baitfisher →
1.2.7+git20180107.e92dbf2+dfsg-1 →
armhf → 2018-09-29 06:36:28
sbuild (Debian sbuild) 0.71.0 (24 Aug 2016) on bm-wb-02
+==============================================================================+
| baitfisher 1.2.7+git20180107.e92dbf2+dfsg-1 (armhf) Sat, 29 Sep 2018 06:26:03 +0000 |
+==============================================================================+
Package: baitfisher
Version: 1.2.7+git20180107.e92dbf2+dfsg-1
Source Version: 1.2.7+git20180107.e92dbf2+dfsg-1
Distribution: buster-staging
Machine Architecture: armhf
Host Architecture: armhf
Build Architecture: armhf
I: NOTICE: Log filtering will replace 'var/lib/schroot/mount/buster-staging-armhf-sbuild-2d80325f-c0f8-4d70-be9d-435ee1d2923a' with '<<CHROOT>>'
+------------------------------------------------------------------------------+
| Update chroot |
+------------------------------------------------------------------------------+
Get:1 http://172.17.0.1/private buster-staging InRelease [11.3 kB]
Get:2 http://172.17.0.1/private buster-staging/main Sources [11.1 MB]
Get:3 http://172.17.0.1/private buster-staging/main armhf Packages [12.8 MB]
Fetched 23.9 MB in 34s (702 kB/s)
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: 'baitfisher' packaging is maintained in the 'Git' version control system at:
https://salsa.debian.org/med-team/baitfisher.git
Please use:
git clone https://salsa.debian.org/med-team/baitfisher.git
to retrieve the latest (possibly unreleased) updates to the package.
Need to get 3461 kB of source archives.
Get:1 http://172.17.0.1/private buster-staging/main baitfisher 1.2.7+git20180107.e92dbf2+dfsg-1 (dsc) [2168 B]
Get:2 http://172.17.0.1/private buster-staging/main baitfisher 1.2.7+git20180107.e92dbf2+dfsg-1 (tar) [3454 kB]
Get:3 http://172.17.0.1/private buster-staging/main baitfisher 1.2.7+git20180107.e92dbf2+dfsg-1 (diff) [4084 B]
Fetched 3461 kB in 1s (5957 kB/s)
Download complete and in download only mode
I: NOTICE: Log filtering will replace 'build/baitfisher-oYefqt/baitfisher-1.2.7+git20180107.e92dbf2+dfsg' with '<<PKGBUILDDIR>>'
I: NOTICE: Log filtering will replace 'build/baitfisher-oYefqt' 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-rQwMDn/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-rQwMDn/gpg/pubring.kbx' created
gpg: /<<BUILDDIR>>/resolver-rQwMDn/gpg/trustdb.gpg: trustdb created
gpg: key 35506D9A48F77B2E: 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 35506D9A48F77B2E: "Sbuild Signer (Sbuild Build Dependency Archive Key) <buildd-tools-devel@lists.alioth.debian.org>" not changed
gpg: key 35506D9A48F77B2E: 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-rQwMDn/apt_archive ./ InRelease
Get:2 copy:/<<BUILDDIR>>/resolver-rQwMDn/apt_archive ./ Release [957 B]
Get:3 copy:/<<BUILDDIR>>/resolver-rQwMDn/apt_archive ./ Release.gpg [370 B]
Get:4 copy:/<<BUILDDIR>>/resolver-rQwMDn/apt_archive ./ Sources [349 B]
Get:5 copy:/<<BUILDDIR>>/resolver-rQwMDn/apt_archive ./ Packages [432 B]
Fetched 2108 B in 1s (2805 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 packages were automatically installed and are no longer required:
ca-certificates dbus dbus-user-session e2fsprogs-l10n libexpat1
libnss-systemd libpam-systemd libsasl2-modules libssl1.1 openssl
systemd-sysv
Use 'apt autoremove' to remove them.
The following NEW packages will be installed:
sbuild-build-depends-core-dummy
0 upgraded, 1 newly installed, 0 to remove and 74 not upgraded.
Need to get 848 B of archives.
After this operation, 0 B of additional disk space will be used.
Get:1 copy:/<<BUILDDIR>>/resolver-rQwMDn/apt_archive ./ sbuild-build-depends-core-dummy 0.invalid.0 [848 B]
debconf: delaying package configuration, since apt-utils is not installed
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Selecting previously unselected package sbuild-build-depends-core-dummy.
(Reading database ... 15689 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 (>= 11~), help2man, libtclap-dev
Filtered Build-Depends: debhelper (>= 11~), help2man, libtclap-dev
dpkg-deb: building package 'sbuild-build-depends-baitfisher-dummy' in '/<<BUILDDIR>>/resolver-rQwMDn/apt_archive/sbuild-build-depends-baitfisher-dummy.deb'.
dpkg-scanpackages: warning: Packages in archive but missing from override file:
dpkg-scanpackages: warning: sbuild-build-depends-baitfisher-dummy sbuild-build-depends-core-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-rQwMDn/apt_archive ./ InRelease
Get:2 copy:/<<BUILDDIR>>/resolver-rQwMDn/apt_archive ./ Release [963 B]
Get:3 copy:/<<BUILDDIR>>/resolver-rQwMDn/apt_archive ./ Release.gpg [370 B]
Get:4 copy:/<<BUILDDIR>>/resolver-rQwMDn/apt_archive ./ Sources [505 B]
Get:5 copy:/<<BUILDDIR>>/resolver-rQwMDn/apt_archive ./ Packages [586 B]
Fetched 2424 B in 1s (3536 B/s)
Reading package lists...
W: No sandbox user '_apt' on the system, can not drop privileges
Reading package lists...
Install baitfisher build dependencies (apt-based resolver)
----------------------------------------------------------
Installing build dependencies
Reading package lists...
Building dependency tree...
Reading state information...
The following packages were automatically installed and are no longer required:
ca-certificates dbus dbus-user-session e2fsprogs-l10n libexpat1
libnss-systemd libpam-systemd libsasl2-modules libssl1.1 openssl
systemd-sysv
Use 'apt autoremove' to remove them.
