clustalo →
1.2.4-6 →
armhf → 2020-05-13 05:24:03
sbuild (Debian sbuild) 0.71.0 (24 Aug 2016) on bm-wb-03
+==============================================================================+
| clustalo 1.2.4-6 (armhf) Wed, 13 May 2020 05:08:53 +0000 |
+==============================================================================+
Package: clustalo
Version: 1.2.4-6
Source Version: 1.2.4-6
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-e013429b-52c6-45fb-95a7-a067e6c098ed' 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 [11.7 MB]
Get:3 http://172.17.0.1/private bullseye-staging/main armhf Packages [12.8 MB]
Fetched 24.5 MB in 25s (990 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: 'clustalo' packaging is maintained in the 'Git' version control system at:
https://salsa.debian.org/med-team/clustalo.git
Please use:
git clone https://salsa.debian.org/med-team/clustalo.git
to retrieve the latest (possibly unreleased) updates to the package.
Need to get 1183 kB of source archives.
Get:1 http://172.17.0.1/private bullseye-staging/main clustalo 1.2.4-6 (dsc) [2178 B]
Get:2 http://172.17.0.1/private bullseye-staging/main clustalo 1.2.4-6 (tar) [1171 kB]
Get:3 http://172.17.0.1/private bullseye-staging/main clustalo 1.2.4-6 (diff) [10.7 kB]
Fetched 1183 kB in 0s (6431 kB/s)
Download complete and in download only mode
I: NOTICE: Log filtering will replace 'build/clustalo-THnUfe/clustalo-1.2.4' with '<<PKGBUILDDIR>>'
I: NOTICE: Log filtering will replace 'build/clustalo-THnUfe' 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-QKLvdb/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-QKLvdb/gpg/pubring.kbx' created
gpg: /<<BUILDDIR>>/resolver-QKLvdb/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-QKLvdb/apt_archive ./ InRelease
Get:2 copy:/<<BUILDDIR>>/resolver-QKLvdb/apt_archive ./ Release [957 B]
Get:3 copy:/<<BUILDDIR>>/resolver-QKLvdb/apt_archive ./ Release.gpg [370 B]
Get:4 copy:/<<BUILDDIR>>/resolver-QKLvdb/apt_archive ./ Sources [349 B]
Get:5 copy:/<<BUILDDIR>>/resolver-QKLvdb/apt_archive ./ Packages [431 B]
Fetched 2107 B in 1s (2843 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 4 not upgraded.
Need to get 852 B of archives.
After this operation, 0 B of additional disk space will be used.
Get:1 copy:/<<BUILDDIR>>/resolver-QKLvdb/apt_archive ./ sbuild-build-depends-core-dummy 0.invalid.0 [852 B]
debconf: delaying package configuration, since apt-utils is not installed
Fetched 852 B in 0s (22.1 kB/s)
Selecting previously unselected package sbuild-build-depends-core-dummy.
(Reading database ... 12234 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 all)
+------------------------------------------------------------------------------+
| Install package build dependencies |
+------------------------------------------------------------------------------+
Setup apt archive
-----------------
Merged Build-Depends: debhelper-compat (= 12), libargtable2-dev, doxygen, graphviz, sphinx-common
Filtered Build-Depends: debhelper-compat (= 12), libargtable2-dev, doxygen, graphviz, sphinx-common
dpkg-deb: building package 'sbuild-build-depends-clustalo-dummy' in '/<<BUILDDIR>>/resolver-QKLvdb/apt_archive/sbuild-build-depends-clustalo-dummy.deb'.
dpkg-scanpackages: warning: Packages in archive but missing from override file:
dpkg-scanpackages: warning: sbuild-build-depends-clustalo-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-QKLvdb/apt_archive ./ InRelease
Get:2 copy:/<<BUILDDIR>>/resolver-QKLvdb/apt_archive ./ Release [963 B]
Get:3 copy:/<<BUILDDIR>>/resolver-QKLvdb/apt_archive ./ Release.gpg [370 B]
Get:4 copy:/<<BUILDDIR>>/resolver-QKLvdb/apt_archive ./ Sources [529 B]
Get:5 copy:/<<BUILDDIR>>/resolver-QKLvdb/apt_archive ./ Packages [608 B]
Fetched 2470 B in 1s (3316 B/s)
Reading package lists...
W: No sandbox user '_apt' on the system, can not drop privileges
Reading package lists...
