proteinortho →
6.0.8+dfsg-1 →
armhf → 2019-10-03 17:02:31
sbuild (Debian sbuild) 0.72.0 (25 Oct 2016) on mb-lxc-02
+==============================================================================+
| proteinortho 6.0.8+dfsg-1 (armhf) Thu, 03 Oct 2019 16:57:19 +0000 |
+==============================================================================+
Package: proteinortho
Version: 6.0.8+dfsg-1
Source Version: 6.0.8+dfsg-1
Distribution: bullseye-staging
Machine Architecture: armhf
Host Architecture: armhf
Build Architecture: armhf
I: NOTICE: Log filtering will replace 'var/lib/schroot/mount/bullseye-staging-armhf-sbuild-512ecfc4-3920-42e1-a9fe-d93fcff0d869' with '<<CHROOT>>'
+------------------------------------------------------------------------------+
| Update chroot |
+------------------------------------------------------------------------------+
Get:1 http://172.17.0.1/private bullseye-staging InRelease [11.3 kB]
Get:2 http://172.17.0.1/private bullseye-staging/main Sources [11.5 MB]
Get:3 http://172.17.0.1/private bullseye-staging/main armhf Packages [12.9 MB]
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Reading package lists...
W: No sandbox user '_apt' on the system, can not drop privileges
+------------------------------------------------------------------------------+
| Fetch source files |
+------------------------------------------------------------------------------+
Check APT
---------
Checking available source versions...
Download source files with APT
------------------------------
Reading package lists...
NOTICE: 'proteinortho' packaging is maintained in the 'Git' version control system at:
https://salsa.debian.org/med-team/proteinortho.git
Please use:
git clone https://salsa.debian.org/med-team/proteinortho.git
to retrieve the latest (possibly unreleased) updates to the package.
Need to get 286 kB of source archives.
Get:1 http://172.17.0.1/private bullseye-staging/main proteinortho 6.0.8+dfsg-1 (dsc) [2129 B]
Get:2 http://172.17.0.1/private bullseye-staging/main proteinortho 6.0.8+dfsg-1 (tar) [279 kB]
Get:3 http://172.17.0.1/private bullseye-staging/main proteinortho 6.0.8+dfsg-1 (diff) [4800 B]
Fetched 286 kB in 0s (2151 kB/s)
Download complete and in download only mode
I: NOTICE: Log filtering will replace 'build/proteinortho-YzYzZU/proteinortho-6.0.8+dfsg' with '<<PKGBUILDDIR>>'
I: NOTICE: Log filtering will replace 'build/proteinortho-YzYzZU' with '<<BUILDDIR>>'
+------------------------------------------------------------------------------+
| Install build-essential |
+------------------------------------------------------------------------------+
Setup apt archive
-----------------
Merged Build-Depends: build-essential, fakeroot
Filtered Build-Depends: build-essential, fakeroot
dpkg-deb: building package 'sbuild-build-depends-core-dummy' in '/<<BUILDDIR>>/resolver-G9KZXw/apt_archive/sbuild-build-depends-core-dummy.deb'.
dpkg-scanpackages: warning: Packages in archive but missing from override file:
dpkg-scanpackages: warning: sbuild-build-depends-core-dummy
dpkg-scanpackages: info: Wrote 1 entries to output Packages file.
gpg: keybox '/<<BUILDDIR>>/resolver-G9KZXw/gpg/pubring.kbx' created
gpg: /<<BUILDDIR>>/resolver-G9KZXw/gpg/trustdb.gpg: trustdb created
gpg: key 37145E60F90AF620: public key "Sbuild Signer (Sbuild Build Dependency Archive Key) <buildd-tools-devel@lists.alioth.debian.org>" imported
gpg: Total number processed: 1
gpg: imported: 1
gpg: key 37145E60F90AF620: "Sbuild Signer (Sbuild Build Dependency Archive Key) <buildd-tools-devel@lists.alioth.debian.org>" not changed
gpg: key 37145E60F90AF620: secret key imported
gpg: Total number processed: 1
gpg: unchanged: 1
gpg: secret keys read: 1
gpg: secret keys imported: 1
gpg: using "Sbuild Signer" as default secret key for signing
Ign:1 copy:/<<BUILDDIR>>/resolver-G9KZXw/apt_archive ./ InRelease
Get:2 copy:/<<BUILDDIR>>/resolver-G9KZXw/apt_archive ./ Release [957 B]
Get:3 copy:/<<BUILDDIR>>/resolver-G9KZXw/apt_archive ./ Release.gpg [370 B]
Get:4 copy:/<<BUILDDIR>>/resolver-G9KZXw/apt_archive ./ Sources [349 B]
Get:5 copy:/<<BUILDDIR>>/resolver-G9KZXw/apt_archive ./ Packages [430 B]
Fetched 2106 B in 0s (9714 B/s)
Reading package lists...
W: No sandbox user '_apt' on the system, can not drop privileges
Reading package lists...
Install core build dependencies (apt-based resolver)
----------------------------------------------------
Installing build dependencies
Reading package lists...
Building dependency tree...
Reading state information...
The following package was automatically installed and is no longer required:
netbase
Use 'apt autoremove' to remove it.
The following NEW packages will be installed:
sbuild-build-depends-core-dummy
0 upgraded, 1 newly installed, 0 to remove and 14 not upgraded.
Need to get 852 B of archives.
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Get:1 copy:/<<BUILDDIR>>/resolver-G9KZXw/apt_archive ./ sbuild-build-depends-core-dummy 0.invalid.0 [852 B]
debconf: delaying package configuration, since apt-utils is not installed
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(Reading database ... 12177 files and directories currently installed.)
Preparing to unpack .../sbuild-build-depends-core-dummy_0.invalid.0_armhf.deb ...
Unpacking sbuild-build-depends-core-dummy (0.invalid.0) ...
Setting up sbuild-build-depends-core-dummy (0.invalid.0) ...
W: No sandbox user '_apt' on the system, can not drop privileges
+------------------------------------------------------------------------------+
| Check architectures |
+------------------------------------------------------------------------------+
Arch check ok (armhf included in any)
+------------------------------------------------------------------------------+
| Install package build dependencies |
+------------------------------------------------------------------------------+
Setup apt archive
-----------------
Merged Build-Depends: debhelper-compat (= 12), ncbi-blast+, liblapack-dev | libatlas-base-dev | liblapack.so, diamond-aligner
Filtered Build-Depends: debhelper-compat (= 12), ncbi-blast+, liblapack-dev, diamond-aligner
dpkg-deb: building package 'sbuild-build-depends-proteinortho-dummy' in '/<<BUILDDIR>>/resolver-G9KZXw/apt_archive/sbuild-build-depends-proteinortho-dummy.deb'.
dpkg-scanpackages: warning: Packages in archive but missing from override file:
dpkg-scanpackages: warning: sbuild-build-depends-core-dummy sbuild-build-depends-proteinortho-dummy
dpkg-scanpackages: info: Wrote 2 entries to output Packages file.
gpg: using "Sbuild Signer" as default secret key for signing
Ign:1 copy:/<<BUILDDIR>>/resolver-G9KZXw/apt_archive ./ InRelease
Get:2 copy:/<<BUILDDIR>>/resolver-G9KZXw/apt_archive ./ Release [963 B]
Get:3 copy:/<<BUILDDIR>>/resolver-G9KZXw/apt_archive ./ Release.gpg [370 B]
Get:4 copy:/<<BUILDDIR>>/resolver-G9KZXw/apt_archive ./ Sources [546 B]
Get:5 copy:/<<BUILDDIR>>/resolver-G9KZXw/apt_archive ./ Packages [603 B]
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Reading package lists...