The following additional packages will be installed:
autoconf automake autopoint autotools-dev bsdmainutils debhelper
dh-autoreconf dh-strip-nondeterminism dwz file gettext gettext-base
groff-base help2man intltool-debian libarchive-zip-perl libbsd0 libcroco3
libelf1 libfile-stripnondeterminism-perl libfreetype6 libglib2.0-0
libgraphite2-3 libharfbuzz0b libicu-le-hb0 libicu60 liblocale-gettext-perl
libmagic-mgc libmagic1 libpipeline1 libsigsegv2 libtclap-dev
libtimedate-perl libtool libxml2 m4 man-db po-debconf
Suggested packages:
autoconf-archive gnu-standards autoconf-doc wamerican | wordlist whois
vacation dh-make gettext-doc libasprintf-dev libgettextpo-dev groff
libtool-doc gfortran | fortran95-compiler gcj-jdk m4-doc apparmor less
www-browser libmail-box-perl
Recommended packages:
curl | wget | lynx libarchive-cpio-perl libglib2.0-data shared-mime-info
xdg-user-dirs libltdl-dev libmail-sendmail-perl
The following NEW packages will be installed:
autoconf automake autopoint autotools-dev bsdmainutils debhelper
dh-autoreconf dh-strip-nondeterminism dwz file gettext gettext-base
groff-base help2man intltool-debian libarchive-zip-perl libbsd0 libcroco3
libelf1 libfile-stripnondeterminism-perl libfreetype6 libglib2.0-0
libgraphite2-3 libharfbuzz0b libicu-le-hb0 libicu60 liblocale-gettext-perl
libmagic-mgc libmagic1 libpipeline1 libsigsegv2 libtclap-dev
libtimedate-perl libtool libxml2 m4 man-db po-debconf
sbuild-build-depends-baitfisher-dummy
0 upgraded, 39 newly installed, 0 to remove and 74 not upgraded.
Need to get 19.0 MB/19.5 MB of archives.
After this operation, 68.3 MB of additional disk space will be used.
Get:1 copy:/<<BUILDDIR>>/resolver-rQwMDn/apt_archive ./ sbuild-build-depends-baitfisher-dummy 0.invalid.0 [876 B]
Get:2 http://172.17.0.1/private buster-staging/main armhf liblocale-gettext-perl armhf 1.07-3+b2 [18.3 kB]
Get:3 http://172.17.0.1/private buster-staging/main armhf libbsd0 armhf 0.9.1-1 [104 kB]
Get:4 http://172.17.0.1/private buster-staging/main armhf bsdmainutils armhf 11.1.2 [182 kB]
Get:5 http://172.17.0.1/private buster-staging/main armhf groff-base armhf 1.22.3-10 [1005 kB]
Get:6 http://172.17.0.1/private buster-staging/main armhf libpipeline1 armhf 1.5.0-1 [24.6 kB]
Get:7 http://172.17.0.1/private buster-staging/main armhf man-db armhf 2.8.4-2 [1161 kB]
Get:8 http://172.17.0.1/private buster-staging/main armhf libmagic-mgc armhf 1:5.34-2 [239 kB]
Get:9 http://172.17.0.1/private buster-staging/main armhf libmagic1 armhf 1:5.34-2 [107 kB]
Get:10 http://172.17.0.1/private buster-staging/main armhf file armhf 1:5.34-2 [65.0 kB]
Get:11 http://172.17.0.1/private buster-staging/main armhf gettext-base armhf 0.19.8.1-7 [117 kB]
Get:12 http://172.17.0.1/private buster-staging/main armhf libsigsegv2 armhf 2.12-2 [32.3 kB]
Get:13 http://172.17.0.1/private buster-staging/main armhf m4 armhf 1.4.18-1 [185 kB]
Get:14 http://172.17.0.1/private buster-staging/main armhf autoconf all 2.69-11 [341 kB]
Get:15 http://172.17.0.1/private buster-staging/main armhf autotools-dev all 20180224.1 [77.0 kB]
Get:16 http://172.17.0.1/private buster-staging/main armhf automake all 1:1.16.1-1.1 [771 kB]
Get:17 http://172.17.0.1/private buster-staging/main armhf autopoint all 0.19.8.1-7 [434 kB]
Get:18 http://172.17.0.1/private buster-staging/main armhf libtool all 2.4.6-4 [547 kB]
Get:19 http://172.17.0.1/private buster-staging/main armhf dh-autoreconf all 19 [16.9 kB]
Get:20 http://172.17.0.1/private buster-staging/main armhf libarchive-zip-perl all 1.64-1 [96.8 kB]
Get:21 http://172.17.0.1/private buster-staging/main armhf libfile-stripnondeterminism-perl all 0.042-1 [20.1 kB]
Get:22 http://172.17.0.1/private buster-staging/main armhf libtimedate-perl all 2.3000-2 [42.2 kB]
Get:23 http://172.17.0.1/private buster-staging/main armhf dh-strip-nondeterminism all 0.042-1 [12.1 kB]
Get:24 http://172.17.0.1/private buster-staging/main armhf libelf1 armhf 0.170-0.5 [160 kB]
Get:25 http://172.17.0.1/private buster-staging/main armhf dwz armhf 0.12-2 [67.4 kB]
Get:26 http://172.17.0.1/private buster-staging/main armhf libglib2.0-0 armhf 2.58.1-2 [1051 kB]
Get:27 http://172.17.0.1/private buster-staging/main armhf libgraphite2-3 armhf 1.3.12-1 [69.1 kB]
Get:28 http://172.17.0.1/private buster-staging/main armhf libharfbuzz0b armhf 1.8.8-2+rpi1 [860 kB]
Get:29 http://172.17.0.1/private buster-staging/main armhf libicu-le-hb0 armhf 1.0.3+git161113-5 [12.8 kB]
Get:30 http://172.17.0.1/private buster-staging/main armhf libicu60 armhf 60.2-6 [7789 kB]
Get:31 http://172.17.0.1/private buster-staging/main armhf libxml2 armhf 2.9.4+dfsg1-7 [602 kB]
Get:32 http://172.17.0.1/private buster-staging/main armhf gettext armhf 0.19.8.1-7 [1218 kB]
Get:33 http://172.17.0.1/private buster-staging/main armhf intltool-debian all 0.35.0+20060710.4 [26.3 kB]
Get:34 http://172.17.0.1/private buster-staging/main armhf po-debconf all 1.0.20 [247 kB]
Get:35 http://172.17.0.1/private buster-staging/main armhf debhelper all 11.3.5 [981 kB]
Get:36 http://172.17.0.1/private buster-staging/main armhf help2man armhf 1.47.7 [176 kB]
Get:37 http://172.17.0.1/private buster-staging/main armhf libtclap-dev armhf 1.2.2-1 [139 kB]
debconf: delaying package configuration, since apt-utils is not installed
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Unpacking libbsd0:armhf (0.9.1-1) ...