Install clustalo 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 doxygen dwz file fontconfig
fontconfig-config fonts-dejavu-core gettext gettext-base graphviz groff-base
intltool-debian libarchive-zip-perl libargtable2-0 libargtable2-dev
libargtable2-docs libbsd0 libcairo2 libcdt5 libcgraph6 libclang1-9 libcroco3
libdatrie1 libdebhelper-perl libedit2 libelf1 libexpat1
libfile-stripnondeterminism-perl libfontconfig1 libfreetype6 libfribidi0
libgd3 libglib2.0-0 libgraphite2-3 libgts-0.7-5 libgvc6 libgvpr2
libharfbuzz0b libice6 libicu63 libjbig0 libjpeg62-turbo libjs-jquery
libjs-sphinxdoc libjs-underscore liblab-gamut1 libllvm9 libltdl7
libmagic-mgc libmagic1 libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0
libpathplan4 libpipeline1 libpixman-1-0 libpng16-16 libsigsegv2 libsm6
libsub-override-perl libthai-data libthai0 libtiff5 libtinfo5 libtool
libuchardet0 libwebp6 libx11-6 libx11-data libxapian30 libxau6 libxaw7
libxcb-render0 libxcb-shm0 libxcb1 libxdmcp6 libxext6 libxml2 libxmu6
libxpm4 libxrender1 libxt6 libz3-4 m4 man-db node-jquery po-debconf
sensible-utils sphinx-common ucf x11-common
Suggested packages:
autoconf-archive gnu-standards autoconf-doc wamerican | wordlist whois
vacation dh-make doxygen-latex doxygen-doc doxygen-gui gettext-doc
libasprintf-dev libgettextpo-dev gsfonts graphviz-doc groff libgd-tools
libtool-doc gfortran | fortran95-compiler gcj-jdk xapian-tools m4-doc
apparmor less www-browser libmail-box-perl
Recommended packages:
curl | wget | lynx fonts-liberation libarchive-cpio-perl libglib2.0-data
shared-mime-info xdg-user-dirs libgts-bin javascript-common libltdl-dev
libmail-sendmail-perl python3-sphinx
The following NEW packages will be installed:
autoconf automake autopoint autotools-dev bsdmainutils debhelper
dh-autoreconf dh-strip-nondeterminism doxygen dwz file fontconfig
fontconfig-config fonts-dejavu-core gettext gettext-base graphviz groff-base
intltool-debian libarchive-zip-perl libargtable2-0 libargtable2-dev
libargtable2-docs libbsd0 libcairo2 libcdt5 libcgraph6 libclang1-9 libcroco3
libdatrie1 libdebhelper-perl libedit2 libelf1 libexpat1
libfile-stripnondeterminism-perl libfontconfig1 libfreetype6 libfribidi0
libgd3 libglib2.0-0 libgraphite2-3 libgts-0.7-5 libgvc6 libgvpr2
libharfbuzz0b libice6 libicu63 libjbig0 libjpeg62-turbo libjs-jquery
libjs-sphinxdoc libjs-underscore liblab-gamut1 libllvm9 libltdl7
libmagic-mgc libmagic1 libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0
libpathplan4 libpipeline1 libpixman-1-0 libpng16-16 libsigsegv2 libsm6
libsub-override-perl libthai-data libthai0 libtiff5 libtinfo5 libtool
libuchardet0 libwebp6 libx11-6 libx11-data libxapian30 libxau6 libxaw7
libxcb-render0 libxcb-shm0 libxcb1 libxdmcp6 libxext6 libxml2 libxmu6
libxpm4 libxrender1 libxt6 libz3-4 m4 man-db node-jquery po-debconf
sbuild-build-depends-clustalo-dummy sensible-utils sphinx-common ucf
x11-common
0 upgraded, 99 newly installed, 0 to remove and 4 not upgraded.
Need to get 66.4 MB of archives.
After this operation, 245 MB of additional disk space will be used.
Get:1 copy:/<<BUILDDIR>>/resolver-QKLvdb/apt_archive ./ sbuild-build-depends-clustalo-dummy 0.invalid.0 [892 B]
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 6.2-1 [318 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 1.22.4-5 [783 kB]
Get:7 http://172.17.0.1/private bullseye-staging/main armhf libpipeline1 armhf 1.5.2-2 [29.6 kB]
Get:8 http://172.17.0.1/private bullseye-staging/main armhf man-db armhf 2.9.1-1 [1262 kB]
Get:9 http://172.17.0.1/private bullseye-staging/main armhf sensible-utils all 0.0.12+nmu1 [16.0 kB]
Get:10 http://172.17.0.1/private bullseye-staging/main armhf libmagic-mgc armhf 1:5.38-4 [262 kB]
Get:11 http://172.17.0.1/private bullseye-staging/main armhf libmagic1 armhf 1:5.38-4 [112 kB]
Get:12 http://172.17.0.1/private bullseye-staging/main armhf file armhf 1:5.38-4 [66.9 kB]
Get:13 http://172.17.0.1/private bullseye-staging/main armhf gettext-base armhf 0.19.8.1-10 [117 kB]
Get:14 http://172.17.0.1/private bullseye-staging/main armhf ucf all 3.0038+nmu1 [69.0 kB]
Get:15 http://172.17.0.1/private bullseye-staging/main armhf libsigsegv2 armhf 2.12-2 [32.3 kB]
