Raspbian Package Auto-Building

Build log for ecopcr (0.5.0-1) on armhf

ecopcr0.5.0-1armhf → 2015-08-08 06:43:38

sbuild (Debian sbuild) 0.65.2 (24 Mar 2015) on bm-wb-01

╔══════════════════════════════════════════════════════════════════════════════╗
║ ecopcr 0.5.0-1 (armhf)                                     08 Aug 2015 06:36 ║
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Package: ecopcr
Version: 0.5.0-1
Source Version: 0.5.0-1
Distribution: stretch-staging
Machine Architecture: armhf
Host Architecture: armhf
Build Architecture: armhf

I: NOTICE: Log filtering will replace 'build/ecopcr-Ivybkj/ecopcr-0.5.0' with '«PKGBUILDDIR»'
I: NOTICE: Log filtering will replace 'build/ecopcr-Ivybkj' with '«BUILDDIR»'
I: NOTICE: Log filtering will replace 'var/lib/schroot/mount/stretch-staging-armhf-sbuild-df212790-c914-454c-aa57-19e0aa37913e' with '«CHROOT»'

┌──────────────────────────────────────────────────────────────────────────────┐
│ Update chroot                                                                │
└──────────────────────────────────────────────────────────────────────────────┘

Get:1 http://172.17.0.1 stretch-staging InRelease [11.3 kB]
Get:2 http://172.17.0.1 stretch-staging/main Sources [8215 kB]
Get:3 http://172.17.0.1 stretch-staging/main armhf Packages [10.1 MB]
Ign http://172.17.0.1 stretch-staging/main Translation-en
Fetched 18.3 MB in 32s (568 kB/s)
Reading package lists...

┌──────────────────────────────────────────────────────────────────────────────┐
│ Fetch source files                                                           │
└──────────────────────────────────────────────────────────────────────────────┘


Check APT
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Checking available source versions...

Download source files with APT
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Reading package lists...
Building dependency tree...
Reading state information...
NOTICE: 'ecopcr' packaging is maintained in the 'Git' version control system at:
git://anonscm.debian.org/debian-med/ecopcr.git
Need to get 24.9 MB of source archives.
Get:1 http://172.17.0.1/private/ stretch-staging/main ecopcr 0.5.0-1 (dsc) [1931 B]
Get:2 http://172.17.0.1/private/ stretch-staging/main ecopcr 0.5.0-1 (tar) [24.9 MB]
Get:3 http://172.17.0.1/private/ stretch-staging/main ecopcr 0.5.0-1 (diff) [15.4 kB]
Fetched 24.9 MB in 6s (4052 kB/s)
Download complete and in download only mode

Check architectures
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Check dependencies
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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-IxsctE/apt_archive/sbuild-build-depends-core-dummy.deb'.
OK
Ign file: ./ InRelease
Get:1 file: ./ Release.gpg [299 B]
Get:2 file: ./ Release [2119 B]
Ign file: ./ Translation-en
Reading package lists...
Reading package lists...

┌──────────────────────────────────────────────────────────────────────────────┐
│ Install core build dependencies (apt-based resolver)                         │
└──────────────────────────────────────────────────────────────────────────────┘

Installing build dependencies
Reading package lists...
Building dependency tree...
Reading state information...
The following NEW packages will be installed:
  sbuild-build-depends-core-dummy
debconf: delaying package configuration, since apt-utils is not installed
0 upgraded, 1 newly installed, 0 to remove and 18 not upgraded.
Need to get 0 B/764 B of archives.
After this operation, 0 B of additional disk space will be used.
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Unpacking sbuild-build-depends-core-dummy (0.invalid.0) ...
Setting up sbuild-build-depends-core-dummy (0.invalid.0) ...
Merged Build-Depends: libc6-dev | libc-dev, gcc (>= 4:4.9.1), g++ (>= 4:4.9.1), make, dpkg-dev (>= 1.17.11), debhelper (>= 9), dh-python, python3, zlib1g-dev
Filtered Build-Depends: libc6-dev, gcc (>= 4:4.9.1), g++ (>= 4:4.9.1), make, dpkg-dev (>= 1.17.11), debhelper (>= 9), dh-python, python3, zlib1g-dev
dpkg-deb: building package 'sbuild-build-depends-ecopcr-dummy' in '/«BUILDDIR»/resolver-ESq_07/apt_archive/sbuild-build-depends-ecopcr-dummy.deb'.
OK
Ign file: ./ InRelease
Get:1 file: ./ Release.gpg [299 B]
Get:2 file: ./ Release [2119 B]
Ign file: ./ Translation-en
Reading package lists...
Reading package lists...