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Setting up libarchive-zip-perl (1.64-1) ...
Setting up libtimedate-perl (2.3000-2) ...
Setting up libsigsegv2:armhf (2.12-2) ...
Setting up libelf1:armhf (0.170-0.5) ...
Setting up groff-base (1.22.3-10) ...
Setting up libglib2.0-0:armhf (2.58.1-2) ...
No schema files found: removed existing output file.
Setting up libtclap-dev (1.2.2-1) ...
Setting up gettext-base (0.19.8.1-7) ...
Setting up libpipeline1:armhf (1.5.0-1) ...
Setting up m4 (1.4.18-1) ...
Setting up libbsd0:armhf (0.9.1-1) ...
Setting up libfreetype6:armhf (2.8.1-2) ...
Setting up libmagic-mgc (1:5.34-2) ...
Setting up libmagic1:armhf (1:5.34-2) ...
Setting up libgraphite2-3:armhf (1.3.12-1) ...
Processing triggers for libc-bin (2.27-5+rpi1) ...
Setting up dwz (0.12-2) ...
Setting up autotools-dev (20180224.1) ...
Setting up liblocale-gettext-perl (1.07-3+b2) ...
Setting up bsdmainutils (11.1.2) ...
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 autopoint (0.19.8.1-7) ...
Setting up libfile-stripnondeterminism-perl (0.042-1) ...
Setting up libharfbuzz0b:armhf (1.8.8-2+rpi1) ...
Setting up autoconf (2.69-11) ...
Setting up file (1:5.34-2) ...
Setting up automake (1:1.16.1-1.1) ...
update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode
Setting up help2man (1.47.7) ...
Setting up man-db (2.8.4-2) ...
Not building database; man-db/auto-update is not 'true'.
Setting up libtool (2.4.6-4) ...
Setting up libicu-le-hb0:armhf (1.0.3+git161113-5) ...
Setting up dh-strip-nondeterminism (0.042-1) ...
Setting up libicu60:armhf (60.2-6) ...
Setting up libxml2:armhf (2.9.4+dfsg1-7) ...
Setting up libcroco3:armhf (0.6.12-2) ...
Setting up gettext (0.19.8.1-7) ...
Setting up intltool-debian (0.35.0+20060710.4) ...
Setting up po-debconf (1.0.20) ...
Setting up debhelper (11.3.5) ...
Setting up dh-autoreconf (19) ...
Setting up sbuild-build-depends-baitfisher-dummy (0.invalid.0) ...
Processing triggers for libc-bin (2.27-5+rpi1) ...
W: No sandbox user '_apt' on the system, can not drop privileges
+------------------------------------------------------------------------------+
| Build environment |
+------------------------------------------------------------------------------+
Kernel: Linux 4.9.0-0.bpo.6-armmp armhf (armv7l)
Toolchain package versions: binutils_2.31.1-2+rpi1 dpkg-dev_1.19.0.5 g++-8_8.1.0-12+rpi1 gcc-8_8.1.0-12+rpi1 libc6-dev_2.27-5+rpi1 libstdc++-8-dev_8.1.0-12+rpi1 libstdc++6_8.1.0-12+rpi1 linux-libc-dev_4.16.16-2+rpi1
Package versions: adduser_3.117 apt_1.6.3 autoconf_2.69-11 automake_1:1.16.1-1.1 autopoint_0.19.8.1-7 autotools-dev_20180224.1 base-files_10.1+rpi1 base-passwd_3.5.45 bash_4.4.18-3.1 binutils_2.31.1-2+rpi1 binutils-arm-linux-gnueabihf_2.31.1-2+rpi1 binutils-common_2.31.1-2+rpi1 bsdmainutils_11.1.2 bsdutils_1:2.32.1-0.1 build-essential_12.5 bzip2_1.0.6-8.1 ca-certificates_20170717 coreutils_8.28-1 cpio_2.12+dfsg-6 cpp_4:8.1.0-1+rpi1 cpp-8_8.1.0-12+rpi1 dash_0.5.8-2.10 dbus_1.12.10-1 dbus-user-session_1.12.10-1 debconf_1.5.69 debhelper_11.3.5 debianutils_4.8.6 dh-autoreconf_19 dh-strip-nondeterminism_0.042-1 diffutils_1:3.6-1 dirmngr_2.2.9-1+rpi1 dmsetup_2:1.02.145-4.1+b4 dpkg_1.19.0.5 dpkg-dev_1.19.0.5 dwz_0.12-2 e2fslibs_1.44.3-1 e2fsprogs_1.44.3-1 e2fsprogs-l10n_1.44.3-1 fakeroot_1.23-1 fdisk_2.32.1-0.1 file_1:5.34-2 findutils_4.6.0+git+20171230-2 g++_4:8.1.0-1+rpi1 g++-8_8.1.0-12+rpi1 gcc_4:8.1.0-1+rpi1 gcc-4.6-base_4.6.4-5+rpi1 gcc-4.7-base_4.7.3-11+rpi1 gcc-4.8-base_4.8.5-4 gcc-4.9-base_4.9.4-2+rpi1+b19 gcc-5-base_5.5.0-8 gcc-8_8.1.0-12+rpi1 gcc-8-base_8.1.0-12+rpi1 gettext_0.19.8.1-7 gettext-base_0.19.8.1-7 gnupg_2.2.9-1+rpi1 gnupg-agent_2.2.9-1+rpi1 gnupg-l10n_2.2.9-1+rpi1 gnupg-utils_2.2.9-1+rpi1 gpg_2.2.9-1+rpi1 gpg-agent_2.2.9-1+rpi1 gpg-wks-client_2.2.9-1+rpi1 gpg-wks-server_2.2.9-1+rpi1 gpgconf_2.2.9-1+rpi1 gpgsm_2.2.9-1+rpi1 gpgv_2.2.9-1+rpi1 grep_3.1-2 groff-base_1.22.3-10 gzip_1.9-2 help2man_1.47.7 hostname_3.20 inetutils-ping_2:1.9.4-3 init-system-helpers_1.51 initramfs-tools_0.132 initramfs-tools-core_0.132 intltool-debian_0.35.0+20060710.4 klibc-utils_2.0.4-14+rpi1 kmod_25-1 libacl1_2.2.52-3 libapparmor1_2.13-8 libapt-pkg5.0_1.6.3 libarchive-zip-perl_1.64-1 libargon2-1_0~20171227-0.1 libasan5_8.1.0-12+rpi1 libassuan0_2.5.1-2 libatomic1_8.1.0-12+rpi1 libattr1_1:2.4.47-2 libaudit-common_1:2.8.3-1 libaudit1_1:2.8.3-1 libbinutils_2.31.1-2+rpi1 libblkid1_2.32.1-0.1 libbsd0_0.9.1-1 libbz2-1.0_1.0.6-8.1 libc-bin_2.27-5+rpi1 libc-dev-bin_2.27-5+rpi1 libc6_2.27-5+rpi1 libc6-dev_2.27-5+rpi1 libcap-ng0_0.7.9-1 libcap2_1:2.25-1.2 libcc1-0_8.1.0-12+rpi1 libcom-err2_1.44.3-1 libcroco3_0.6.12-2 libcryptsetup12_2:2.0.4-2 libcryptsetup4_2:1.7.5-1 libdb5.3_5.3.28-13.1 libdbus-1-3_1.12.10-1 libdebconfclient0_0.244 libdevmapper1.02.1_2:1.02.145-4.1+b4 libdpkg-perl_1.19.0.5 libdrm-common_2.4.92-1+rpi1 libdrm2_2.4.92-1+rpi1 libelf1_0.170-0.5 libexpat1_2.2.5-3 libext2fs2_1.44.3-1 libfakeroot_1.23-1 