Get:16 http://172.17.0.1/private bullseye-staging/main armhf m4 armhf 1.4.18-4 [185 kB]
Get:17 http://172.17.0.1/private bullseye-staging/main armhf autoconf all 2.69-11.1 [341 kB]
Get:18 http://172.17.0.1/private bullseye-staging/main armhf autotools-dev all 20180224.1 [77.0 kB]
Get:19 http://172.17.0.1/private bullseye-staging/main armhf automake all 1:1.16.2-1 [775 kB]
Get:20 http://172.17.0.1/private bullseye-staging/main armhf autopoint all 0.19.8.1-10 [435 kB]
Get:21 http://172.17.0.1/private bullseye-staging/main armhf libtool all 2.4.6-14 [513 kB]
Get:22 http://172.17.0.1/private bullseye-staging/main armhf dh-autoreconf all 19 [16.9 kB]
Get:23 http://172.17.0.1/private bullseye-staging/main armhf libdebhelper-perl all 13 [184 kB]
Get:24 http://172.17.0.1/private bullseye-staging/main armhf libarchive-zip-perl all 1.68-1 [104 kB]
Get:25 http://172.17.0.1/private bullseye-staging/main armhf libsub-override-perl all 0.09-2 [10.2 kB]
Get:26 http://172.17.0.1/private bullseye-staging/main armhf libfile-stripnondeterminism-perl all 1.8.0-1 [24.2 kB]
Get:27 http://172.17.0.1/private bullseye-staging/main armhf dh-strip-nondeterminism all 1.8.0-1 [14.8 kB]
Get:28 http://172.17.0.1/private bullseye-staging/main armhf libelf1 armhf 0.176-1.1 [158 kB]
Get:29 http://172.17.0.1/private bullseye-staging/main armhf dwz armhf 0.13-5 [142 kB]
Get:30 http://172.17.0.1/private bullseye-staging/main armhf libglib2.0-0 armhf 2.64.2-1 [1158 kB]
Get:31 http://172.17.0.1/private bullseye-staging/main armhf libicu63 armhf 63.2-3 [7987 kB]
Get:32 http://172.17.0.1/private bullseye-staging/main armhf libxml2 armhf 2.9.10+dfsg-5 [592 kB]
Get:33 http://172.17.0.1/private bullseye-staging/main armhf libcroco3 armhf 0.6.13-1 [133 kB]
Get:34 http://172.17.0.1/private bullseye-staging/main armhf gettext armhf 0.19.8.1-10 [1219 kB]
Get:35 http://172.17.0.1/private bullseye-staging/main armhf intltool-debian all 0.35.0+20060710.5 [26.8 kB]
Get:36 http://172.17.0.1/private bullseye-staging/main armhf po-debconf all 1.0.21 [248 kB]
Get:37 http://172.17.0.1/private bullseye-staging/main armhf debhelper all 13 [1002 kB]
Get:38 http://172.17.0.1/private bullseye-staging/main armhf libedit2 armhf 3.1-20191231-1 [79.2 kB]
Get:39 http://172.17.0.1/private bullseye-staging/main armhf libz3-4 armhf 4.8.7-4 [5477 kB]
Get:40 http://172.17.0.1/private bullseye-staging/main armhf libllvm9 armhf 1:9.0.1-12+rpi1 [13.1 MB]
Get:41 http://172.17.0.1/private bullseye-staging/main armhf libclang1-9 armhf 1:9.0.1-12+rpi1 [5584 kB]
Get:42 http://172.17.0.1/private bullseye-staging/main armhf libxapian30 armhf 1.4.15-1 [951 kB]
Get:43 http://172.17.0.1/private bullseye-staging/main armhf doxygen armhf 1.8.17-1 [7672 kB]
Get:44 http://172.17.0.1/private bullseye-staging/main armhf libexpat1 armhf 2.2.9-1 [71.5 kB]
Get:45 http://172.17.0.1/private bullseye-staging/main armhf libpng16-16 armhf 1.6.37-2 [274 kB]
Get:46 http://172.17.0.1/private bullseye-staging/main armhf libfreetype6 armhf 2.10.1-2 [330 kB]
Get:47 http://172.17.0.1/private bullseye-staging/main armhf fonts-dejavu-core all 2.37-1 [1068 kB]
Get:48 http://172.17.0.1/private bullseye-staging/main armhf fontconfig-config all 2.13.1-4 [281 kB]
Get:49 http://172.17.0.1/private bullseye-staging/main armhf libfontconfig1 armhf 2.13.1-4 [328 kB]
Get:50 http://172.17.0.1/private bullseye-staging/main armhf fontconfig armhf 2.13.1-4 [415 kB]
Get:51 http://172.17.0.1/private bullseye-staging/main armhf libcdt5 armhf 2.42.2-4 [58.4 kB]
Get:52 http://172.17.0.1/private bullseye-staging/main armhf libcgraph6 armhf 2.42.2-4 [78.1 kB]
Get:53 http://172.17.0.1/private bullseye-staging/main armhf libjpeg62-turbo armhf 1:1.5.2-2+b1 [110 kB]
Get:54 http://172.17.0.1/private bullseye-staging/main armhf libjbig0 armhf 2.1-3.1+b2 [27.6 kB]
Get:55 http://172.17.0.1/private bullseye-staging/main armhf libwebp6 armhf 0.6.1-2 [228 kB]
Get:56 http://172.17.0.1/private bullseye-staging/main armhf libtiff5 armhf 4.1.0+git191117-2 [250 kB]
Get:57 http://172.17.0.1/private bullseye-staging/main armhf libxau6 armhf 1:1.0.8-1+b2 [19.1 kB]
Get:58 http://172.17.0.1/private bullseye-staging/main armhf libxdmcp6 armhf 1:1.1.2-3 [25.0 kB]
