional
Homepage: http://www.mothur.org
Description: mpi-enabled binary for mothur
Provides the MPI-enabled binary for Mothur
This is recommended for operations like shhh.flows which will be
very slow on a single processor.
drwxr-xr-x root/root 0 2015-09-16 18:59 ./
drwxr-xr-x root/root 0 2015-09-16 18:58 ./usr/
drwxr-xr-x root/root 0 2015-09-16 18:59 ./usr/bin/
-rwxr-xr-x root/root 13163904 2015-09-16 18:59 ./usr/bin/mothur-mpi
drwxr-xr-x root/root 0 2015-09-16 18:58 ./usr/share/
drwxr-xr-x root/root 0 2015-09-16 18:58 ./usr/share/doc/
drwxr-xr-x root/root 0 2015-09-16 18:58 ./usr/share/doc/mothur-mpi/
-rw-r--r-- root/root 2844 2015-09-07 08:49 ./usr/share/doc/mothur-mpi/changelog.Debian.gz
-rw-r--r-- root/root 4549 2015-09-07 08:18 ./usr/share/doc/mothur-mpi/copyright
drwxr-xr-x root/root 0 2015-09-16 18:58 ./usr/share/man/
drwxr-xr-x root/root 0 2015-09-16 18:58 ./usr/share/man/man1/
lrwxrwxrwx root/root 0 2015-09-16 18:58 ./usr/share/man/man1/mothur-mpi.1.gz -> mothur.1.gz
mothur_1.36.1-1_armhf.deb
─────────────────────────
new debian package, version 2.0.
size 3622576 bytes: control archive=1139 bytes.
844 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: 1.36.1-1
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 12867
Depends: libboost-iostreams1.58.0, libc6 (>= 2.4), libgcc1 (>= 1:4.4.0), libreadline6 (>= 6.0), libstdc++6 (>= 5.2)
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 2015-09-16 18:59 ./
drwxr-xr-x root/root 0 2015-09-16 18:58 ./usr/
drwxr-xr-x root/root 0 2015-09-16 18:58 ./usr/bin/
-rwxr-xr-x root/root 12995896 2015-09-16 18:58 ./usr/bin/mothur
-rwxr-xr-x root/root 151264 2015-09-16 18:58 ./usr/bin/uchime
drwxr-xr-x root/root 0 2015-09-16 18:58 ./usr/share/
drwxr-xr-x root/root 0 2015-09-16 18:58 ./usr/share/doc/
drwxr-xr-x root/root 0 2015-09-16 18:58 ./usr/share/doc/mothur/
-rw-r--r-- root/root 259 2015-09-07 08:18 ./usr/share/doc/mothur/README.Debian
-rw-r--r-- root/root 2844 2015-09-07 08:49 ./usr/share/doc/mothur/changelog.Debian.gz
-rw-r--r-- root/root 4549 2015-09-07 08:18 ./usr/share/doc/mothur/copyright
drwxr-xr-x root/root 0 2015-09-16 18:58 ./usr/share/man/
drwxr-xr-x root/root 0 2015-09-16 18:58 ./usr/share/man/man1/
-rw-r--r-- root/root 566 2015-09-16 18:58 ./usr/share/man/man1/mothur.1.gz
-rw-r--r-- root/root 3395 2015-09-16 18:58 ./usr/share/man/man1/uchime.1.gz
drwxr-xr-x root/root 0 2015-09-16 18:58 ./usr/share/menu/
-rw-r--r-- root/root 176 2015-09-07 08:18 ./usr/share/menu/mothur
┌──────────────────────────────────────────────────────────────────────────────┐
│ Post Build │
└──────────────────────────────────────────────────────────────────────────────┘
┌──────────────────────────────────────────────────────────────────────────────┐
│ Cleanup │
└──────────────────────────────────────────────────────────────────────────────┘
Purging /«BUILDDIR»
Not cleaning session: cloned chroot in use
┌──────────────────────────────────────────────────────────────────────────────┐
│ Summary │
└──────────────────────────────────────────────────────────────────────────────┘
Build Architecture: armhf
Build-Space: 997304
Build-Time: 11616
Distribution: stretch-staging
Host Architecture: armhf
Install-Time: 324
Job: mothur_1.36.1-1
Machine Architecture: armhf
Package: mothur
Package-Time: 12001
Source-Version: 1.36.1-1
Space: 997304
Status: successful
Version: 1.36.1-1
────────────────────────────────────────────────────────────────────────────────
Finished at 20150916-1900
Build needed 03:20:01, 997304k disc space