libfdisk1_2.32.1-0.1 libffi6_3.2.1-8 libfile-stripnondeterminism-perl_0.042-1 libfreetype6_2.8.1-2 libgcc-8-dev_8.1.0-12+rpi1 libgcc1_1:8.1.0-12+rpi1 libgcrypt20_1.8.3-1 libgdbm-compat4_1.14.1-6 libgdbm3_1.8.3-14 libgdbm5_1.14.1-6 libglib2.0-0_2.58.1-2 libgmp10_2:6.1.2+dfsg-3 libgnutls30_3.5.19-1 libgomp1_8.1.0-12+rpi1 libgpg-error0_1.32-1 libgraphite2-3_1.3.12-1 libharfbuzz0b_1.8.8-2+rpi1 libhogweed4_3.4-1 libicu-le-hb0_1.0.3+git161113-5 libicu60_60.2-6 libidn11_1.33-2.2 libidn2-0_2.0.4-2.2 libip4tc0_1.6.2-1.1 libisl19_0.20-1 libjson-c3_0.12.1-1.3 libklibc_2.0.4-14+rpi1 libkmod2_25-1 libksba8_1.3.5-2 libldap-2.4-2_2.4.46+dfsg-5+rpi1 libldap-common_2.4.46+dfsg-5+rpi1 liblocale-gettext-perl_1.07-3+b2 liblz4-1_1.8.2-1+rpi1 liblzma5_5.2.2-1.3 libmagic-mgc_1:5.34-2 libmagic1_1:5.34-2 libmount1_2.32.1-0.1 libmpc3_1.1.0-1 libmpfr6_4.0.1-1 libncurses5_6.1+20180714-1 libncurses6_6.1+20180714-1 libncursesw5_6.1+20180714-1 libncursesw6_6.1+20180714-1 libnettle6_3.4-1 libnpth0_1.6-1 libnss-systemd_239-7 libp11-kit0_0.23.12-2 libpam-modules_1.1.8-3.7 libpam-modules-bin_1.1.8-3.7 libpam-runtime_1.1.8-3.7 libpam-systemd_239-7 libpam0g_1.1.8-3.7 libpcre3_2:8.39-10 libperl5.24_5.24.1-7 libperl5.26_5.26.2-7 libpipeline1_1.5.0-1 libplymouth4_0.9.3-3 libpng16-16_1.6.34-2+rpi1 libprocps7_2:3.3.15-2 libreadline7_7.0-5 libsasl2-2_2.1.27~101-g0780600+dfsg-3.1 libsasl2-modules_2.1.27~101-g0780600+dfsg-3.1 libsasl2-modules-db_2.1.27~101-g0780600+dfsg-3.1 libseccomp2_2.3.3-3 libselinux1_2.8-1 libsemanage-common_2.8-1 libsemanage1_2.8-1 libsepol1_2.8-1 libsigsegv2_2.12-2 libsmartcols1_2.32.1-0.1 libsqlite3-0_3.24.0-1 libss2_1.44.3-1 libssl1.1_1.1.0h-4 libstdc++-8-dev_8.1.0-12+rpi1 libstdc++6_8.1.0-12+rpi1 libsystemd0_239-7 libtasn1-6_4.13-3 libtclap-dev_1.2.2-1 libtimedate-perl_2.3000-2 libtinfo5_6.1+20180714-1 libtinfo6_6.1+20180714-1 libtool_2.4.6-4 libubsan1_8.1.0-12+rpi1 libudev1_239-7 libunistring2_0.9.10-1 libustr-1.0-1_1.0.4-6 libuuid1_2.32.1-0.1 libxml2_2.9.4+dfsg1-7 libzstd1_1.3.4+dfsg-3+rpi1 linux-base_4.5 linux-libc-dev_4.16.16-2+rpi1 login_1:4.5-1.1 lsb-base_9.20170808+rpi1 m4_1.4.18-1 make_4.2.1-1.2 makedev_2.3.1-93 man-db_2.8.4-2 mawk_1.3.3-17 mount_2.32.1-0.1 multiarch-support_2.27-5+rpi1 nano_2.9.8-1 ncurses-base_6.1+20180714-1 ncurses-bin_6.1+20180714-1 netbase_5.4 openssl_1.1.0h-4 passwd_1:4.5-1.1 patch_2.7.6-3 perl_5.26.2-7 perl-base_5.26.2-7 perl-modules-5.24_5.24.1-7 perl-modules-5.26_5.26.2-7 pinentry-curses_1.1.0-1 plymouth_0.9.3-3 po-debconf_1.0.20 procps_2:3.3.15-2 raspbian-archive-keyring_20120528.2 readline-common_7.0-5 sbuild-build-depends-baitfisher-dummy_0.invalid.0 sbuild-build-depends-core-dummy_0.invalid.0 sed_4.5-1 sensible-utils_0.0.12 systemd_239-7 systemd-sysv_239-7 sysvinit-utils_2.88dsf-59.10 tar_1.30+dfsg-2 tzdata_2018e-1 udev_239-7 util-linux_2.32.1-0.1 xz-utils_5.2.2-1.3 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 Mon Sep 24 12:50:09 2018 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 ./baitfisher_1.2.7+git20180107.e92dbf2+dfsg-1.dsc
dpkg-source: info: extracting baitfisher in /<<BUILDDIR>>/baitfisher-1.2.7+git20180107.e92dbf2+dfsg
dpkg-source: info: unpacking baitfisher_1.2.7+git20180107.e92dbf2+dfsg.orig.tar.xz
dpkg-source: info: unpacking baitfisher_1.2.7+git20180107.e92dbf2+dfsg-1.debian.tar.xz
dpkg-source: info: applying fix_example.patch
Check disc space
----------------
Sufficient free space for build
User Environment
----------------
APT_CONFIG=/var/lib/sbuild/apt.conf
DEB_BUILD_OPTIONS=parallel=4
HOME=/sbuild-nonexistent
LC_ALL=POSIX
LOGNAME=buildd
PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games
SCHROOT_ALIAS_NAME=buster-staging-armhf-sbuild
SCHROOT_CHROOT_NAME=buster-staging-armhf-sbuild
SCHROOT_COMMAND=env
SCHROOT_GID=109
SCHROOT_GROUP=buildd
SCHROOT_SESSION_ID=buster-staging-armhf-sbuild-2d80325f-c0f8-4d70-be9d-435ee1d2923a
SCHROOT_UID=104
SCHROOT_USER=buildd
SHELL=/bin/sh
TERM=linux
USER=buildd
dpkg-buildpackage
-----------------
dpkg-buildpackage: info: source package baitfisher
dpkg-buildpackage: info: source version 1.2.7+git20180107.e92dbf2+dfsg-1
dpkg-buildpackage: info: source distribution unstable
dpkg-source --before-build baitfisher-1.2.7+git20180107.e92dbf2+dfsg
dpkg-buildpackage: info: host architecture armhf
fakeroot debian/rules clean
dh clean
dh_auto_clean
make -j4 clean
make[1]: Entering directory '/<<BUILDDIR>>/baitfisher-1.2.7+git20180107.e92dbf2+dfsg'
rm -f *.o
rm -f BaitFisher-v1.2.8
rm -f BaitFilter-v1.0.6
make[1]: Leaving directory '/<<BUILDDIR>>/baitfisher-1.2.7+git20180107.e92dbf2+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>>/baitfisher-1.2.7+git20180107.e92dbf2+dfsg'
g++ -Wdate-time -D_FORTIFY_SOURCE=2 -I . -O3 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/baitfisher-1.2.7+git20180107.e92dbf2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c bait-fisher-helper.cpp -o bait-fisher-helper.o