Get:59 http://172.17.0.1/private bullseye-staging/main armhf libxcb1 armhf 1.14-2 [135 kB]
Get:60 http://172.17.0.1/private bullseye-staging/main armhf libx11-data all 2:1.6.9-2 [298 kB]
Get:61 http://172.17.0.1/private bullseye-staging/main armhf libx11-6 armhf 2:1.6.9-2 [692 kB]
Get:62 http://172.17.0.1/private bullseye-staging/main armhf libxpm4 armhf 1:3.5.12-1 [43.6 kB]
Get:63 http://172.17.0.1/private bullseye-staging/main armhf libgd3 armhf 2.2.5-5.2 [115 kB]
Get:64 http://172.17.0.1/private bullseye-staging/main armhf libgts-0.7-5 armhf 0.7.6+darcs121130-4 [134 kB]
Get:65 http://172.17.0.1/private bullseye-staging/main armhf libpixman-1-0 armhf 0.36.0-1 [458 kB]
Get:66 http://172.17.0.1/private bullseye-staging/main armhf libxcb-render0 armhf 1.14-2 [110 kB]
Get:67 http://172.17.0.1/private bullseye-staging/main armhf libxcb-shm0 armhf 1.14-2 [101 kB]
Get:68 http://172.17.0.1/private bullseye-staging/main armhf libxext6 armhf 2:1.3.3-1+b2 [47.8 kB]
Get:69 http://172.17.0.1/private bullseye-staging/main armhf libxrender1 armhf 1:0.9.10-1 [29.9 kB]
Get:70 http://172.17.0.1/private bullseye-staging/main armhf libcairo2 armhf 1.16.0-4 [599 kB]
Get:71 http://172.17.0.1/private bullseye-staging/main armhf libltdl7 armhf 2.4.6-14 [388 kB]
Get:72 http://172.17.0.1/private bullseye-staging/main armhf libfribidi0 armhf 1.0.8-2 [63.5 kB]
Get:73 http://172.17.0.1/private bullseye-staging/main armhf libgraphite2-3 armhf 1.3.14-1 [70.3 kB]
Get:74 http://172.17.0.1/private bullseye-staging/main armhf libharfbuzz0b armhf 2.6.4-1+rpi1 [1308 kB]
Get:75 http://172.17.0.1/private bullseye-staging/main armhf libthai-data all 0.1.28-3 [170 kB]
Get:76 http://172.17.0.1/private bullseye-staging/main armhf libdatrie1 armhf 0.2.12-3+b1 [36.4 kB]
Get:77 http://172.17.0.1/private bullseye-staging/main armhf libthai0 armhf 0.1.28-3 [51.0 kB]
Get:78 http://172.17.0.1/private bullseye-staging/main armhf libpango-1.0-0 armhf 1.44.7-4 [165 kB]
Get:79 http://172.17.0.1/private bullseye-staging/main armhf libpangoft2-1.0-0 armhf 1.44.7-4 [52.6 kB]
Get:80 http://172.17.0.1/private bullseye-staging/main armhf libpangocairo-1.0-0 armhf 1.44.7-4 [44.9 kB]
Get:81 http://172.17.0.1/private bullseye-staging/main armhf libpathplan4 armhf 2.42.2-4 [61.7 kB]
Get:82 http://172.17.0.1/private bullseye-staging/main armhf libgvc6 armhf 2.42.2-4 [585 kB]
Get:83 http://172.17.0.1/private bullseye-staging/main armhf libgvpr2 armhf 2.42.2-4 [185 kB]
Get:84 http://172.17.0.1/private bullseye-staging/main armhf liblab-gamut1 armhf 2.42.2-4 [220 kB]
Get:85 http://172.17.0.1/private bullseye-staging/main armhf x11-common all 1:7.7+20 [252 kB]
Get:86 http://172.17.0.1/private bullseye-staging/main armhf libice6 armhf 2:1.0.9-2 [51.6 kB]
Get:87 http://172.17.0.1/private bullseye-staging/main armhf libsm6 armhf 2:1.2.3-1 [32.9 kB]
Get:88 http://172.17.0.1/private bullseye-staging/main armhf libxt6 armhf 1:1.1.5-1+b3 [156 kB]
Get:89 http://172.17.0.1/private bullseye-staging/main armhf libxmu6 armhf 2:1.1.2-2+b3 [52.1 kB]
Get:90 http://172.17.0.1/private bullseye-staging/main armhf libxaw7 armhf 2:1.0.13-1+b2 [163 kB]
Get:91 http://172.17.0.1/private bullseye-staging/main armhf graphviz armhf 2.42.2-4 [500 kB]
Get:92 http://172.17.0.1/private bullseye-staging/main armhf libargtable2-0 armhf 13-1 [15.9 kB]
Get:93 http://172.17.0.1/private bullseye-staging/main armhf libargtable2-docs all 13-1 [2621 kB]
Get:94 http://172.17.0.1/private bullseye-staging/main armhf libargtable2-dev armhf 13-1 [55.7 kB]
Get:95 http://172.17.0.1/private bullseye-staging/main armhf node-jquery all 3.5.1+dfsg-3 [309 kB]
Get:96 http://172.17.0.1/private bullseye-staging/main armhf libjs-jquery all 3.5.1+dfsg-3 [3548 B]
Get:97 http://172.17.0.1/private bullseye-staging/main armhf libjs-underscore all 1.9.1~dfsg-1 [99.4 kB]
Get:98 http://172.17.0.1/private bullseye-staging/main armhf libjs-sphinxdoc all 2.4.3-2 [110 kB]
Get:99 http://172.17.0.1/private bullseye-staging/main armhf sphinx-common all 2.4.3-2 [550 kB]
debconf: delaying package configuration, since apt-utils is not installed
Fetched 66.4 MB in 5s (12.9 MB/s)
Selecting previously unselected package libbsd0:armhf.