W: No sandbox user '_apt' on the system, can not drop privileges
Reading package lists...
Install proteinortho build dependencies (apt-based resolver)
------------------------------------------------------------
Installing build dependencies
Reading package lists...
Building dependency tree...
Reading state information...
The following package was automatically installed and is no longer required:
netbase
Use 'apt autoremove' to remove it.
The following additional packages will be installed:
autoconf automake autopoint autotools-dev bsdmainutils debhelper
dh-autoreconf dh-strip-nondeterminism diamond-aligner dwz file gettext
gettext-base groff-base intltool-debian libarchive-zip-perl libblas-dev
libblas3 libbsd0 libcroco3 libdebhelper-perl libelf1 libexpat1
libfile-stripnondeterminism-perl libgfortran5 libglib2.0-0 libicu63
liblapack-dev liblapack3 liblmdb0 libmagic-mgc libmagic1 libmbedcrypto3
libmbedtls12 libmbedx509-0 libmpdec2 libncurses6 libpipeline1
libpython3-stdlib libpython3.7-minimal libpython3.7-stdlib libsigsegv2
libssl1.1 libsub-override-perl libtinfo5 libtool libuchardet0 libxml2 m4
man-db mime-support ncbi-blast+ ncbi-data po-debconf python3 python3-minimal
python3.7 python3.7-minimal sensible-utils
Suggested packages:
autoconf-archive gnu-standards autoconf-doc wamerican | wordlist whois
vacation dh-make gettext-doc libasprintf-dev libgettextpo-dev groff
liblapack-doc libtool-doc gfortran | fortran95-compiler gcj-jdk m4-doc
apparmor less www-browser libmail-box-perl python3-doc python3-tk
python3-venv python3.7-venv python3.7-doc binfmt-support
Recommended packages:
med-config curl | wget | lynx libarchive-cpio-perl libglib2.0-data
shared-mime-info xdg-user-dirs libgpm2 libltdl-dev libmail-sendmail-perl
The following NEW packages will be installed:
autoconf automake autopoint autotools-dev bsdmainutils debhelper
dh-autoreconf dh-strip-nondeterminism diamond-aligner dwz file gettext
gettext-base groff-base intltool-debian libarchive-zip-perl libblas-dev
libblas3 libbsd0 libcroco3 libdebhelper-perl libelf1 libexpat1
libfile-stripnondeterminism-perl libgfortran5 libglib2.0-0 libicu63
liblapack-dev liblapack3 liblmdb0 libmagic-mgc libmagic1 libmbedcrypto3
libmbedtls12 libmbedx509-0 libmpdec2 libncurses6 libpipeline1
libpython3-stdlib libpython3.7-minimal libpython3.7-stdlib libsigsegv2
libssl1.1 libsub-override-perl libtinfo5 libtool libuchardet0 libxml2 m4
man-db mime-support ncbi-blast+ ncbi-data po-debconf python3 python3-minimal
python3.7 python3.7-minimal sbuild-build-depends-proteinortho-dummy
sensible-utils
0 upgraded, 60 newly installed, 0 to remove and 14 not upgraded.
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Get:2 http://172.17.0.1/private bullseye-staging/main armhf libbsd0 armhf 0.10.0-1 [112 kB]
Get:3 http://172.17.0.1/private bullseye-staging/main armhf libtinfo5 armhf 6.1+20190803-1 [314 kB]
Get:4 http://172.17.0.1/private bullseye-staging/main armhf bsdmainutils armhf 11.1.2 [182 kB]
Get:5 http://172.17.0.1/private bullseye-staging/main armhf libuchardet0 armhf 0.0.6-3 [62.2 kB]
Get:6 http://172.17.0.1/private bullseye-staging/main armhf groff-base armhf 1.22.4-3 [782 kB]
Get:7 http://172.17.0.1/private bullseye-staging/main armhf libpipeline1 armhf 1.5.1-2 [26.6 kB]
Get:8 http://172.17.0.1/private bullseye-staging/main armhf man-db armhf 2.8.7-3 [1254 kB]
Get:9 http://172.17.0.1/private bullseye-staging/main armhf libssl1.1 armhf 1.1.1d-1 [1269 kB]
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Get:21 http://172.17.0.1/private bullseye-staging/main armhf libmagic-mgc armhf 1:5.37-5 [253 kB]
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Get:23 http://172.17.0.1/private bullseye-staging/main armhf file armhf 1:5.37-5 [66.2 kB]
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Get:26 http://172.17.0.1/private bullseye-staging/main armhf m4 armhf 1.4.18-2 [185 kB]
Get:27 http://172.17.0.1/private bullseye-staging/main armhf autoconf all 2.69-11 [341 kB]
Get:28 http://172.17.0.1/private bullseye-staging/main armhf autotools-dev all 20180224.1 [77.0 kB]
Get:29 http://172.17.0.1/private bullseye-staging/main armhf automake all 1:1.16.1-4 [771 kB]
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Get:33 http://172.17.0.1/private bullseye-staging/main armhf libarchive-zip-perl all 1.65-1 [95.8 kB]
Get:34 http://172.17.0.1/private bullseye-staging/main armhf libsub-override-perl all 0.09-2 [10.2 kB]
Get:35 http://172.17.0.1/private bullseye-staging/main armhf libfile-stripnondeterminism-perl all 1.6.0-1 [23.3 kB]
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Get:37 http://172.17.0.1/private bullseye-staging/main armhf libelf1 armhf 0.176-1.1 [158 kB]
Get:38 http://172.17.0.1/private bullseye-staging/main armhf dwz armhf 0.13-1 [69.7 kB]
Get:39 http://172.17.0.1/private bullseye-staging/main armhf libdebhelper-perl all 12.6.1 [172 kB]
Get:40 http://172.17.0.1/private bullseye-staging/main armhf libglib2.0-0 armhf 2.60.6-2 [1109 kB]
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Get:44 http://172.17.0.1/private bullseye-staging/main armhf libncurses6 armhf 6.1+20190803-1 [79.3 kB]
Get:45 http://172.17.0.1/private bullseye-staging/main armhf gettext armhf 0.19.8.1-9 [1219 kB]
Get:46 http://172.17.0.1/private bullseye-staging/main armhf intltool-debian all 0.35.0+20060710.5 [26.8 kB]
Get:47 http://172.17.0.1/private bullseye-staging/main armhf po-debconf all 1.0.21 [248 kB]
Get:48 http://172.17.0.1/private bullseye-staging/main armhf debhelper all 12.6.1 [993 kB]
Get:49 http://172.17.0.1/private bullseye-staging/main armhf diamond-aligner armhf 0.9.22+dfsg-2 [438 kB]
Get:50 http://172.17.0.1/private bullseye-staging/main armhf libgfortran5 armhf 9.2.1-8+rpi1 [231 kB]
Get:51 http://172.17.0.1/private bullseye-staging/main armhf libblas3 armhf 3.8.0-2 [103 kB]
Get:52 http://172.17.0.1/private bullseye-staging/main armhf libblas-dev armhf 3.8.0-2 [113 kB]
Get:53 http://172.17.0.1/private bullseye-staging/main armhf liblapack3 armhf 3.8.0-2 [1493 kB]
Get:54 http://172.17.0.1/private bullseye-staging/main armhf liblapack-dev armhf 3.8.0-2 [1551 kB]
Get:55 http://172.17.0.1/private bullseye-staging/main armhf liblmdb0 armhf 0.9.22-1 [38.2 kB]
Get:56 http://172.17.0.1/private bullseye-staging/main armhf libmbedcrypto3 armhf 2.16.3-1 [192 kB]
Get:57 http://172.17.0.1/private bullseye-staging/main armhf libmbedx509-0 armhf 2.16.3-1 [99.2 kB]
Get:58 http://172.17.0.1/private bullseye-staging/main armhf libmbedtls12 armhf 2.16.3-1 [125 kB]
Get:59 http://172.17.0.1/private bullseye-staging/main armhf ncbi-data all 6.1.20170106+dfsg1-7 [3555 kB]
Get:60 http://172.17.0.1/private bullseye-staging/main armhf ncbi-blast+ armhf 2.8.1-2 [8721 kB]
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update-alternatives: using /usr/lib/arm-linux-gnueabihf/blas/libblas.so.3 to provide /usr/lib/arm-linux-gnueabihf/libblas.so.3 (libblas.so.3-arm-linux-gnueabihf) in auto mode
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Setting up po-debconf (1.0.21) ...