g++ -Wdate-time -D_FORTIFY_SOURCE=2 -I . -O3 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/baitfisher-1.2.7+git20180107.e92dbf2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c bait-fisher.cpp -o bait-fisher.o
g++ -Wdate-time -D_FORTIFY_SOURCE=2 -I . -O3 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/baitfisher-1.2.7+git20180107.e92dbf2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c Csequence_cluster_and_center_sequence.cpp -o Csequence_cluster_and_center_sequence.o
g++ -Wdate-time -D_FORTIFY_SOURCE=2 -I . -O3 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/baitfisher-1.2.7+git20180107.e92dbf2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c mydir-unix.cpp -o mydir-unix.o
g++ -Wdate-time -D_FORTIFY_SOURCE=2 -I . -O3 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/baitfisher-1.2.7+git20180107.e92dbf2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c bait-filter.cpp -o bait-filter.o
g++ -Wdate-time -D_FORTIFY_SOURCE=2 -I . -O3 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/baitfisher-1.2.7+git20180107.e92dbf2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c global-types-and-parameters.cpp -o global-types-and-parameters.o
In file included from /usr/include/c++/8/vector:69,
from faststring2.h:38,
from Csequence_cluster_and_center_sequence.h:36,
from Csequence_cluster_and_center_sequence.cpp:27:
/usr/include/c++/8/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {cluster_node}; _Tp = cluster_node; _Alloc = std::allocator<cluster_node>]':
/usr/include/c++/8/bits/vector.tcc:413:7: note: parameter passing for argument of type 'std::vector<cluster_node>::iterator' {aka '__gnu_cxx::__normal_iterator<cluster_node*, std::vector<cluster_node> >'} changed in GCC 7.1
vector<_Tp, _Alloc>::
^~~~~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {cluster_node}; _Tp = cluster_node; _Alloc = std::allocator<cluster_node>]':
/usr/include/c++/8/bits/vector.tcc:109:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<cluster_node*, std::vector<cluster_node> >' changed in GCC 7.1
_M_realloc_insert(end(), std::forward<_Args>(__args)...);
^~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/8/set:60,
from Csequence_cluster_and_center_sequence.h:31,
from Csequence_cluster_and_center_sequence.cpp:27:
/usr/include/c++/8/bits/stl_tree.h: In member function 'std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::iterator std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_emplace_hint_unique(std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::const_iterator, _Args&& ...) [with _Args = {const std::piecewise_construct_t&, std::tuple<long unsigned int&&>, std::tuple<>}; _Key = long unsigned int; _Val = std::pair<const long unsigned int, double>; _KeyOfValue = std::_Select1st<std::pair<const long unsigned int, double> >; _Compare = std::less<long unsigned int>; _Alloc = std::allocator<std::pair<const long unsigned int, double> >]':
/usr/include/c++/8/bits/stl_tree.h:2411:7: note: parameter passing for argument of type 'std::_Rb_tree<long unsigned int, std::pair<const long unsigned int, double>, std::_Select1st<std::pair<const long unsigned int, double> >, std::less<long unsigned int>, std::allocator<std::pair<const long unsigned int, double> > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<const long unsigned int, double> >'} changed in GCC 7.1
_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/8/map:61,
from statistic_functions.h:33,
from Csequence_cluster_and_center_sequence.h:39,
from Csequence_cluster_and_center_sequence.cpp:27:
/usr/include/c++/8/bits/stl_map.h: In member function 'void CDistance_Cluster::run_clustering(double)':
/usr/include/c++/8/bits/stl_map.h:518:8: note: parameter passing for argument of type 'std::_Rb_tree<long unsigned int, std::pair<const long unsigned int, double>, std::_Select1st<std::pair<const long unsigned int, double> >, std::less<long unsigned int>, std::allocator<std::pair<const long unsigned int, double> > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<const long unsigned int, double> >'} changed in GCC 7.1
__i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
/usr/include/c++/8/bits/stl_map.h:518:8: note: parameter passing for argument of type 'std::_Rb_tree<long unsigned int, std::pair<const long unsigned int, double>, std::_Select1st<std::pair<const long unsigned int, double> >, std::less<long unsigned int>, std::allocator<std::pair<const long unsigned int, double> > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<const long unsigned int, double> >'} changed in GCC 7.1
__i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
/usr/include/c++/8/bits/stl_map.h:518:8: note: parameter passing for argument of type 'std::_Rb_tree<long unsigned int, std::pair<const long unsigned int, double>, std::_Select1st<std::pair<const long unsigned int, double> >, std::less<long unsigned int>, std::allocator<std::pair<const long unsigned int, double> > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<const long unsigned int, double> >'} changed in GCC 7.1