┌──────────────────────────────────────────────────────────────────────────────┐
│ Install ecopcr build dependencies (apt-based resolver)                       │
└──────────────────────────────────────────────────────────────────────────────┘

Installing build dependencies
Reading package lists...
Building dependency tree...
Reading state information...
The following extra packages will be installed:
  bsdmainutils debhelper dh-python file gettext gettext-base groff-base
  intltool-debian libasprintf0c2 libcroco3 libexpat1 libffi6 libglib2.0-0
  libmagic1 libmpdec2 libpipeline1 libpython3-stdlib libpython3.4-minimal
  libpython3.4-stdlib libsqlite3-0 libssl1.0.0 libunistring0 libxml2 man-db
  mime-support po-debconf python3 python3-minimal python3.4 python3.4-minimal
  zlib1g-dev
Suggested packages:
  wamerican wordlist whois vacation dh-make gettext-doc groff less www-browser
  libmail-box-perl python3-doc python3-tk python3-venv python3.4-venv
  python3.4-doc binfmt-support
Recommended packages:
  curl wget lynx-cur autopoint libasprintf-dev libgettextpo-dev
  libglib2.0-data shared-mime-info xdg-user-dirs xml-core
  libmail-sendmail-perl
The following NEW packages will be installed:
  bsdmainutils debhelper dh-python file gettext gettext-base groff-base
  intltool-debian libasprintf0c2 libcroco3 libexpat1 libffi6 libglib2.0-0
  libmagic1 libmpdec2 libpipeline1 libpython3-stdlib libpython3.4-minimal
  libpython3.4-stdlib libsqlite3-0 libssl1.0.0 libunistring0 libxml2 man-db
  mime-support po-debconf python3 python3-minimal python3.4 python3.4-minimal
  sbuild-build-depends-ecopcr-dummy zlib1g-dev
0 upgraded, 32 newly installed, 0 to remove and 18 not upgraded.
Need to get 14.0 MB/14.0 MB of archives.
After this operation, 45.3 MB of additional disk space will be used.
Get:1 http://172.17.0.1/private/ stretch-staging/main libpipeline1 armhf 1.4.0-1 [24.0 kB]
Get:2 http://172.17.0.1/private/ stretch-staging/main groff-base armhf 1.22.3-1 [1085 kB]
Get:3 http://172.17.0.1/private/ stretch-staging/main bsdmainutils armhf 9.0.6 [177 kB]
Get:4 http://172.17.0.1/private/ stretch-staging/main man-db armhf 2.7.0.2-5 [972 kB]
Get:5 http://172.17.0.1/private/ stretch-staging/main libasprintf0c2 armhf 0.19.4-1 [31.5 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 libmpdec2 armhf 2.4.1-1 [65.8 kB]
Get:12 http://172.17.0.1/private/ stretch-staging/main libssl1.0.0 armhf 1.0.2d-1 [882 kB]
Get:13 http://172.17.0.1/private/ stretch-staging/main libpython3.4-minimal armhf 3.4.3-7 [487 kB]
Get:14 http://172.17.0.1/private/ stretch-staging/main mime-support all 3.59 [36.4 kB]
Get:15 http://172.17.0.1/private/ stretch-staging/main libsqlite3-0 armhf 3.8.10.2-1 [389 kB]
Get:16 http://172.17.0.1/private/ stretch-staging/main libpython3.4-stdlib armhf 3.4.3-7 [1983 kB]
Get:17 http://172.17.0.1/private/ stretch-staging/main libunistring0 armhf 0.9.3-5.2 [253 kB]
Get:18 http://172.17.0.1/private/ stretch-staging/main libexpat1 armhf 2.1.0-7 [59.8 kB]
Get:19 http://172.17.0.1/private/ stretch-staging/main python3.4-minimal armhf 3.4.3-7 [1142 kB]
Get:20 http://172.17.0.1/private/ stretch-staging/main python3-minimal armhf 3.4.3-4 [34.8 kB]
Get:21 http://172.17.0.1/private/ stretch-staging/main python3.4 armhf 3.4.3-7 [219 kB]
Get:22 http://172.17.0.1/private/ stretch-staging/main libpython3-stdlib armhf 3.4.3-4 [18.2 kB]
Get:23 http://172.17.0.1/private/ stretch-staging/main dh-python all 2.20150728 [71.3 kB]
Get:24 http://172.17.0.1/private/ stretch-staging/main python3 armhf 3.4.3-4 [21.3 kB]
Get:25 http://172.17.0.1/private/ stretch-staging/main file armhf 1:5.22+15-2 [59.9 kB]
Get:26 http://172.17.0.1/private/ stretch-staging/main gettext-base armhf 0.19.4-1 [117 kB]
Get:27 http://172.17.0.1/private/ stretch-staging/main gettext armhf 0.19.4-1 [1168 kB]
Get:28 http://172.17.0.1/private/ stretch-staging/main intltool-debian all 0.35.0+20060710.2 [25.9 kB]
Get:29 http://172.17.0.1/private/ stretch-staging/main po-debconf all 1.0.18 [248 kB]
Get:30 http://172.17.0.1/private/ stretch-staging/main debhelper all 9.20150628 [817 kB]
Get:31 http://172.17.0.1/private/ stretch-staging/main zlib1g-dev armhf 1:1.2.8.dfsg-2 [199 kB]
debconf: delaying package configuration, since apt-utils is not installed
Fetched 14.0 MB in 3s (3510 kB/s)
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Setting up libssl1.0.0:armhf (1.0.2d-1) ...
Setting up libpython3.4-minimal:armhf (3.4.3-7) ...
Setting up libexpat1:armhf (2.1.0-7) ...
Setting up python3.4-minimal (3.4.3-7) ...
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Setting up libpipeline1:armhf (1.4.0-1) ...
Setting up groff-base (1.22.3-1) ...
Setting up bsdmainutils (9.0.6) ...
update-alternatives: using /usr/bin/bsd-write to provide /usr/bin/write (write) in auto mode
update-alternatives: using /usr/bin/bsd-from to provide /usr/bin/from (from) in auto mode
Setting up man-db (2.7.0.2-5) ...
Not building database; man-db/auto-update is not 'true'.
Setting up libasprintf0c2:armhf (0.19.4-1) ...
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 libmpdec2:armhf (2.4.1-1) ...
Setting up mime-support (3.59) ...
Setting up libsqlite3-0:armhf (3.8.10.2-1) ...
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Setting up libunistring0:armhf (0.9.3-5.2) ...
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Setting up intltool-debian (0.35.0+20060710.2) ...
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┌──────────────────────────────────────────────────────────────────────────────┐
│ Build environment                                                            │
└──────────────────────────────────────────────────────────────────────────────┘