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Processing triggers for libc-bin (2.29-1+rpi1) ...
W: No sandbox user '_apt' on the system, can not drop privileges
+------------------------------------------------------------------------------+
| Build environment |
+------------------------------------------------------------------------------+
Kernel: Linux 4.15.0-58-generic armhf (armv8l)
Toolchain package versions: binutils_2.32.51.20190909-1+rpi1 dpkg-dev_1.19.7 g++-9_9.2.1-8+rpi1 gcc-9_9.2.1-8+rpi1 libc6-dev_2.29-1+rpi1 libstdc++-9-dev_9.2.1-8+rpi1 libstdc++6_9.2.1-8+rpi1 linux-libc-dev_4.18.20-2+rpi1+b1
Package versions: adduser_3.118 apt_1.8.3 autoconf_2.69-11 automake_1:1.16.1-4 autopoint_0.19.8.1-9 autotools-dev_20180224.1 base-files_11+rpi1 base-passwd_3.5.46 bash_5.0-4 binutils_2.32.51.20190909-1+rpi1 binutils-arm-linux-gnueabihf_2.32.51.20190909-1+rpi1 binutils-common_2.32.51.20190909-1+rpi1 bsdmainutils_11.1.2 bsdutils_1:2.34-0.1 build-essential_12.8 bzip2_1.0.8-2 coreutils_8.30-3 cpp_4:9.2.1-3+rpi1 cpp-9_9.2.1-8+rpi1 dash_0.5.10.2-6 debconf_1.5.73 debhelper_12.6.1 debianutils_4.9 dh-autoreconf_19 dh-strip-nondeterminism_1.6.0-1 diamond-aligner_0.9.22+dfsg-2 diffutils_1:3.7-3 dirmngr_2.2.17-3+b1 dpkg_1.19.7 dpkg-dev_1.19.7 dwz_0.13-1 e2fsprogs_1.45.3-4 fakeroot_1.24-1 fdisk_2.34-0.1 file_1:5.37-5 findutils_4.7.0-1 g++_4:9.2.1-3+rpi1 g++-9_9.2.1-8+rpi1 gcc_4:9.2.1-3+rpi1 gcc-4.9-base_4.9.4-2+rpi1+b19 gcc-5-base_5.5.0-8 gcc-6-base_6.5.0-1+rpi1+b3 gcc-7-base_7.4.0-13+rpi1+b1 gcc-9_9.2.1-8+rpi1 gcc-9-base_9.2.1-8+rpi1 gettext_0.19.8.1-9 gettext-base_0.19.8.1-9 gnupg_2.2.17-3 gnupg-l10n_2.2.17-3 gnupg-utils_2.2.17-3+b1 gpg_2.2.17-3+b1 gpg-agent_2.2.17-3+b1 gpg-wks-client_2.2.17-3+b1 gpg-wks-server_2.2.17-3+b1 gpgconf_2.2.17-3+b1 gpgsm_2.2.17-3+b1 gpgv_2.2.17-3+b1 grep_3.3-1 groff-base_1.22.4-3 gzip_1.9-3 hostname_3.22 init-system-helpers_1.57 intltool-debian_0.35.0+20060710.5 libacl1_2.2.53-4 libapt-pkg5.0_1.8.3 libarchive-zip-perl_1.65-1 libasan5_9.2.1-8+rpi1 libassuan0_2.5.3-7 libatomic1_9.2.1-8+rpi1 libattr1_1:2.4.48-4 libaudit-common_1:2.8.5-2 libaudit1_1:2.8.5-2 libbinutils_2.32.51.20190909-1+rpi1 libblas-dev_3.8.0-2 libblas3_3.8.0-2 libblkid1_2.34-0.1 libbsd0_0.10.0-1 libbz2-1.0_1.0.8-2 libc-bin_2.29-1+rpi1 libc-dev-bin_2.29-1+rpi1 libc6_2.29-1+rpi1 libc6-dev_2.29-1+rpi1 libcap-ng0_0.7.9-2 libcc1-0_9.2.1-8+rpi1 libcom-err2_1.45.3-4 libcroco3_0.6.13-1 libdb5.3_5.3.28+dfsg1-0.6 libdebconfclient0_0.249 libdebhelper-perl_12.6.1 libdpkg-perl_1.19.7 libelf1_0.176-1.1 libexpat1_2.2.7-2 libext2fs2_1.45.3-4 libfakeroot_1.24-1 libfdisk1_2.34-0.1 libffi6_3.2.1-9 libfile-stripnondeterminism-perl_1.6.0-1 libgcc-9-dev_9.2.1-8+rpi1 libgcc1_1:9.2.1-8+rpi1 libgcrypt20_1.8.5-2 libgdbm-compat4_1.18.1-5 libgdbm6_1.18.1-5 libgfortran5_9.2.1-8+rpi1 libglib2.0-0_2.60.6-2 libgmp10_2:6.1.2+dfsg-4 libgnutls30_3.6.9-5 libgomp1_9.2.1-8+rpi1 libgpg-error0_1.36-7 libhogweed4_3.4.1-1 libicu63_63.2-2 libidn2-0_2.2.0-2 libisl19_0.20-2 libisl21_0.21-2 libksba8_1.3.5-2 liblapack-dev_3.8.0-2 liblapack3_3.8.0-2 libldap-2.4-2_2.4.48+dfsg-1 libldap-common_2.4.48+dfsg-1 liblmdb0_0.9.22-1 liblocale-gettext-perl_1.07-3+b3 liblz4-1_1.8.3-1 liblzma5_5.2.4-1 libmagic-mgc_1:5.37-5 libmagic1_1:5.37-5 libmbedcrypto3_2.16.3-1 libmbedtls12_2.16.3-1 libmbedx509-0_2.16.3-1 libmount1_2.34-0.1 libmpc3_1.1.0-1 libmpdec2_2.4.2-2 libmpfr6_4.0.2-1 libncurses6_6.1+20190803-1 libncursesw6_6.1+20190803-1 libnettle6_3.4.1-1 libnpth0_1.6-1 libp11-kit0_0.23.16.1-2 libpam-modules_1.3.1-5 libpam-modules-bin_1.3.1-5 libpam-runtime_1.3.1-5 libpam0g_1.3.1-5 libpcre2-8-0_10.32-5 libpcre3_2:8.39-12 libperl5.28_5.28.1-6 libpipeline1_1.5.1-2 libpython3-stdlib_3.7.3-1 libpython3.7-minimal_3.7.4-4 libpython3.7-stdlib_3.7.4-4 libreadline7_7.0-5 libreadline8_8.0-3 