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Setting up libjs-jquery (3.5.1+dfsg-3) ...
Setting up libsm6:armhf (2:1.2.3-1) ...
Setting up libllvm9:armhf (1:9.0.1-12+rpi1) ...
Setting up automake (1:1.16.2-1) ...
update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode
Setting up gettext (0.19.8.1-10) ...
Setting up libxpm4:armhf (1:3.5.12-1) ...
Setting up libxrender1:armhf (1:0.9.10-1) ...
Setting up libclang1-9 (1:9.0.1-12+rpi1) ...
Setting up fontconfig-config (2.13.1-4) ...
Setting up libxext6:armhf (2:1.3.3-1+b2) ...
Setting up man-db (2.9.1-1) ...
Not building database; man-db/auto-update is not 'true'.
Setting up intltool-debian (0.35.0+20060710.5) ...
Setting up doxygen (1.8.17-1) ...
Setting up libxt6:armhf (1:1.1.5-1+b3) ...
Setting up libjs-sphinxdoc (2.4.3-2) ...
Setting up libfontconfig1:armhf (2.13.1-4) ...
Setting up fontconfig (2.13.1-4) ...
Regenerating fonts cache... done.
Setting up libxmu6:armhf (2:1.1.2-2+b3) ...
Setting up po-debconf (1.0.21) ...
Setting up libpango-1.0-0:armhf (1.44.7-4) ...
Setting up libxaw7:armhf (2:1.0.13-1+b2) ...
Setting up libcairo2:armhf (1.16.0-4) ...
Setting up sphinx-common (2.4.3-2) ...
Setting up libgd3:armhf (2.2.5-5.2) ...
Setting up libpangoft2-1.0-0:armhf (1.44.7-4) ...
Setting up libpangocairo-1.0-0:armhf (1.44.7-4) ...
Setting up libgvc6 (2.42.2-4) ...
Setting up graphviz (2.42.2-4) ...
Setting up debhelper (13) ...
Setting up dh-autoreconf (19) ...
Setting up sbuild-build-depends-clustalo-dummy (0.invalid.0) ...
Processing triggers for libc-bin (2.30-7+rpi1) ...
W: No sandbox user '_apt' on the system, can not drop privileges
+------------------------------------------------------------------------------+
| Build environment |
+------------------------------------------------------------------------------+
Kernel: Linux 4.9.0-0.bpo.2-armmp armhf (armv7l)
Toolchain package versions: binutils_2.34-5+rpi1 dpkg-dev_1.19.7 g++-9_9.3.0-11+rpi1 gcc-9_9.3.0-11+rpi1 libc6-dev_2.30-7+rpi1 libstdc++-9-dev_9.3.0-11+rpi1 libstdc++6_10-20200418-1+rpi1 linux-libc-dev_5.2.17-1+rpi1+b2
Package versions: adduser_3.118 apt_2.1.0 autoconf_2.69-11.1 automake_1:1.16.2-1 autopoint_0.19.8.1-10 autotools-dev_20180224.1 base-files_11+rpi1 base-passwd_3.5.47 bash_5.0-6 binutils_2.34-5+rpi1 binutils-arm-linux-gnueabihf_2.34-5+rpi1 binutils-common_2.34-5+rpi1 bsdmainutils_11.1.2 bsdutils_1:2.35.1-2 build-essential_12.8 bzip2_1.0.8-2 coreutils_8.30-3 cpp_4:9.2.1-3.1+rpi1 cpp-9_9.3.0-11+rpi1 dash_0.5.10.2-7 debconf_1.5.74 debhelper_13 debianutils_4.9.1 dh-autoreconf_19 dh-strip-nondeterminism_1.8.0-1 diffutils_1:3.7-3 dirmngr_2.2.20-1 doxygen_1.8.17-1 dpkg_1.19.7 dpkg-dev_1.19.7 dwz_0.13-5 e2fsprogs_1.45.6-1 fakeroot_1.24-1 fdisk_2.35.1-2 file_1:5.38-4 findutils_4.7.0-1 fontconfig_2.13.1-4 fontconfig-config_2.13.1-4 fonts-dejavu-core_2.37-1 g++_4:9.2.1-3.1+rpi1 g++-9_9.3.0-11+rpi1 gcc_4:9.2.1-3.1+rpi1 gcc-10-base_10-20200418-1+rpi1 gcc-6-base_6.5.0-1+rpi3 gcc-7-base_7.5.0-5 gcc-8-base_8.4.0-3+rpi1 gcc-9_9.3.0-11+rpi1 gcc-9-base_9.3.0-11+rpi1 gettext_0.19.8.1-10 gettext-base_0.19.8.1-10 gnupg_2.2.20-1 gnupg-l10n_2.2.20-1 gnupg-utils_2.2.20-1 gpg_2.2.20-1 