Kernel: Linux 3.19.0-trunk-armmp armhf (armv7l)
Toolchain package versions: binutils_2.25-10 dpkg-dev_1.18.1 g++-4.9_4.9.3-2 gcc-4.9_4.9.3-2 libc6-dev_2.19-19 libstdc++-4.9-dev_4.9.3-2 libstdc++6_5.1.1-14+rpi1 linux-libc-dev_3.16.7-ckt4-1+rpi1+b2
Package versions: acl_2.2.52-2 adduser_3.113+nmu3 apt_1.0.9.10 base-files_9.2+rpi1 base-passwd_3.5.38 bash_4.3-12 binutils_2.25-10 bsdmainutils_9.0.6 bsdutils_1:2.26.2-6 build-essential_11.7 bzip2_1.0.6-8 coreutils_8.23-4 cpio_2.11+dfsg-4.1 cpp_4:4.9.2-4+rpi1 cpp-4.9_4.9.3-2 dash_0.5.7-4 debconf_1.5.57 debfoster_2.7-2 debhelper_9.20150628 debianutils_4.5.1 dh-python_2.20150728 diffutils_1:3.3-1 dmsetup_2:1.02.90-2.2 dpkg_1.18.1 dpkg-dev_1.18.1 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++_4:4.9.2-4+rpi1 g++-4.9_4.9.3-2 gcc_4:4.9.2-4+rpi1 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_4.9.3-2 gcc-4.9-base_4.9.3-2 gcc-5-base_5.1.1-14+rpi1 gettext_0.19.4-1 gettext-base_0.19.4-1 gnupg_1.4.19-3 gpgv_1.4.19-3 grep_2.21-2 groff-base_1.22.3-1 gzip_1.6-4 hostname_3.15 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 libasan1_4.9.3-2 libasprintf0c2_0.19.4-1 libatomic1_5.1.1-14+rpi1 libattr1_1:2.4.47-2 libaudit-common_1:2.4.2-1 libaudit1_1:2.4.2-1 libblkid1_2.26.2-6 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_1:2.24-9 libcap2-bin_1:2.24-9 libcloog-isl4_0.18.3-1 libcomerr2_1.42.13-1 libcroco3_0.6.8-3 libcryptsetup4_2:1.6.6-5 libdb5.3_5.3.28-9 libdbus-1-3_1.8.20-1 libdebconfclient0_0.194 libdevmapper1.02.1_2:1.02.90-2.2 libdpkg-perl_1.18.1 libdrm2_2.4.62-1 libexpat1_2.1.0-7 libfakeroot_1.20.2-1 libfdisk1_2.26.2-6 libffi6_3.2.1-3 libgc1c2_1:7.2d-6.4 libgcc-4.9-dev_4.9.3-2 libgcc1_1:5.1.1-14+rpi1 libgcrypt20_1.6.3-2 libgdbm3_1.8.3-13.1 libglib2.0-0_2.44.1-1.1 libgmp10_2:6.0.0+dfsg-7+rpi1 libgomp1_5.1.1-14+rpi1 libgpg-error0_1.19-2 libisl13_0.14-2 libklibc_2.0.4-2+rpi1 libkmod2_21-1 liblocale-gettext-perl_1.05-9 liblzma5_5.1.1alpha+20120614-2.1 libmagic1_1:5.22+15-2 libmount1_2.26.2-6 libmpc3_1.0.3-1 libmpdec2_2.4.1-1 libmpfr4_3.1.3-1 libncurses5_5.9+20150516-2 libncursesw5_5.9+20150516-2 libnih-dbus1_1.0.3-4.3 libnih1_1.0.3-4.3 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 libpipeline1_1.4.0-1 libpng12-0_1.2.50-2 libprocps3_2:3.3.9-9 libprocps4_2:3.3.10-2 libpython3-stdlib_3.4.3-4 libpython3.4-minimal_3.4.3-7 libpython3.4-stdlib_3.4.3-7 libreadline6_6.3-8 libseccomp2_2.2.1-2 libselinux1_2.3-2 libsemanage-common_2.3-1 libsemanage1_2.3-1 libsepol1_2.3-2 libslang2_2.3.0-2 libsmartcols1_2.26.2-6 libsqlite3-0_3.8.10.2-1 libss2_1.42.13-1 libssl1.0.0_1.0.2d-1 libstdc++-4.9-dev_4.9.3-2 libstdc++6_5.1.1-14+rpi1 libsystemd0_222-2 libtext-charwidth-perl_0.04-7+b4 libtext-iconv-perl_1.7-5+b5 libtext-wrapi18n-perl_0.06-7 libtimedate-perl_2.3000-2 libtinfo5_5.9+20150516-2 libubsan0_5.1.1-14+rpi1 libudev1_222-2 libunistring0_0.9.3-5.2 libusb-0.1-4_2:0.1.12-25 libustr-1.0-1_1.0.4-5 libuuid1_2.26.2-6 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_4.0-8.1 makedev_2.3.1-93 man-db_2.7.0.2-5 mawk_1.3.3-17 mime-support_3.59 mount_2.26.2-6 mountall_2.54 multiarch-support_2.19-19 ncurses-base_5.9+20150516-2 ncurses-bin_5.9+20150516-2 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 python3_3.4.3-4 python3-minimal_3.4.3-4 python3.4_3.4.3-7 python3.4-minimal_3.4.3-7 raspbian-archive-keyring_20120528.2 readline-common_6.3-8 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-ecopcr-dummy_0.invalid.0 sed_4.2.2-6.1 sensible-utils_0.0.9 startpar_0.59-3 systemd_222-2 systemd-sysv_222-2 sysv-rc_2.88dsf-59.2 sysvinit-utils_2.88dsf-59.2 tar_1.27.1-2 tzdata_2015e-1 udev_222-2 util-linux_2.26.2-6 xz-utils_5.1.1alpha+20120614-2.1 zlib1g_1:1.2.8.dfsg-2 zlib1g-dev_1:1.2.8.dfsg-2