libsasl2-2_2.1.27+dfsg-1+b1 libsasl2-modules-db_2.1.27+dfsg-1+b1 libseccomp2_2.4.1-2+rpi1 libselinux1_2.9-2 libsemanage-common_2.9-3 libsemanage1_2.9-3 libsepol1_2.9-2 libsigsegv2_2.12-2 libsmartcols1_2.34-0.1 libsqlite3-0_3.29.0-2 libss2_1.45.3-4 libssl1.1_1.1.1d-1 libstdc++-9-dev_9.2.1-8+rpi1 libstdc++6_9.2.1-8+rpi1 libsub-override-perl_0.09-2 libsystemd0_242-7+rpi1 libtasn1-6_4.14-2 libtext-charwidth-perl_0.04-8 libtext-iconv-perl_1.7-6 libtext-wrapi18n-perl_0.06-8 libtinfo5_6.1+20190803-1 libtinfo6_6.1+20190803-1 libtool_2.4.6-11 libubsan1_9.2.1-8+rpi1 libuchardet0_0.0.6-3 libudev1_242-7+rpi1 libunistring2_0.9.10-2 libuuid1_2.34-0.1 libxml2_2.9.4+dfsg1-7+b2 libzstd1_1.4.3+dfsg-1+rpi1 linux-libc-dev_4.18.20-2+rpi1+b1 login_1:4.7-2 logsave_1.45.3-4 lsb-base_11.1.0+rpi1 m4_1.4.18-2 make_4.2.1-1.2 man-db_2.8.7-3 mawk_1.3.3-17 mime-support_3.63 mount_2.34-0.1 ncbi-blast+_2.8.1-2 ncbi-data_6.1.20170106+dfsg1-7 ncurses-base_6.1+20190803-1 ncurses-bin_6.1+20190803-1 netbase_5.6 passwd_1:4.7-2 patch_2.7.6-6 perl_5.28.1-6 perl-base_5.28.1-6 perl-modules-5.28_5.28.1-6 pinentry-curses_1.1.0-3 po-debconf_1.0.21 python3_3.7.3-1 python3-minimal_3.7.3-1 python3.7_3.7.4-4 python3.7-minimal_3.7.4-4 raspbian-archive-keyring_20120528.2 readline-common_8.0-3 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-proteinortho-dummy_0.invalid.0 sed_4.7-1 sensible-utils_0.0.12 sysvinit-utils_2.96~beta-1 tar_1.30+dfsg-6 tzdata_2019c-1 util-linux_2.34-0.1 xz-utils_5.2.4-1 zlib1g_1:1.2.11.dfsg-1
+------------------------------------------------------------------------------+
| Build |
+------------------------------------------------------------------------------+
Unpack source
-------------
gpgv: unknown type of key resource 'trustedkeys.kbx'
gpgv: keyblock resource '/sbuild-nonexistent/.gnupg/trustedkeys.kbx': General error
gpgv: Signature made Wed Sep 25 15:00:24 2019 UTC
gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1
gpgv: issuer "tille@debian.org"
gpgv: Can't check signature: No public key
dpkg-source: warning: failed to verify signature on ./proteinortho_6.0.8+dfsg-1.dsc
dpkg-source: info: extracting proteinortho in /<<BUILDDIR>>/proteinortho-6.0.8+dfsg
dpkg-source: info: unpacking proteinortho_6.0.8+dfsg.orig.tar.xz
dpkg-source: info: unpacking proteinortho_6.0.8+dfsg-1.debian.tar.xz
Check disk space
----------------
Sufficient free space for build
User Environment
----------------
APT_CONFIG=/var/lib/sbuild/apt.conf
DEB_BUILD_OPTIONS=parallel=4
HOME=/sbuild-nonexistent
LC_ALL=POSIX
LOGNAME=buildd
PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games
SCHROOT_ALIAS_NAME=bullseye-staging-armhf-sbuild
SCHROOT_CHROOT_NAME=bullseye-staging-armhf-sbuild
SCHROOT_COMMAND=env
SCHROOT_GID=112
SCHROOT_GROUP=buildd
SCHROOT_SESSION_ID=bullseye-staging-armhf-sbuild-512ecfc4-3920-42e1-a9fe-d93fcff0d869
SCHROOT_UID=107
SCHROOT_USER=buildd
SHELL=/bin/sh
USER=buildd
dpkg-buildpackage
-----------------
dpkg-buildpackage: info: source package proteinortho
dpkg-buildpackage: info: source version 6.0.8+dfsg-1
dpkg-buildpackage: info: source distribution unstable
dpkg-source --before-build .
dpkg-buildpackage: info: host architecture armhf
fakeroot debian/rules clean
dh clean
dh_auto_clean
make -j4 clean
make[1]: Entering directory '/<<BUILDDIR>>/proteinortho-6.0.8+dfsg'
rm -rf src/BUILD test/C.faa.* test/E.faa.* test/C2.faa.* test/L.faa.* test/M.faa.*
rm -rf src/lapack-3.8.0/
make[1]: Leaving directory '/<<BUILDDIR>>/proteinortho-6.0.8+dfsg'
dh_clean
debian/rules build-arch
dh build-arch
dh_update_autotools_config -a
dh_autoreconf -a
dh_auto_configure -a
dh_auto_build -a
make -j4 "INSTALL=install --strip-program=true"
make[1]: Entering directory '/<<BUILDDIR>>/proteinortho-6.0.8+dfsg'
Creating build directory ...
[ 10%] Prepare proteinortho_clustering ...