__i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
/usr/include/c++/8/bits/stl_map.h:518:8: note: parameter passing for argument of type 'std::_Rb_tree<long unsigned int, std::pair<const long unsigned int, double>, std::_Select1st<std::pair<const long unsigned int, double> >, std::less<long unsigned int>, std::allocator<std::pair<const long unsigned int, double> > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<const long unsigned int, double> >'} changed in GCC 7.1
__i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
/usr/include/c++/8/bits/stl_map.h:518:8: note: parameter passing for argument of type 'std::_Rb_tree<long unsigned int, std::pair<const long unsigned int, double>, std::_Select1st<std::pair<const long unsigned int, double> >, std::less<long unsigned int>, std::allocator<std::pair<const long unsigned int, double> > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<const long unsigned int, double> >'} changed in GCC 7.1
__i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
/usr/include/c++/8/bits/stl_map.h:518:8: note: parameter passing for argument of type 'std::_Rb_tree<long unsigned int, std::pair<const long unsigned int, double>, std::_Select1st<std::pair<const long unsigned int, double> >, std::less<long unsigned int>, std::allocator<std::pair<const long unsigned int, double> > >::const_iterator' {aka 'std::_Rb_tree_const_iterator<std::pair<const long unsigned int, double> >'} changed in GCC 7.1
__i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
In file included from /usr/include/c++/8/vector:69,
from faststring2.h:38,
from bait-fisher.cpp:28:
/usr/include/c++/8/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/8/bits/vector.tcc:413:7: note: parameter passing for argument of type 'std::vector<double>::iterator' {aka '__gnu_cxx::__normal_iterator<double*, std::vector<double> >'} changed in GCC 7.1
vector<_Tp, _Alloc>::
^~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/8/vector:64,
from faststring2.h:38,
from bait-fisher.cpp:28:
/usr/include/c++/8/bits/stl_vector.h: In member function 'void CSeqNameList::add_unchecked(const faststring&, unsigned int, double, unsigned int, unsigned int)':
/usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
_M_realloc_insert(end(), __x);
^~~~~~~~~~~~~~~~~
/usr/include/c++/8/bits/stl_vector.h: In member function 'bool CSeqNameList::add_non_redundant(const CSeqNameList&, unsigned int)':
/usr/include/c++/8/bits/stl_vector.h:1085:4: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
_M_realloc_insert(end(), __x);
^~~~~~~~~~~~~~~~~
g++ -I . -O3 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/baitfisher-1.2.7+git20180107.e92dbf2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -lstdc++ bait-filter.o global-types-and-parameters.o -o BaitFilter-v1.0.6
g++ -I . -O3 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/baitfisher-1.2.7+git20180107.e92dbf2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -lstdc++ bait-fisher-helper.o bait-fisher.o Csequence_cluster_and_center_sequence.o mydir-unix.o -o BaitFisher-v1.2.8
make[1]: Leaving directory '/<<BUILDDIR>>/baitfisher-1.2.7+git20180107.e92dbf2+dfsg'
dh_auto_test -a
create-stamp debian/debhelper-build-stamp
fakeroot debian/rules binary-arch
dh binary-arch
dh_testroot -a
dh_prep -a
dh_installdirs -a
dh_auto_install -a
debian/rules override_dh_install
make[1]: Entering directory '/<<BUILDDIR>>/baitfisher-1.2.7+git20180107.e92dbf2+dfsg'
cp BaitFilter-v* debian/baitfisher/usr/bin/BaitFilter
cp BaitFisher-v* debian/baitfisher/usr/bin/BaitFisher
dh_install
for sh in `grep -Rl '#!/usr/bin/bash' debian/*/usr/*` ; do \
sed -i '1s?^#!/usr/bin/bash?#!/bin/bash?' ${sh} ; \
done
make[1]: Leaving directory '/<<BUILDDIR>>/baitfisher-1.2.7+git20180107.e92dbf2+dfsg'
dh_installdocs -a
dh_installchangelogs -a
dh_installexamples -a
debian/rules override_dh_installman
make[1]: Entering directory '/<<BUILDDIR>>/baitfisher-1.2.7+git20180107.e92dbf2+dfsg'
help2man --no-discard-stderr -o BaitFilter.1 ./BaitFilter-v*
help2man --no-discard-stderr -o BaitFisher.1 ./BaitFisher-v*
dh_installman
make[1]: Leaving directory '/<<BUILDDIR>>/baitfisher-1.2.7+git20180107.e92dbf2+dfsg'
dh_perl -a
dh_link -a
dh_strip_nondeterminism -a
dh_compress -a
dh_fixperms -a
dh_missing -a
dh_strip -a
dh_makeshlibs -a
dh_shlibdeps -a
dpkg-shlibdeps: warning: debian/baitfisher/usr/bin/BaitFilter contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/baitfisher/usr/bin/BaitFisher 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/baitfisher/usr/bin/BaitFilter debian/baitfisher/usr/bin/BaitFisher were not linked against ld-linux-armhf.so.3 (they use none of the library's symbols)
dh_installdeb -a
dh_gencontrol -a
dh_md5sums -a
dh_builddeb -a
dpkg-deb: building package 'baitfisher' in '../baitfisher_1.2.7+git20180107.e92dbf2+dfsg-1_armhf.deb'.