┌──────────────────────────────────────────────────────────────────────────────┐
│ Build                                                                        │
└──────────────────────────────────────────────────────────────────────────────┘


Unpack source
─────────────

gpgv: keyblock resource `/sbuild-nonexistent/.gnupg/trustedkeys.gpg': file open error
gpgv: Signature made Thu Jun 25 09:55:15 2015 UTC using RSA key ID D1C646D1
gpgv: Can't check signature: public key not found
dpkg-source: warning: failed to verify signature on ./ecopcr_0.5.0-1.dsc
dpkg-source: info: extracting ecopcr in ecopcr-0.5.0
dpkg-source: info: unpacking ecopcr_0.5.0.orig.tar.xz
dpkg-source: info: unpacking ecopcr_0.5.0-1.debian.tar.xz
dpkg-source: info: applying 2to3.patch
dpkg-source: info: applying ecoisundertaxon.patch
dpkg-source: info: applying spelling.patch
dpkg-source: info: applying hardening.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-df212790-c914-454c-aa57-19e0aa37913e
SCHROOT_UID=104
SCHROOT_USER=buildd
SHELL=/bin/sh
TERM=linux
USER=buildd

dpkg-buildpackage
─────────────────

dpkg-buildpackage: source package ecopcr
dpkg-buildpackage: source version 0.5.0-1
dpkg-buildpackage: source distribution unstable
 dpkg-source --before-build ecopcr-0.5.0
dpkg-buildpackage: host architecture armhf
 fakeroot debian/rules clean
dh clean --sourcedirectory=src --with python3
   dh_testdir -O--sourcedirectory=src
   debian/rules override_dh_auto_clean
make[1]: Entering directory '/«PKGBUILDDIR»'
dh_auto_clean
	make -j1 clean
make[2]: Entering directory '/«PKGBUILDDIR»/src'
rm -f *.o	
rm -f ecoPCR ecofind ecogrep ecoisundertaxon
make -C libapat clean
make[3]: Entering directory '/«PKGBUILDDIR»/src/libapat'
rm -rf apat_parse.o apat_search.o libstki.o libapat.a
make[3]: Leaving directory '/«PKGBUILDDIR»/src/libapat'
make -C libecoPCR clean
make[3]: Entering directory '/«PKGBUILDDIR»/src/libecoPCR'
rm -rf ecoapat.o ecodna.o ecoError.o ecoIOUtils.o ecoMalloc.o ecorank.o ecoseq.o ecotax.o ecofilter.o econame.o libecoPCR.a
make[3]: Leaving directory '/«PKGBUILDDIR»/src/libecoPCR'
make -C libthermo clean
make[3]: Entering directory '/«PKGBUILDDIR»/src/libthermo'
rm -rf nnparams.o libthermo.a
make[3]: Leaving directory '/«PKGBUILDDIR»/src/libthermo'
make[2]: Leaving directory '/«PKGBUILDDIR»/src'
find . -type f -name "*.P" -delete
make[1]: Leaving directory '/«PKGBUILDDIR»'
   dh_clean -O--sourcedirectory=src
 debian/rules build-arch
dh build-arch --sourcedirectory=src --with python3
   dh_testdir -a -O--sourcedirectory=src
   dh_auto_configure -a -O--sourcedirectory=src
   dh_auto_build -a -O--sourcedirectory=src
	make -j1
make[1]: Entering directory '/«PKGBUILDDIR»/src'
global.mk:18: ecopcr.P: No such file or directory
global.mk:18: ecofind.P: No such file or directory
global.mk:18: ecoisundertaxon.P: No such file or directory
gcc -DLINUX -M -D_FORTIFY_SOURCE=2 -o ecoisundertaxon.d ecoisundertaxon.c
gcc -DLINUX -M -D_FORTIFY_SOURCE=2 -o ecofind.d ecofind.c
gcc -DLINUX -M -D_FORTIFY_SOURCE=2 -o ecopcr.d ecopcr.c
gcc -DLINUX -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -W -Wall -O2 -g -c -o ecopcr.o ecopcr.c
ecopcr.c: In function 'printRepeat':
ecopcr.c:146:11: warning: variable 'tm' set but not used [-Wunused-but-set-variable]
  double   tm=0;
           ^
ecopcr.c: In function 'main':
ecopcr.c:513:9: warning: variable 'tm' set but not used [-Wunused-but-set-variable]
  double tm,tm1,tm2;
         ^
ecopcr.c:337:16: warning: variable 'amplifiatCount' set but not used [-Wunused-but-set-variable]
  int32_t       amplifiatCount  = 0;
                ^
ecopcr.c:336:16: warning: variable 'positiveSequence' set but not used [-Wunused-but-set-variable]
  int32_t       positiveSequence= 0;
                ^
ecopcr.c:312:17: warning: variable 'scname' set but not used [-Wunused-but-set-variable]
  char          *scname;
                 ^
make -C libapat
make[2]: Entering directory '/«PKGBUILDDIR»/src/libapat'
../global.mk:18: apat_parse.P: No such file or directory
../global.mk:18: apat_search.P: No such file or directory
../global.mk:18: libstki.P: No such file or directory