[ 20%] Building **proteinortho_clustering** with LAPACK (dynamic linking)
[ 25%] Building **graphMinusRemovegraph**
[ 50%] Building **cleanupblastgraph**
[ 75%] Building **po_tree**
In file included from /usr/include/c++/9/vector:72,
from src/proteinortho_clustering.cpp:24:
/usr/include/c++/9/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const ConnectedComponent&}; _Tp = ConnectedComponent; _Alloc = std::allocator<ConnectedComponent>]':
/usr/include/c++/9/bits/vector.tcc:426:7: note: parameter passing for argument of type 'std::vector<ConnectedComponent>::iterator' {aka '__gnu_cxx::__normal_iterator<ConnectedComponent*, std::vector<ConnectedComponent> >'} changed in GCC 7.1
426 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/9/algorithm:62,
from src/proteinortho_clustering.cpp:22:
/usr/include/c++/9/bits/stl_algo.h: In function 'void std::__unguarded_linear_insert(_RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<ConnectedComponent*, std::vector<ConnectedComponent> >; _Compare = __gnu_cxx::__ops::_Val_comp_iter<compare_ConnectedComponents>]':
/usr/include/c++/9/bits/stl_algo.h:1820:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<ConnectedComponent*, std::vector<ConnectedComponent> >' changed in GCC 7.1
1820 | __unguarded_linear_insert(_RandomAccessIterator __last,
| ^~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_algo.h: In function 'void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<ConnectedComponent*, std::vector<ConnectedComponent> >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter<compare_ConnectedComponents>]':
/usr/include/c++/9/bits/stl_algo.h:1839:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<ConnectedComponent*, std::vector<ConnectedComponent> >' changed in GCC 7.1
1839 | __insertion_sort(_RandomAccessIterator __first,
| ^~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_algo.h:1839:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<ConnectedComponent*, std::vector<ConnectedComponent> >' changed in GCC 7.1
In file included from /usr/include/c++/9/bits/stl_algo.h:61,
from /usr/include/c++/9/algorithm:62,
from src/proteinortho_clustering.cpp:22:
/usr/include/c++/9/bits/stl_heap.h: In function 'void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<ConnectedComponent*, std::vector<ConnectedComponent> >; _Distance = int; _Tp = ConnectedComponent; _Compare = __gnu_cxx::__ops::_Iter_comp_iter<compare_ConnectedComponents>]':
/usr/include/c++/9/bits/stl_heap.h:214:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<ConnectedComponent*, std::vector<ConnectedComponent> >' changed in GCC 7.1
214 | __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex,
| ^~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_heap.h: In function 'void std::__make_heap(_RandomAccessIterator, _RandomAccessIterator, _Compare&) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<ConnectedComponent*, std::vector<ConnectedComponent> >; _Compare = __gnu_cxx::__ops::_Iter_comp_iter<compare_ConnectedComponents>]':
/usr/include/c++/9/bits/stl_heap.h:326:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<ConnectedComponent*, std::vector<ConnectedComponent> >' changed in GCC 7.1
326 | __make_heap(_RandomAccessIterator __first, _RandomAccessIterator __last,
| ^~~~~~~~~~~
/usr/include/c++/9/bits/stl_heap.h:326:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<ConnectedComponent*, std::vector<ConnectedComponent> >' changed in GCC 7.1
In file included from /usr/include/c++/9/algorithm:62,
from src/proteinortho_clustering.cpp:22:
/usr/include/c++/9/bits/stl_algo.h: In function 'void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<ConnectedComponent*, std::vector<ConnectedComponent> >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_comp_iter<compare_ConnectedComponents>]':
/usr/include/c++/9/bits/stl_algo.h:1939:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<ConnectedComponent*, std::vector<ConnectedComponent> >' changed in GCC 7.1
1939 | __introsort_loop(_RandomAccessIterator __first,
| ^~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_algo.h:1939:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<ConnectedComponent*, std::vector<ConnectedComponent> >' changed in GCC 7.1
/usr/include/c++/9/bits/stl_algo.h:1953:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<ConnectedComponent*, std::vector<ConnectedComponent> >' changed in GCC 7.1
1953 | std::__introsort_loop(__cut, __last, __depth_limit, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_algo.h:1671:23: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<ConnectedComponent*, std::vector<ConnectedComponent> >' changed in GCC 7.1
1671 | std::__make_heap(__first, __middle, __comp);
| ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/9/vector:67,
from src/proteinortho_clustering.cpp:24:
/usr/include/c++/9/bits/stl_vector.h: In function 'void partition_graph()':
/usr/include/c++/9/bits/stl_vector.h:1195:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<ConnectedComponent*, std::vector<ConnectedComponent> >' changed in GCC 7.1
1195 | _M_realloc_insert(end(), __x);
| ^~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/9/algorithm:62,
from src/proteinortho_clustering.cpp:22:
/usr/include/c++/9/bits/stl_algo.h:1967:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<ConnectedComponent*, std::vector<ConnectedComponent> >' changed in GCC 7.1
1967 | std::__introsort_loop(__first, __last,
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~
1968 | std::__lg(__last - __first) * 2,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
1969 | __comp);
| ~~~~~~~
/usr/include/c++/9/bits/stl_algo.h:1884:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<ConnectedComponent*, std::vector<ConnectedComponent> >' changed in GCC 7.1
1884 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/9/bits/stl_algo.h:1889:23: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<ConnectedComponent*, std::vector<ConnectedComponent> >' changed in GCC 7.1
1889 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
......OK dynamic linking was successful for proteinortho_clustering!
[100%] Everything is compiled with no errors.
make[1]: Leaving directory '/<<BUILDDIR>>/proteinortho-6.0.8+dfsg'
dh_auto_test -a
make -j4 test
make[1]: Entering directory '/<<BUILDDIR>>/proteinortho-6.0.8+dfsg'
[TEST] Clean up all test files...
[TEST] 1. basic proteinortho6.pl -step=2 test. (algorithms that are not present are skipped)
[TEST] Clean up all test files...
[1/12] -p=blastp+ test: passed
[3/12] -p=diamond test: diamond missing, skipping...
[4/12] -p=diamond (--moresensitive) test (subparaBlast): diamond missing, skipping...
[5/12] -p=lastp (lastal) test: lastal missing, skipping...
[6/12] -p=topaz test: topaz missing, skipping...
[7/12] -p=usearch test: usearch missing, skipping...
[8/12] -p=ublast test: usearch missing, skipping...
[9/12] -p=rapsearch test: rapsearch missing, skipping...
[10/12] -p=blatp (blat) test: blat missing, skipping...
[11/12] -p=mmseqsp (mmseqs) test: mmseqs missing, skipping...
[12/12] -p=blastp (legacy blast) test: blastall missing, skipping...