dpkg-deb: building package 'baitfisher-dbgsym' in '../baitfisher-dbgsym_1.2.7+git20180107.e92dbf2+dfsg-1_armhf.deb'.
dpkg-genbuildinfo --build=any
dpkg-genchanges --build=any -mRaspbian wandboard test autobuilder <root@raspbian.org> >../baitfisher_1.2.7+git20180107.e92dbf2+dfsg-1_armhf.changes
dpkg-genchanges: info: binary-only arch-specific upload (source code and arch-indep packages not included)
dpkg-source --after-build baitfisher-1.2.7+git20180107.e92dbf2+dfsg
dpkg-buildpackage: info: binary-only upload (no source included)
--------------------------------------------------------------------------------
Build finished at 2018-09-29T06:36:21Z
Finished
--------
I: Built successfully
+------------------------------------------------------------------------------+
| Post Build Chroot |
+------------------------------------------------------------------------------+
+------------------------------------------------------------------------------+
| Changes |
+------------------------------------------------------------------------------+
baitfisher_1.2.7+git20180107.e92dbf2+dfsg-1_armhf.changes:
----------------------------------------------------------
Format: 1.8
Date: Mon, 24 Sep 2018 14:45:13 +0200
Source: baitfisher
Binary: baitfisher
Architecture: armhf
Version: 1.2.7+git20180107.e92dbf2+dfsg-1
Distribution: buster-staging
Urgency: medium
Maintainer: Raspbian wandboard test autobuilder <root@raspbian.org>
Changed-By: Andreas Tille <tille@debian.org>
Description:
baitfisher - software package for designing hybrid enrichment probes
Closes: 852839
Changes:
baitfisher (1.2.7+git20180107.e92dbf2+dfsg-1) unstable; urgency=medium
.
* Team upload.
.
[ Steffen Moeller ]
* debian/upstream/metadata:
- Added registries
- yamllint cleanliness
.
[ Andreas Tille ]
* New upstream version
Closes: #852839
* Enable hardening (thanks for the patch to Juhani Numminen
<juhaninumminen0@gmail.com>)
* debhelper 11
* Point Vcs fields to salsa.debian.org
* Standards-Version: 4.2.1
* Fix interpreter path for bash in examples
* Git mode in watch file since upstream does not set release tags
* Overhaul Files-Excluded: Doc now comes with source, remove code copy
of libtclap-dev
* Build-Depends: libtclap-dev
* Fix examples
* Install doc
Checksums-Sha1:
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590c30b42447a87b05762e4df3ceb290b59d8c5c 160304 baitfisher_1.2.7+git20180107.e92dbf2+dfsg-1_armhf.deb
Checksums-Sha256:
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0414e8869acef5c169897490f3435aea2cac5cc34603f6663f3c4f7af891dcb2 4917 baitfisher_1.2.7+git20180107.e92dbf2+dfsg-1_armhf.buildinfo
4dde8b1cf806e39757540bb4692949ed7fdf25fda26e6a2119985125233b502c 160304 baitfisher_1.2.7+git20180107.e92dbf2+dfsg-1_armhf.deb
Files:
e420a93e66a811ebcce86c05f2446792 1867852 debug optional baitfisher-dbgsym_1.2.7+git20180107.e92dbf2+dfsg-1_armhf.deb
4d70f6f3e902fecbd908ef5f85dba7a8 4917 science optional baitfisher_1.2.7+git20180107.e92dbf2+dfsg-1_armhf.buildinfo
4c7ca251690f56c72d91532a9898b92e 160304 science optional baitfisher_1.2.7+git20180107.e92dbf2+dfsg-1_armhf.deb
+------------------------------------------------------------------------------+
| Package contents |
+------------------------------------------------------------------------------+
baitfisher-dbgsym_1.2.7+git20180107.e92dbf2+dfsg-1_armhf.deb
------------------------------------------------------------
new Debian package, version 2.0.
size 1867852 bytes: control archive=612 bytes.
474 bytes, 12 lines control
212 bytes, 2 lines md5sums
Package: baitfisher-dbgsym
Source: baitfisher
Version: 1.2.7+git20180107.e92dbf2+dfsg-1
Auto-Built-Package: debug-symbols
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 1915
Depends: baitfisher (= 1.2.7+git20180107.e92dbf2+dfsg-1)
Section: debug
Priority: optional
Description: debug symbols for baitfisher
Build-Ids: b91b0e71429443bc153f683c8c5c3e64136f12b0 d77e7cbcd26c1389a47d3c88a4b03d2add3f0735
drwxr-xr-x root/root 0 2018-09-24 12:45 ./
drwxr-xr-x root/root 0 2018-09-24 12:45 ./usr/
drwxr-xr-x root/root 0 2018-09-24 12:45 ./usr/lib/
drwxr-xr-x root/root 0 2018-09-24 12:45 ./usr/lib/debug/
drwxr-xr-x root/root 0 2018-09-24 12:45 ./usr/lib/debug/.build-id/
drwxr-xr-x root/root 0 2018-09-24 12:45 ./usr/lib/debug/.build-id/b9/
-rw-r--r-- root/root 1151672 2018-09-24 12:45 ./usr/lib/debug/.build-id/b9/1b0e71429443bc153f683c8c5c3e64136f12b0.debug
drwxr-xr-x root/root 0 2018-09-24 12:45 ./usr/lib/debug/.build-id/d7/
-rw-r--r-- root/root 797332 2018-09-24 12:45 ./usr/lib/debug/.build-id/d7/7e7cbcd26c1389a47d3c88a4b03d2add3f0735.debug
drwxr-xr-x root/root 0 2018-09-24 12:45 ./usr/share/
drwxr-xr-x root/root 0 2018-09-24 12:45 ./usr/share/doc/
lrwxrwxrwx root/root 0 2018-09-24 12:45 ./usr/share/doc/baitfisher-dbgsym -> baitfisher
baitfisher_1.2.7+git20180107.e92dbf2+dfsg-1_armhf.deb
-----------------------------------------------------
new Debian package, version 2.0.
size 160304 bytes: control archive=1536 bytes.