gcc -DLINUX -M -D_FORTIFY_SOURCE=2 -o libstki.d libstki.c
gcc -DLINUX -M -D_FORTIFY_SOURCE=2 -o apat_search.d apat_search.c
gcc -DLINUX -M -D_FORTIFY_SOURCE=2 -o apat_parse.d apat_parse.c
gcc -DLINUX -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -W -Wall -O2 -g -W -Wall -O2 -g -c -o apat_parse.o apat_parse.c
gcc -DLINUX -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -W -Wall -O2 -g -W -Wall -O2 -g -c -o apat_search.o apat_search.c
gcc -DLINUX -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -W -Wall -O2 -g -W -Wall -O2 -g -c -o libstki.o libstki.c
ar -cr libapat.a apat_parse.o apat_search.o libstki.o
ranlib libapat.a
make[2]: Leaving directory '/«PKGBUILDDIR»/src/libapat'
make -C libecoPCR
make[2]: Entering directory '/«PKGBUILDDIR»/src/libecoPCR'
../global.mk:18: ecoapat.P: No such file or directory
../global.mk:18: ecodna.P: No such file or directory
../global.mk:18: ecoError.P: No such file or directory
../global.mk:18: ecoIOUtils.P: No such file or directory
../global.mk:18: ecoMalloc.P: No such file or directory
../global.mk:18: ecorank.P: No such file or directory
../global.mk:18: ecoseq.P: No such file or directory
../global.mk:18: ecotax.P: No such file or directory
../global.mk:18: ecofilter.P: No such file or directory
../global.mk:18: econame.P: No such file or directory
gcc -DLINUX -M -D_FORTIFY_SOURCE=2 -o econame.d econame.c
gcc -DLINUX -M -D_FORTIFY_SOURCE=2 -o ecofilter.d ecofilter.c
gcc -DLINUX -M -D_FORTIFY_SOURCE=2 -o ecotax.d ecotax.c
gcc -DLINUX -M -D_FORTIFY_SOURCE=2 -o ecoseq.d ecoseq.c
gcc -DLINUX -M -D_FORTIFY_SOURCE=2 -o ecorank.d ecorank.c
gcc -DLINUX -M -D_FORTIFY_SOURCE=2 -o ecoMalloc.d ecoMalloc.c
gcc -DLINUX -M -D_FORTIFY_SOURCE=2 -o ecoIOUtils.d ecoIOUtils.c
gcc -DLINUX -M -D_FORTIFY_SOURCE=2 -o ecoError.d ecoError.c
gcc -DLINUX -M -D_FORTIFY_SOURCE=2 -o ecodna.d ecodna.c
gcc -DLINUX -M -D_FORTIFY_SOURCE=2 -o ecoapat.d ecoapat.c
gcc -DLINUX -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -W -Wall -O2 -g -W -Wall -O2 -g -c -o ecoapat.o ecoapat.c
gcc -DLINUX -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -W -Wall -O2 -g -W -Wall -O2 -g -c -o ecodna.o ecodna.c
gcc -DLINUX -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -W -Wall -O2 -g -W -Wall -O2 -g -c -o ecoError.o ecoError.c
gcc -DLINUX -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -W -Wall -O2 -g -W -Wall -O2 -g -c -o ecoIOUtils.o ecoIOUtils.c
gcc -DLINUX -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -W -Wall -O2 -g -W -Wall -O2 -g -c -o ecoMalloc.o ecoMalloc.c
gcc -DLINUX -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -W -Wall -O2 -g -W -Wall -O2 -g -c -o ecorank.o ecorank.c
gcc -DLINUX -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -W -Wall -O2 -g -W -Wall -O2 -g -c -o ecoseq.o ecoseq.c
ecoseq.c: In function 'readnext_ecoseq':
ecoseq.c:145:25: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for (c=seq->SQ,i=0;i<seqlength;c++,i++)
                         ^
ecoseq.c: In function 'ecoseq_iterator':
ecoseq.c:205:17: warning: array subscript is above array bounds [-Warray-bounds]
   current_prefix[1024]=0;
                 ^
gcc -DLINUX -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -W -Wall -O2 -g -W -Wall -O2 -g -c -o ecotax.o ecotax.c
gcc -DLINUX -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -W -Wall -O2 -g -W -Wall -O2 -g -c -o ecofilter.o ecofilter.c
gcc -DLINUX -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -W -Wall -O2 -g -W -Wall -O2 -g -c -o econame.o econame.c
ar -cr libecoPCR.a ecoapat.o ecodna.o ecoError.o ecoIOUtils.o ecoMalloc.o ecorank.o ecoseq.o ecotax.o ecofilter.o econame.o
ranlib libecoPCR.a
make[2]: Leaving directory '/«PKGBUILDDIR»/src/libecoPCR'
make -C libthermo
make[2]: Entering directory '/«PKGBUILDDIR»/src/libthermo'
../global.mk:18: nnparams.P: No such file or directory
gcc -DLINUX -M -D_FORTIFY_SOURCE=2 -o nnparams.d nnparams.c
gcc -DLINUX -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -W -Wall -O2 -g -W -Wall -O2 -g -c -o nnparams.o nnparams.c
nnparams.c: In function 'nparam_CalcSelfTM':
nnparams.c:523:2: warning: dereferencing type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing]