[TEST] 2. -step=3 tests (proteinortho_clustering)
[1/2] various test functions of proteinortho_clustering (-test): passed
[2/2] Compare results of 'with lapack' and 'without lapack': passed
[TEST] All tests passed
make[1]: Leaving directory '/<<BUILDDIR>>/proteinortho-6.0.8+dfsg'
create-stamp debian/debhelper-build-stamp
fakeroot debian/rules binary-arch
dh binary-arch
dh_testroot -a
dh_prep -a
dh_installdirs -a
debian/rules override_dh_auto_install
make[1]: Entering directory '/<<BUILDDIR>>/proteinortho-6.0.8+dfsg'
dh_auto_install --buildsystem=makefile -- install PREFIX=/<<BUILDDIR>>/proteinortho-6.0.8+dfsg/debian/proteinortho/usr/lib/proteinortho
make -j4 install DESTDIR=/<<BUILDDIR>>/proteinortho-6.0.8\+dfsg/debian/proteinortho AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" install PREFIX=/<<BUILDDIR>>/proteinortho-6.0.8\+dfsg/debian/proteinortho/usr/lib/proteinortho
make[2]: Entering directory '/<<BUILDDIR>>/proteinortho-6.0.8+dfsg'
INSTALLING everything to /<<BUILDDIR>>/proteinortho-6.0.8+dfsg/debian/proteinortho/usr/lib/proteinortho
'proteinortho6.pl' -> '/<<BUILDDIR>>/proteinortho-6.0.8+dfsg/debian/proteinortho/usr/lib/proteinortho/proteinortho6.pl'
'proteinortho' -> '/<<BUILDDIR>>/proteinortho-6.0.8+dfsg/debian/proteinortho/usr/lib/proteinortho/proteinortho'
'src/BUILD/Linux_armv8l/proteinortho_extract_from_graph.pl' -> '/<<BUILDDIR>>/proteinortho-6.0.8+dfsg/debian/proteinortho/usr/lib/proteinortho/proteinortho_extract_from_graph.pl'
'src/BUILD/Linux_armv8l/proteinortho_formatUsearch.pl' -> '/<<BUILDDIR>>/proteinortho-6.0.8+dfsg/debian/proteinortho/usr/lib/proteinortho/proteinortho_formatUsearch.pl'
'src/BUILD/Linux_armv8l/proteinortho_compareProteinorthoGraphs.pl' -> '/<<BUILDDIR>>/proteinortho-6.0.8+dfsg/debian/proteinortho/usr/lib/proteinortho/proteinortho_compareProteinorthoGraphs.pl'
'src/BUILD/Linux_armv8l/proteinortho_do_mcl.pl' -> '/<<BUILDDIR>>/proteinortho-6.0.8+dfsg/debian/proteinortho/usr/lib/proteinortho/proteinortho_do_mcl.pl'
'src/BUILD/Linux_armv8l/proteinortho2html.pl' -> '/<<BUILDDIR>>/proteinortho-6.0.8+dfsg/debian/proteinortho/usr/lib/proteinortho/proteinortho2html.pl'
'src/BUILD/Linux_armv8l/proteinortho2xml.pl' -> '/<<BUILDDIR>>/proteinortho-6.0.8+dfsg/debian/proteinortho/usr/lib/proteinortho/proteinortho2xml.pl'
'src/BUILD/Linux_armv8l/proteinortho_clustering' -> '/<<BUILDDIR>>/proteinortho-6.0.8+dfsg/debian/proteinortho/usr/lib/proteinortho/proteinortho_clustering'
'src/BUILD/Linux_armv8l/proteinortho_singletons.pl' -> '/<<BUILDDIR>>/proteinortho-6.0.8+dfsg/debian/proteinortho/usr/lib/proteinortho/proteinortho_singletons.pl'
'src/BUILD/Linux_armv8l/proteinortho_ffadj_mcs.py' -> '/<<BUILDDIR>>/proteinortho-6.0.8+dfsg/debian/proteinortho/usr/lib/proteinortho/proteinortho_ffadj_mcs.py'
'src/BUILD/Linux_armv8l/proteinortho2tree.pl' -> '/<<BUILDDIR>>/proteinortho-6.0.8+dfsg/debian/proteinortho/usr/lib/proteinortho/proteinortho2tree.pl'
'src/BUILD/Linux_armv8l/proteinortho_cleanupblastgraph' -> '/<<BUILDDIR>>/proteinortho-6.0.8+dfsg/debian/proteinortho/usr/lib/proteinortho/proteinortho_cleanupblastgraph'
'src/BUILD/Linux_armv8l/proteinortho_graphMinusRemovegraph' -> '/<<BUILDDIR>>/proteinortho-6.0.8+dfsg/debian/proteinortho/usr/lib/proteinortho/proteinortho_graphMinusRemovegraph'
'src/BUILD/Linux_armv8l/proteinortho_treeBuilderCore' -> '/<<BUILDDIR>>/proteinortho-6.0.8+dfsg/debian/proteinortho/usr/lib/proteinortho/proteinortho_treeBuilderCore'
'src/BUILD/Linux_armv8l/proteinortho_grab_proteins.pl' -> '/<<BUILDDIR>>/proteinortho-6.0.8+dfsg/debian/proteinortho/usr/lib/proteinortho/proteinortho_grab_proteins.pl'
Everything installed successfully to /<<BUILDDIR>>/proteinortho-6.0.8+dfsg/debian/proteinortho/usr/lib/proteinortho.
If needed you can add /<<BUILDDIR>>/proteinortho-6.0.8+dfsg/debian/proteinortho/usr/lib/proteinortho to $PATH with 'export PATH=$PATH:/<<BUILDDIR>>/proteinortho-6.0.8+dfsg/debian/proteinortho/usr/lib/proteinortho'.
make[2]: Nothing to be done for 'install'.
make[2]: Leaving directory '/<<BUILDDIR>>/proteinortho-6.0.8+dfsg'
make[1]: Leaving directory '/<<BUILDDIR>>/proteinortho-6.0.8+dfsg'
debian/rules override_dh_install
make[1]: Entering directory '/<<BUILDDIR>>/proteinortho-6.0.8+dfsg'
dh_install
for pl in `grep -Rl '#!/usr/bin/env[[:space:]]\+perl' debian/*/usr/*` ; do \
sed -i '1s?^#!/usr/bin/env[[:space:]]\+perl?#!/usr/bin/perl?' ${pl} ; \
done
make[1]: Leaving directory '/<<BUILDDIR>>/proteinortho-6.0.8+dfsg'
dh_installdocs -a
dh_installchangelogs -a
dh_installexamples -a
dh_installman -a
dh_perl -a
dh_link -a
dh_strip_nondeterminism -a
dh_compress -a
debian/rules override_dh_fixperms
make[1]: Entering directory '/<<BUILDDIR>>/proteinortho-6.0.8+dfsg'
dh_fixperms
find debian \( -name "*.faa" -o -name "*.gff" \) -exec chmod -x \{\} \;
make[1]: Leaving directory '/<<BUILDDIR>>/proteinortho-6.0.8+dfsg'
dh_missing -a
dh_dwz -a
dwz: debian/proteinortho/usr/lib/proteinortho/proteinortho_treeBuilderCore: .debug_info section not present
dh_strip -a
dh_makeshlibs -a
dh_shlibdeps -a
dpkg-shlibdeps: warning: debian/proteinortho/usr/lib/proteinortho/proteinortho_clustering contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/proteinortho/usr/lib/proteinortho/proteinortho_cleanupblastgraph contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/proteinortho/usr/lib/proteinortho/proteinortho_graphMinusRemovegraph 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/proteinortho/usr/lib/proteinortho/proteinortho_clustering debian/proteinortho/usr/lib/proteinortho/proteinortho_cleanupblastgraph debian/proteinortho/usr/lib/proteinortho/proteinortho_graphMinusRemovegraph were not linked against ld-linux-armhf.so.3 (they use none of the library's symbols)
dh_installdeb -a
dh_gencontrol -a
dpkg-gencontrol: warning: package proteinortho: substitution variable ${perl:Depends} unused, but is defined
dpkg-gencontrol: warning: package proteinortho: substitution variable ${perl:Depends} unused, but is defined
dh_md5sums -a
dh_builddeb -a
dpkg-deb: building package 'proteinortho' in '../proteinortho_6.0.8+dfsg-1_armhf.deb'.