gpg-agent_2.2.20-1 gpg-wks-client_2.2.20-1 gpg-wks-server_2.2.20-1 gpgconf_2.2.20-1 gpgsm_2.2.20-1 gpgv_2.2.20-1 graphviz_2.42.2-4 grep_3.4-1 groff-base_1.22.4-5 gzip_1.10-2 hostname_3.23 init-system-helpers_1.57 intltool-debian_0.35.0+20060710.5 libacl1_2.2.53-8 libapt-pkg6.0_2.1.0 libarchive-zip-perl_1.68-1 libargtable2-0_13-1 libargtable2-dev_13-1 libargtable2-docs_13-1 libasan5_9.3.0-11+rpi1 libassuan0_2.5.3-7 libatomic1_10-20200418-1+rpi1 libattr1_1:2.4.48-5 libaudit-common_1:2.8.5-3 libaudit1_1:2.8.5-3 libbinutils_2.34-5+rpi1 libblkid1_2.35.1-2 libbsd0_0.10.0-1 libbz2-1.0_1.0.8-2 libc-bin_2.30-7+rpi1 libc-dev-bin_2.30-7+rpi1 libc6_2.30-7+rpi1 libc6-dev_2.30-7+rpi1 libcairo2_1.16.0-4 libcap-ng0_0.7.9-2.1+b1 libcc1-0_10-20200418-1+rpi1 libcdt5_2.42.2-4 libcgraph6_2.42.2-4 libclang1-9_1:9.0.1-12+rpi1 libcom-err2_1.45.6-1 libcroco3_0.6.13-1 libcrypt-dev_1:4.4.16-1 libcrypt1_1:4.4.16-1 libctf-nobfd0_2.34-5+rpi1 libctf0_2.34-5+rpi1 libdatrie1_0.2.12-3+b1 libdb5.3_5.3.28+dfsg1-0.6 libdebconfclient0_0.251 libdebhelper-perl_13 libdpkg-perl_1.19.7 libedit2_3.1-20191231-1 libelf1_0.176-1.1 libexpat1_2.2.9-1 libext2fs2_1.45.6-1 libfakeroot_1.24-1 libfdisk1_2.35.1-2 libffi7_3.3-4 libfile-stripnondeterminism-perl_1.8.0-1 libfontconfig1_2.13.1-4 libfreetype6_2.10.1-2 libfribidi0_1.0.8-2 libgcc-9-dev_9.3.0-11+rpi1 libgcc-s1_10-20200418-1+rpi1 libgcc1_1:10-20200418-1+rpi1 libgcrypt20_1.8.5-5 libgd3_2.2.5-5.2 libgdbm-compat4_1.18.1-5 libgdbm6_1.18.1-5 libglib2.0-0_2.64.2-1 libgmp10_2:6.2.0+dfsg-4 libgnutls30_3.6.13-2 libgomp1_10-20200418-1+rpi1 libgpg-error0_1.37-1 libgraphite2-3_1.3.14-1 libgts-0.7-5_0.7.6+darcs121130-4 libgvc6_2.42.2-4 libgvpr2_2.42.2-4 libharfbuzz0b_2.6.4-1+rpi1 libhogweed5_3.5.1+really3.5.1-2 libice6_2:1.0.9-2 libicu63_63.2-3 libidn2-0_2.3.0-1 libisl22_0.22.1-1 libjbig0_2.1-3.1+b2 libjpeg62-turbo_1:1.5.2-2+b1 libjs-jquery_3.5.1+dfsg-3 libjs-sphinxdoc_2.4.3-2 libjs-underscore_1.9.1~dfsg-1 libksba8_1.3.5-2 liblab-gamut1_2.42.2-4 libldap-2.4-2_2.4.50+dfsg-1 libldap-common_2.4.50+dfsg-1 libllvm9_1:9.0.1-12+rpi1 liblocale-gettext-perl_1.07-4 libltdl7_2.4.6-14 liblz4-1_1.9.2-2 liblzma5_5.2.4-1 libmagic-mgc_1:5.38-4 libmagic1_1:5.38-4 libmount1_2.35.1-2 libmpc3_1.1.0-1 libmpfr6_4.0.2-1 libncursesw6_6.2-1 libnettle7_3.5.1+really3.5.1-2 libnpth0_1.6-1 libp11-kit0_0.23.20-1 libpam-modules_1.3.1-5 libpam-modules-bin_1.3.1-5 libpam-runtime_1.3.1-5 libpam0g_1.3.1-5 libpango-1.0-0_1.44.7-4 libpangocairo-1.0-0_1.44.7-4 libpangoft2-1.0-0_1.44.7-4 libpathplan4_2.42.2-4 libpcre2-8-0_10.34-7 libpcre3_2:8.39-12 libperl5.30_5.30.0-10 libpipeline1_1.5.2-2 libpixman-1-0_0.36.0-1 libpng16-16_1.6.37-2 libreadline8_8.0-4 libsasl2-2_2.1.27+dfsg-2 libsasl2-modules-db_2.1.27+dfsg-2 libseccomp2_2.4.3-1+rpi1 libselinux1_3.0-1+b1 libsemanage-common_3.0-1 libsemanage1_3.0-1+b1 libsepol1_3.0-1 libsigsegv2_2.12-2 libsm6_2:1.2.3-1 libsmartcols1_2.35.1-2 libsqlite3-0_3.31.1-5 libss2_1.45.6-1 libstdc++-9-dev_9.3.0-11+rpi1 libstdc++6_10-20200418-1+rpi1 libsub-override-perl_0.09-2 libsystemd0_245.5-1+rpi1 libtasn1-6_4.16.0-2 libtext-charwidth-perl_0.04-10 libtext-iconv-perl_1.7-7 libthai-data_0.1.28-3 libthai0_0.1.28-3 libtiff5_4.1.0+git191117-2 