  const double NaN = *((double*)&minus1);
  ^
nnparams.c:541:13: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
  for ( i=1;i<len;i++)
             ^
nnparams.c:549:3: warning: array subscript has type 'char' [-Wchar-subscripts]
   thedH += nparm->dH[c3][c4][c1][c2];//nparam_GetEnthalpy(nparm, c3,c4,c1,c2);
   ^
nnparams.c:549:3: warning: array subscript has type 'char' [-Wchar-subscripts]
nnparams.c:549:3: warning: array subscript has type 'char' [-Wchar-subscripts]
nnparams.c:549:3: warning: array subscript has type 'char' [-Wchar-subscripts]
nnparams.c: In function 'nparam_CalcTwoTM':
nnparams.c:562:2: warning: dereferencing type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing]
  const double NaN = *((double*)&minus1);
  ^
nnparams.c:588:13: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
  for ( i=1;i<len;i++)
             ^
nnparams.c:597:3: warning: array subscript has type 'char' [-Wchar-subscripts]
   thedH += nparm->dH[c3][c4][c1][c2];//nparam_GetEnthalpy(nparm, c3,c4,c1,c2);
   ^
nnparams.c:597:3: warning: array subscript has type 'char' [-Wchar-subscripts]
nnparams.c:597:3: warning: array subscript has type 'char' [-Wchar-subscripts]
nnparams.c:597:3: warning: array subscript has type 'char' [-Wchar-subscripts]
ar -cr libthermo.a nnparams.o
ranlib libthermo.a
make[2]: Leaving directory '/«PKGBUILDDIR»/src/libthermo'
gcc -Wl,-z,relro -o ecoPCR ecopcr.o -Llibapat -LlibecoPCR -Llibthermo -lecoPCR -lthermo -lapat -lz -lm
gcc -DLINUX -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -W -Wall -O2 -g -c -o ecofind.o ecofind.c
gcc -Wl,-z,relro -o ecofind ecofind.o -Llibapat -LlibecoPCR -Llibthermo -lecoPCR -lthermo -lapat -lz -lm
gcc -DLINUX -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -W -Wall -O2 -g -c -o ecogrep.o ecogrep.c
ecogrep.c: In function 'main':
ecogrep.c:317:4: warning: implicit declaration of function 'isatty' [-Wimplicit-function-declaration]
    if (isatty(fileno(stdin)) == 0)
    ^
gcc -Wl,-z,relro -o ecogrep ecogrep.o -Llibapat -LlibecoPCR -Llibthermo -lecoPCR -lthermo -lapat -lz -lm
gcc -DLINUX -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -W -Wall -O2 -g -c -o ecoisundertaxon.o ecoisundertaxon.c
gcc -Wl,-z,relro -o ecoisundertaxon ecoisundertaxon.o -Llibapat -LlibecoPCR -Llibthermo -lecoPCR -lthermo -lapat -lz -lm
make[1]: Leaving directory '/«PKGBUILDDIR»/src'
   dh_auto_test -a -O--sourcedirectory=src
 fakeroot debian/rules binary-arch
dh binary-arch --sourcedirectory=src --with python3
   dh_testroot -a -O--sourcedirectory=src
   dh_prep -a -O--sourcedirectory=src
   dh_auto_install -a -O--sourcedirectory=src
   debian/rules override_dh_install
make[1]: Entering directory '/«PKGBUILDDIR»'
dh_install
for tool in tools/* ; do \
    cp -a ${tool} debian/ecopcr/usr/bin/`basename ${tool} .py` ; \
done
make[1]: Leaving directory '/«PKGBUILDDIR»'
   dh_installdocs -a -O--sourcedirectory=src
   dh_installchangelogs -a -O--sourcedirectory=src
   dh_installman -a -O--sourcedirectory=src
   dh_python3 -a -O--sourcedirectory=src
   dh_perl -a -O--sourcedirectory=src
   dh_link -a -O--sourcedirectory=src
   dh_compress -a -O--sourcedirectory=src
   dh_fixperms -a -O--sourcedirectory=src
   dh_strip -a -O--sourcedirectory=src
   dh_makeshlibs -a -O--sourcedirectory=src
   dh_shlibdeps -a -O--sourcedirectory=src
   dh_installdeb -a -O--sourcedirectory=src
   dh_gencontrol -a -O--sourcedirectory=src
dpkg-gencontrol: warning: File::FcntlLock not available; using flock which is not NFS-safe
   dh_md5sums -a -O--sourcedirectory=src
   dh_builddeb -a -O--sourcedirectory=src
dpkg-deb: building package 'ecopcr' in '../ecopcr_0.5.0-1_armhf.deb'.
 dpkg-genchanges -B -mRaspbian wandboard test autobuilder <root@raspbian.org> >../ecopcr_0.5.0-1_armhf.changes
dpkg-genchanges: binary-only arch-specific upload (source code and arch-indep packages not included)
 dpkg-source --after-build ecopcr-0.5.0
dpkg-buildpackage: binary-only upload (no source included)
────────────────────────────────────────────────────────────────────────────────
Build finished at 20150808-0642