dpkg-deb: building package 'proteinortho-dbgsym' in '../proteinortho-dbgsym_6.0.8+dfsg-1_armhf.deb'.
dpkg-genbuildinfo --build=any
dpkg-genchanges --build=any -mRaspbian mythic lxc autobuilder 1 <root@raspbian.org> >../proteinortho_6.0.8+dfsg-1_armhf.changes
dpkg-genchanges: info: binary-only arch-specific upload (source code and arch-indep packages not included)
dpkg-source --after-build .
dpkg-buildpackage: info: binary-only upload (no source included)
--------------------------------------------------------------------------------
Build finished at 2019-10-03T17:02:29Z
Finished
--------
I: Built successfully
+------------------------------------------------------------------------------+
| Post Build Chroot |
+------------------------------------------------------------------------------+
+------------------------------------------------------------------------------+
| Changes |
+------------------------------------------------------------------------------+
proteinortho_6.0.8+dfsg-1_armhf.changes:
----------------------------------------
Format: 1.8
Date: Wed, 25 Sep 2019 16:39:22 +0200
Source: proteinortho
Binary: proteinortho proteinortho-dbgsym
Architecture: armhf
Version: 6.0.8+dfsg-1
Distribution: bullseye-staging
Urgency: medium
Maintainer: Raspbian mythic lxc autobuilder 1 <root@raspbian.org>
Changed-By: Andreas Tille <tille@debian.org>
Description:
proteinortho - Detection of (Co-)orthologs in large-scale protein analysis
Changes:
proteinortho (6.0.8+dfsg-1) unstable; urgency=medium
.
* New upstream version ported to Python3
* debhelper-compat 12
* Fix perl interpreter path
Checksums-Sha1:
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c7166187dd91554387a8945124dd884a90ba7034 5346 proteinortho_6.0.8+dfsg-1_armhf.buildinfo
3c171ed66b7d7a30d344eb2237b6bf8859ca5f42 188916 proteinortho_6.0.8+dfsg-1_armhf.deb
Checksums-Sha256:
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402ca19685ab03a34ffe0e4aed4dd3484389089e0c29862de563cdede848b287 5346 proteinortho_6.0.8+dfsg-1_armhf.buildinfo
6bfaefe4167673b9957416a93168ba5edf73b056133101c83a554cc9b1ad10c8 188916 proteinortho_6.0.8+dfsg-1_armhf.deb
Files:
628db68060d735c0aa5a4e1b69ea1a03 944096 debug optional proteinortho-dbgsym_6.0.8+dfsg-1_armhf.deb
643cfa7f6e549f0c0e627a7004cb4dc3 5346 science optional proteinortho_6.0.8+dfsg-1_armhf.buildinfo
6d72a87659caedf93891b8f1dfb716f3 188916 science optional proteinortho_6.0.8+dfsg-1_armhf.deb
+------------------------------------------------------------------------------+
| Package contents |
+------------------------------------------------------------------------------+
proteinortho-dbgsym_6.0.8+dfsg-1_armhf.deb
------------------------------------------
new Debian package, version 2.0.
size 944096 bytes: control archive=756 bytes.
523 bytes, 12 lines control
516 bytes, 5 lines md5sums
Package: proteinortho-dbgsym
Source: proteinortho
Version: 6.0.8+dfsg-1
Auto-Built-Package: debug-symbols
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 991
Depends: proteinortho (= 6.0.8+dfsg-1)
Section: debug
Priority: optional
Description: debug symbols for proteinortho
Build-Ids: 127e341ad2baceb10440e4bdeb0b9888f6b5032d 2a00789f491b19330f96a876a298ba312f856302 590561172e6d4d5bf9c7800ec8f8fe063b044f21 b40076208a9be5329c33f038780393831bbc2cfc
drwxr-xr-x root/root 0 2019-09-25 14:39 ./
drwxr-xr-x root/root 0 2019-09-25 14:39 ./usr/
drwxr-xr-x root/root 0 2019-09-25 14:39 ./usr/lib/
drwxr-xr-x root/root 0 2019-09-25 14:39 ./usr/lib/debug/
drwxr-xr-x root/root 0 2019-09-25 14:39 ./usr/lib/debug/.build-id/
drwxr-xr-x root/root 0 2019-09-25 14:39 ./usr/lib/debug/.build-id/12/
-rw-r--r-- root/root 108276 2019-09-25 14:39 ./usr/lib/debug/.build-id/12/7e341ad2baceb10440e4bdeb0b9888f6b5032d.debug
drwxr-xr-x root/root 0 2019-09-25 14:39 ./usr/lib/debug/.build-id/2a/
-rw-r--r-- root/root 5344 2019-09-25 14:39 ./usr/lib/debug/.build-id/2a/00789f491b19330f96a876a298ba312f856302.debug
drwxr-xr-x root/root 0 2019-09-25 14:39 ./usr/lib/debug/.build-id/59/
-rw-r--r-- root/root 718668 2019-09-25 14:39 ./usr/lib/debug/.build-id/59/0561172e6d4d5bf9c7800ec8f8fe063b044f21.debug
drwxr-xr-x root/root 0 2019-09-25 14:39 ./usr/lib/debug/.build-id/b4/
-rw-r--r-- root/root 133260 2019-09-25 14:39 ./usr/lib/debug/.build-id/b4/0076208a9be5329c33f038780393831bbc2cfc.debug
drwxr-xr-x root/root 0 2019-09-25 14:39 ./usr/lib/debug/.dwz/
drwxr-xr-x root/root 0 2019-09-25 14:39 ./usr/lib/debug/.dwz/arm-linux-gnueabihf/
-rw-r--r-- root/root 31440 2019-09-25 14:39 ./usr/lib/debug/.dwz/arm-linux-gnueabihf/proteinortho.debug
drwxr-xr-x root/root 0 2019-09-25 14:39 ./usr/share/
drwxr-xr-x root/root 0 2019-09-25 14:39 ./usr/share/doc/
lrwxrwxrwx root/root 0 2019-09-25 14:39 ./usr/share/doc/proteinortho-dbgsym -> proteinortho
proteinortho_6.0.8+dfsg-1_armhf.deb
-----------------------------------
new Debian package, version 2.0.
size 188916 bytes: control archive=1796 bytes.