libtinfo5_6.2-1 libtinfo6_6.2-1 libtool_2.4.6-14 libubsan1_10-20200418-1+rpi1 libuchardet0_0.0.6-3 libudev1_245.5-1+rpi1 libunistring2_0.9.10-2 libuuid1_2.35.1-2 libwebp6_0.6.1-2 libx11-6_2:1.6.9-2 libx11-data_2:1.6.9-2 libxapian30_1.4.15-1 libxau6_1:1.0.8-1+b2 libxaw7_2:1.0.13-1+b2 libxcb-render0_1.14-2 libxcb-shm0_1.14-2 libxcb1_1.14-2 libxdmcp6_1:1.1.2-3 libxext6_2:1.3.3-1+b2 libxml2_2.9.10+dfsg-5 libxmu6_2:1.1.2-2+b3 libxpm4_1:3.5.12-1 libxrender1_1:0.9.10-1 libxt6_1:1.1.5-1+b3 libz3-4_4.8.7-4 libzstd1_1.4.4+dfsg-3+rpi1 linux-libc-dev_5.2.17-1+rpi1+b2 login_1:4.8.1-1 logsave_1.45.6-1 lsb-base_11.1.0+rpi1 m4_1.4.18-4 make_4.2.1-2 man-db_2.9.1-1 mawk_1.3.4.20200120-2 mount_2.35.1-2 ncurses-base_6.2-1 ncurses-bin_6.2-1 netbase_6.1 node-jquery_3.5.1+dfsg-3 passwd_1:4.8.1-1 patch_2.7.6-6 perl_5.30.0-10 perl-base_5.30.0-10 perl-modules-5.30_5.30.0-10 pinentry-curses_1.1.0-4 po-debconf_1.0.21 raspbian-archive-keyring_20120528.2 readline-common_8.0-4 sbuild-build-depends-clustalo-dummy_0.invalid.0 sbuild-build-depends-core-dummy_0.invalid.0 sed_4.7-1 sensible-utils_0.0.12+nmu1 sphinx-common_2.4.3-2 sysvinit-utils_2.96-3 tar_1.30+dfsg-7 tzdata_2020a-1 ucf_3.0038+nmu1 util-linux_2.35.1-2 x11-common_1:7.7+20 xz-utils_5.2.4-1 zlib1g_1:1.2.11.dfsg-2
+------------------------------------------------------------------------------+
| Build |
+------------------------------------------------------------------------------+
Unpack source
-------------
gpgv: unknown type of key resource 'trustedkeys.kbx'
gpgv: keyblock resource '/sbuild-nonexistent/.gnupg/trustedkeys.kbx': General error
gpgv: Signature made Sun May 10 18:09:41 2020 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 ./clustalo_1.2.4-6.dsc
dpkg-source: info: extracting clustalo in /<<PKGBUILDDIR>>
dpkg-source: info: unpacking clustalo_1.2.4.orig.tar.gz
dpkg-source: info: unpacking clustalo_1.2.4-6.debian.tar.xz
dpkg-source: info: using patch list from debian/patches/series
dpkg-source: info: applying clustalo-log-format-calls.patch
dpkg-source: info: applying array_out_of_bounds.patch
dpkg-source: info: applying memory_leak.patch
dpkg-source: info: applying fix_syntax.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=root
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=109
SCHROOT_GROUP=buildd
SCHROOT_SESSION_ID=bullseye-staging-armhf-sbuild-e013429b-52c6-45fb-95a7-a067e6c098ed
SCHROOT_UID=104
SCHROOT_USER=buildd
SHELL=/bin/sh
TERM=xterm
USER=buildd
dpkg-buildpackage
-----------------
dpkg-buildpackage: info: source package clustalo
dpkg-buildpackage: info: source version 1.2.4-6
dpkg-buildpackage: info: source distribution unstable
dpkg-source --before-build .
dpkg-buildpackage: info: host architecture armhf
debian/rules clean
dh clean
debian/rules override_dh_clean
make[1]: Entering directory '/<<PKGBUILDDIR>>'
dh_clean
rm -f _configs.sed
rm -rf doc
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
debian/rules binary-arch
dh binary-arch
dh_update_autotools_config -a
dh_autoreconf -a
configure.ac:150: warning: AC_LANG_CONFTEST: no AC_LANG_SOURCE call detected in body
../../lib/autoconf/lang.m4:193: AC_LANG_CONFTEST is expanded from...