Finished
────────

I: Built successfully

┌──────────────────────────────────────────────────────────────────────────────┐
│ Post Build Chroot                                                            │
└──────────────────────────────────────────────────────────────────────────────┘


┌──────────────────────────────────────────────────────────────────────────────┐
│ Changes                                                                      │
└──────────────────────────────────────────────────────────────────────────────┘


ecopcr_0.5.0-1_armhf.changes:
─────────────────────────────

Format: 1.8
Date: Thu, 25 Jun 2015 11:53:57 +0200
Source: ecopcr
Binary: ecopcr
Architecture: armhf
Version: 0.5.0-1
Distribution: stretch-staging
Urgency: low
Maintainer: Raspbian wandboard test autobuilder <root@raspbian.org>
Changed-By: Andreas Tille <tille@debian.org>
Description:
 ecopcr     - estimate PCR barcode primers quality
Closes: 789921
Changes:
 ecopcr (0.5.0-1) unstable; urgency=low
 .
   * Initial release (Closes: #789921)
Checksums-Sha1:
 1d3070e412fa0d8678a75920fcc8873dc1c2153b 46140 ecopcr_0.5.0-1_armhf.deb
Checksums-Sha256:
 085829630af2318228dddea7e12920e7cbd94612afa1058b6bf7b03b11653d0e 46140 ecopcr_0.5.0-1_armhf.deb
Files:
 33c0256b7227a320deb06722bcc472f1 46140 science optional ecopcr_0.5.0-1_armhf.deb