949 bytes, 17 lines control
2650 bytes, 34 lines md5sums
Package: proteinortho
Version: 6.0.8+dfsg-1
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 787
Depends: libc6 (>= 2.7), libgcc1 (>= 1:3.5), libgomp1 (>= 6), liblapack3, libstdc++6 (>= 5.2), ncbi-blast+, diamond-aligner, python3
Section: science
Priority: optional
Homepage: https://gitlab.com/paulklemm_PHD/proteinortho
Description: Detection of (Co-)orthologs in large-scale protein analysis
Proteinortho is a stand-alone tool that is geared towards large datasets
and makes use of distributed computing techniques when run on multi-core
hardware. It implements an extended version of the reciprocal best
alignment heuristic. Proteinortho was applied to compute orthologous
proteins in the complete set of all 717 eubacterial genomes available at
NCBI at the beginning of 2009. Authors succeeded identifying thirty
proteins present in 99% of all bacterial proteomes.
drwxr-xr-x root/root 0 2019-09-25 14:39 ./
drwxr-xr-x root/root 0 2019-09-25 14:39 ./usr/
drwxr-xr-x root/root 0 2019-09-25 14:39 ./usr/bin/
lrwxrwxrwx root/root 0 2019-09-25 14:39 ./usr/bin/proteinortho -> proteinortho6
-rwxr-xr-x root/root 52 2019-09-25 14:39 ./usr/bin/proteinortho6
drwxr-xr-x root/root 0 2019-09-25 14:39 ./usr/lib/
drwxr-xr-x root/root 0 2019-09-25 14:39 ./usr/lib/proteinortho/
-rwxr-xr-x root/root 130987 2019-09-25 14:39 ./usr/lib/proteinortho/proteinortho
-rwxr-xr-x root/root 36280 2019-09-25 14:39 ./usr/lib/proteinortho/proteinortho2html.pl
-rwxr-xr-x root/root 4997 2019-09-25 14:39 ./usr/lib/proteinortho/proteinortho2tree.pl
-rwxr-xr-x root/root 4697 2019-09-25 14:39 ./usr/lib/proteinortho/proteinortho2xml.pl
-rwxr-xr-x root/root 130987 2019-09-25 14:39 ./usr/lib/proteinortho/proteinortho6.pl
-rwxr-xr-x root/root 30356 2019-09-25 14:39 ./usr/lib/proteinortho/proteinortho_cleanupblastgraph
-rwxr-xr-x root/root 124616 2019-09-25 14:39 ./usr/lib/proteinortho/proteinortho_clustering
-rwxr-xr-x root/root 1239 2019-09-25 14:39 ./usr/lib/proteinortho/proteinortho_compareProteinorthoGraphs.pl
-rwxr-xr-x root/root 8787 2019-09-25 14:39 ./usr/lib/proteinortho/proteinortho_do_mcl.pl
-rwxr-xr-x root/root 1166 2019-09-25 14:39 ./usr/lib/proteinortho/proteinortho_extract_from_graph.pl
-rwxr-xr-x root/root 32879 2019-09-25 14:39 ./usr/lib/proteinortho/proteinortho_ffadj_mcs.py
-rwxr-xr-x root/root 479 2019-09-25 14:39 ./usr/lib/proteinortho/proteinortho_formatUsearch.pl
-rwxr-xr-x root/root 10913 2019-09-25 14:39 ./usr/lib/proteinortho/proteinortho_grab_proteins.pl
-rwxr-xr-x root/root 22164 2019-09-25 14:39 ./usr/lib/proteinortho/proteinortho_graphMinusRemovegraph
-rwxr-xr-x root/root 1616 2019-09-25 14:39 ./usr/lib/proteinortho/proteinortho_singletons.pl
-rwxr-xr-x root/root 13728 2019-09-25 14:39 ./usr/lib/proteinortho/proteinortho_treeBuilderCore
drwxr-xr-x root/root 0 2019-09-25 14:39 ./usr/share/
drwxr-xr-x root/root 0 2019-09-25 14:39 ./usr/share/doc/
drwxr-xr-x root/root 0 2019-09-25 14:39 ./usr/share/doc/proteinortho/
-rw-r--r-- root/root 263 2019-09-25 14:39 ./usr/share/doc/proteinortho/README.test
-rw-r--r-- root/root 766 2019-09-25 14:39 ./usr/share/doc/proteinortho/changelog.Debian.gz
-rw-r--r-- root/root 5950 2019-09-25 12:29 ./usr/share/doc/proteinortho/changelog.gz
-rw-r--r-- root/root 1080 2019-09-25 14:39 ./usr/share/doc/proteinortho/copyright
drwxr-xr-x root/root 0 2019-09-25 14:39 ./usr/share/doc/proteinortho/examples/
-rw-r--r-- root/root 52855 2019-09-25 12:29 ./usr/share/doc/proteinortho/examples/C.faa
-rw-r--r-- root/root 18467 2019-09-25 12:29 ./usr/share/doc/proteinortho/examples/C.gff
-rw-r--r-- root/root 751 2019-09-25 12:29 ./usr/share/doc/proteinortho/examples/C2.faa
-rw-r--r-- root/root 120 2019-09-25 12:29 ./usr/share/doc/proteinortho/examples/C2.gff
-rw-r--r-- root/root 55942 2019-09-25 12:29 ./usr/share/doc/proteinortho/examples/E.faa
-rw-r--r-- root/root 18666 2019-09-25 12:29 ./usr/share/doc/proteinortho/examples/E.gff
-rw-r--r-- root/root 27375 2019-09-25 12:29 ./usr/share/doc/proteinortho/examples/L.faa
-rw-r--r-- root/root 2376 2019-09-25 12:29 ./usr/share/doc/proteinortho/examples/L.gff
-rw-r--r-- root/root 27690 2019-09-25 12:29 ./usr/share/doc/proteinortho/examples/M.faa
-rw-r--r-- root/root 2317 2019-09-25 12:29 ./usr/share/doc/proteinortho/examples/M.gff
-rwxr-xr-x root/root 262 2019-09-25 12:29 ./usr/share/doc/proteinortho/examples/chk_test.pl
-rw-r--r-- root/root 432 2019-09-25 14:39 ./usr/share/doc/proteinortho/run-unit-test
drwxr-xr-x root/root 0 2019-09-25 14:39 ./usr/share/man/
drwxr-xr-x root/root 0 2019-09-25 14:39 ./usr/share/man/man1/
lrwxrwxrwx root/root 0 2019-09-25 14:39 ./usr/share/man/man1/proteinortho.1.gz -> proteinortho6.1.gz
-rw-r--r-- root/root 1562 2019-09-25 14:39 ./usr/share/man/man1/proteinortho6.1.gz
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| Post Build |
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+------------------------------------------------------------------------------+
| Cleanup |
+------------------------------------------------------------------------------+
Purging /<<BUILDDIR>>
Not cleaning session: cloned chroot in use
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| Summary |
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Build Architecture: armhf
Build-Space: 8464
Build-Time: 103
Distribution: bullseye-staging
Host Architecture: armhf
Install-Time: 191
Job: proteinortho_6.0.8+dfsg-1
Machine Architecture: armhf
Package: proteinortho
Package-Time: 310
Source-Version: 6.0.8+dfsg-1
Space: 8464
Status: successful
Version: 6.0.8+dfsg-1
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Finished at 2019-10-03T17:02:29Z
Build needed 00:05:10, 8464k disk space