1717 bytes, 31 lines control
1155 bytes, 12 lines md5sums
Package: baitfisher
Version: 1.2.7+git20180107.e92dbf2+dfsg-1
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 428
Depends: libc6 (>= 2.4), libgcc1 (>= 1:3.5), libstdc++6 (>= 5.2)
Section: science
Priority: optional
Homepage: https://github.com/cmayer/BaitFisher-package
Description: software package for designing hybrid enrichment probes
The BaitFisher package consists of two programs: BaitFisher and BaitFilter.
.
BaitFisher was been designed to construct hybrid enrichment baits from
multiple sequence alignments (MSAs) or annotated features in MSAs. The main
goal of BaitFisher is to avoid redundancy in the construction of baits by
designing fewer baits in conserved regions of the MSAs and designing more baits
in variable regions. This makes use of the fact that hybrid enrichment baits
can differ to some extends from the target region, which they should capture
in the enrichment procedure.
By specifying the allowed distance between baits and the sequences in the MSAs
the user can control the allowed bait-to-target distance and the degree of
reduction in the number of baits that are designed.
See the BaitFisher paper for details.
.
BaitFilter was designed (i) to determine whether baits bind unspecifically to
a reference genome, (ii) to filter baits that only have partial length matches
to a reference genome, (iii) to determine the optimal bait region in a MSA and
to convert baits to a format that can be uploaded at a bait constructing
company. The optimal bait region can be the most conserved region in the MSA
or the region with the highest number of sequences without gaps or ambiguous
nucleotides.
drwxr-xr-x root/root 0 2018-09-24 12:45 ./
drwxr-xr-x root/root 0 2018-09-24 12:45 ./usr/
drwxr-xr-x root/root 0 2018-09-24 12:45 ./usr/bin/
-rwxr-xr-x root/root 165384 2018-09-24 12:45 ./usr/bin/BaitFilter
-rwxr-xr-x root/root 222732 2018-09-24 12:45 ./usr/bin/BaitFisher
drwxr-xr-x root/root 0 2018-09-24 12:45 ./usr/share/
drwxr-xr-x root/root 0 2018-09-24 12:45 ./usr/share/doc/
drwxr-xr-x root/root 0 2018-09-24 12:45 ./usr/share/doc/baitfisher/
-rw-r--r-- root/root 703 2018-09-24 12:45 ./usr/share/doc/baitfisher/changelog.Debian.gz
-rw-r--r-- root/root 1360 2018-09-24 12:45 ./usr/share/doc/baitfisher/copyright
drwxr-xr-x root/root 0 2018-09-24 12:45 ./usr/share/doc/baitfisher/examples/
drwxr-xr-x root/root 0 2018-09-24 12:45 ./usr/share/doc/baitfisher/examples/Example-without-alignment-cutting/
drwxr-xr-x root/root 0 2018-09-24 12:45 ./usr/share/doc/baitfisher/examples/Example-without-alignment-cutting/BaitFilter-analysis/
-rwxr-xr-x root/root 949 2018-09-24 12:45 ./usr/share/doc/baitfisher/examples/Example-without-alignment-cutting/BaitFilter-analysis/run-BaitFilter.sh
drwxr-xr-x root/root 0 2018-09-24 12:45 ./usr/share/doc/baitfisher/examples/Example-without-alignment-cutting/alignments/
-rw-r--r-- root/root 6420 2018-01-07 22:39 ./usr/share/doc/baitfisher/examples/Example-without-alignment-cutting/alignments/EOG505R03.fas.gz
-rw-r--r-- root/root 5509 2018-01-07 22:39 ./usr/share/doc/baitfisher/examples/Example-without-alignment-cutting/alignments/EOG57H4P2.fas.gz
-rw-r--r-- root/root 7475 2018-01-07 22:39 ./usr/share/doc/baitfisher/examples/Example-without-alignment-cutting/alignments/EOG5DV4JW.fas.gz
-rw-r--r-- root/root 2563 2018-01-07 22:39 ./usr/share/doc/baitfisher/examples/Example-without-alignment-cutting/parameter.txt
-rwxr-xr-x root/root 78 2018-09-24 12:45 ./usr/share/doc/baitfisher/examples/Example-without-alignment-cutting/run-example.sh
drwxr-xr-x root/root 0 2018-09-24 12:45 ./usr/share/man/
drwxr-xr-x root/root 0 2018-09-24 12:45 ./usr/share/man/man1/
-rw-r--r-- root/root 5068 2018-09-24 12:45 ./usr/share/man/man1/BaitFilter.1.gz
-rw-r--r-- root/root 366 2018-09-24 12:45 ./usr/share/man/man1/BaitFisher.1.gz
+------------------------------------------------------------------------------+
| Post Build |
+------------------------------------------------------------------------------+
+------------------------------------------------------------------------------+
| Cleanup |
+------------------------------------------------------------------------------+
Purging /<<BUILDDIR>>
Not cleaning session: cloned chroot in use
+------------------------------------------------------------------------------+
| Summary |
+------------------------------------------------------------------------------+
Build Architecture: armhf
Build-Space: 49124
Build-Time: 167
Distribution: buster-staging
Host Architecture: armhf
Install-Time: 386
Job: baitfisher_1.2.7+git20180107.e92dbf2+dfsg-1
Machine Architecture: armhf
Package: baitfisher
Package-Time: 618
Source-Version: 1.2.7+git20180107.e92dbf2+dfsg-1
Space: 49124
Status: successful
Version: 1.2.7+git20180107.e92dbf2+dfsg-1
--------------------------------------------------------------------------------
Finished at 2018-09-29T06:36:21Z
Build needed 00:10:18, 49124k disc space