┌──────────────────────────────────────────────────────────────────────────────┐
│ Package contents                                                             │
└──────────────────────────────────────────────────────────────────────────────┘


ecopcr_0.5.0-1_armhf.deb
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 new debian package, version 2.0.
 size 46140 bytes: control archive=1427 bytes.
    1437 bytes,    27 lines      control              
     849 bytes,    14 lines      md5sums              
 Package: ecopcr
 Version: 0.5.0-1
 Architecture: armhf
 Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
 Installed-Size: 184
 Depends: libc6 (>= 2.7), zlib1g (>= 1:1.1.4), python3, python3-reportlab
 Section: science
 Priority: optional
 Homepage: http://www.grenoble.prabi.fr/trac/ecoPCR/
 Description: estimate PCR barcode primers quality
  DNA barcoding is a tool for characterizing the species origin using a
  short sequence from a standard position and agreed upon position in the
  genome. To be used as a DNA barcode, a genome locus should vary among
  individuals of the same species only to a minor degree and it should
  vary among species very quickly. From a practical point of view, a
  barcode locus should be flanked by two conserved regions to design PCR
  primers. Several manually discovered barcode loci like COI, rbcL, 18S,
  16S and 23S rDNA, or trnH-ps are routinely used today, but no objective
  function has been described to measure their quality in terms of
  universality (barcode coverage, Bc ) or in terms of taxonomical
  discrimination capacity (barcode specificity, Bs ).
  .
  ecoPCR is an electronic PCR software developed by LECA and
  Helix-Project. It helps to estimate Barcode primers quality. In
  conjunction with OBITools you can postprocess ecoPCR output to compute
  barcode coverage and barcode specificity. New barcode primers can be
  developed using the ecoPrimers software

drwxr-xr-x root/root         0 2015-08-08 06:42 ./
drwxr-xr-x root/root         0 2015-08-08 06:42 ./usr/
drwxr-xr-x root/root         0 2015-08-08 06:42 ./usr/bin/
-rwxr-xr-x root/root     38776 2015-08-08 06:42 ./usr/bin/ecoPCR
-rwxr-xr-x root/root      8805 2015-08-08 06:41 ./usr/bin/ecoPCRFilter
-rwxr-xr-x root/root     18762 2015-08-08 06:41 ./usr/bin/ecoPCRFormat
-rwxr-xr-x root/root     22118 2015-08-08 06:41 ./usr/bin/ecoSort
-rwxr-xr-x root/root     17908 2015-08-08 06:42 ./usr/bin/ecofind
-rwxr-xr-x root/root     26488 2015-08-08 06:42 ./usr/bin/ecogrep
-rwxr-xr-x root/root     13784 2015-08-08 06:42 ./usr/bin/ecoisundertaxon
drwxr-xr-x root/root         0 2015-08-08 06:42 ./usr/share/
drwxr-xr-x root/root         0 2015-08-08 06:42 ./usr/share/doc/
drwxr-xr-x root/root         0 2015-08-08 06:42 ./usr/share/doc/ecopcr/
-rw-r--r-- root/root       153 2015-06-25 09:54 ./usr/share/doc/ecopcr/changelog.Debian.gz
-rw-r--r-- root/root     22094 2015-06-25 09:54 ./usr/share/doc/ecopcr/copyright
drwxr-xr-x root/root         0 2015-08-08 06:42 ./usr/share/man/
drwxr-xr-x root/root         0 2015-08-08 06:42 ./usr/share/man/man1/
-rw-r--r-- root/root      1242 2015-08-08 06:42 ./usr/share/man/man1/ecoPCR.1.gz
-rw-r--r-- root/root       464 2015-08-08 06:42 ./usr/share/man/man1/ecoPCRFormat.1.gz
-rw-r--r-- root/root       745 2015-08-08 06:42 ./usr/share/man/man1/ecofind.1.gz
-rw-r--r-- root/root       646 2015-08-08 06:42 ./usr/share/man/man1/ecogrep.1.gz
-rw-r--r-- root/root       558 2015-08-08 06:42 ./usr/share/man/man1/ecoisundertaxon.1.gz


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│ Post Build                                                                   │
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┌──────────────────────────────────────────────────────────────────────────────┐
│ Cleanup                                                                      │
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Purging /«BUILDDIR»
Not cleaning session: cloned chroot in use

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│ Summary                                                                      │
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Build Architecture: armhf
Build-Space: 37532
Build-Time: 69
Distribution: stretch-staging
Host Architecture: armhf
Install-Time: 230
Job: ecopcr_0.5.0-1
Machine Architecture: armhf
Package: ecopcr
Package-Time: 371
Source-Version: 0.5.0-1
Space: 37532
Status: successful
Version: 0.5.0-1
────────────────────────────────────────────────────────────────────────────────
Finished at 20150808-0642
Build needed 00:06:11, 37532k disc space