../../lib/autoconf/general.m4:2672: _AC_LINK_IFELSE is expanded from...
../../lib/autoconf/general.m4:2689: AC_LINK_IFELSE is expanded from...
m4/libtool.m4:1022: _LT_SYS_MODULE_PATH_AIX is expanded from...
m4/libtool.m4:4170: _LT_LINKER_SHLIBS is expanded from...
m4/libtool.m4:5249: _LT_LANG_C_CONFIG is expanded from...
m4/libtool.m4:138: _LT_SETUP is expanded from...
m4/libtool.m4:67: LT_INIT is expanded from...
configure.ac:150: the top level
configure.ac:150: warning: AC_LANG_CONFTEST: no AC_LANG_SOURCE call detected in body
../../lib/autoconf/lang.m4:193: AC_LANG_CONFTEST is expanded from...
../../lib/autoconf/general.m4:2672: _AC_LINK_IFELSE is expanded from...
../../lib/autoconf/general.m4:2689: AC_LINK_IFELSE is expanded from...
m4/libtool.m4:4170: _LT_LINKER_SHLIBS is expanded from...
m4/libtool.m4:5249: _LT_LANG_C_CONFIG is expanded from...
m4/libtool.m4:138: _LT_SETUP is expanded from...
m4/libtool.m4:67: LT_INIT is expanded from...
configure.ac:150: the top level
configure.ac:172: warning: AC_LANG_CONFTEST: no AC_LANG_SOURCE call detected in body
../../lib/autoconf/lang.m4:193: AC_LANG_CONFTEST is expanded from...
../../lib/autoconf/general.m4:2672: _AC_LINK_IFELSE is expanded from...
../../lib/autoconf/general.m4:2689: AC_LINK_IFELSE is expanded from...
m4/libtool.m4:1022: _LT_SYS_MODULE_PATH_AIX is expanded from...
m4/libtool.m4:5356: _LT_LANG_CXX_CONFIG is expanded from...
m4/libtool.m4:785: _LT_LANG is expanded from...
m4/libtool.m4:768: LT_LANG is expanded from...
configure.ac:172: the top level
configure.ac:150: warning: AC_LANG_CONFTEST: no AC_LANG_SOURCE call detected in body
../../lib/autoconf/lang.m4:193: AC_LANG_CONFTEST is expanded from...
../../lib/autoconf/general.m4:2672: _AC_LINK_IFELSE is expanded from...
../../lib/autoconf/general.m4:2689: AC_LINK_IFELSE is expanded from...
m4/libtool.m4:1022: _LT_SYS_MODULE_PATH_AIX is expanded from...
m4/libtool.m4:4170: _LT_LINKER_SHLIBS is expanded from...
m4/libtool.m4:5249: _LT_LANG_C_CONFIG is expanded from...
m4/libtool.m4:138: _LT_SETUP is expanded from...
m4/libtool.m4:67: LT_INIT is expanded from...
configure.ac:150: the top level
configure.ac:150: warning: AC_LANG_CONFTEST: no AC_LANG_SOURCE call detected in body
../../lib/autoconf/lang.m4:193: AC_LANG_CONFTEST is expanded from...
../../lib/autoconf/general.m4:2672: _AC_LINK_IFELSE is expanded from...
../../lib/autoconf/general.m4:2689: AC_LINK_IFELSE is expanded from...
m4/libtool.m4:4170: _LT_LINKER_SHLIBS is expanded from...
m4/libtool.m4:5249: _LT_LANG_C_CONFIG is expanded from...
m4/libtool.m4:138: _LT_SETUP is expanded from...
m4/libtool.m4:67: LT_INIT is expanded from...
configure.ac:150: the top level
configure.ac:172: warning: AC_LANG_CONFTEST: no AC_LANG_SOURCE call detected in body
../../lib/autoconf/lang.m4:193: AC_LANG_CONFTEST is expanded from...
../../lib/autoconf/general.m4:2672: _AC_LINK_IFELSE is expanded from...
../../lib/autoconf/general.m4:2689: AC_LINK_IFELSE is expanded from...
m4/libtool.m4:1022: _LT_SYS_MODULE_PATH_AIX is expanded from...
m4/libtool.m4:5356: _LT_LANG_CXX_CONFIG is expanded from...
m4/libtool.m4:785: _LT_LANG is expanded from...
m4/libtool.m4:768: LT_LANG is expanded from...
configure.ac:172: the top level
configure.ac:150: warning: AC_LANG_CONFTEST: no AC_LANG_SOURCE call detected in body
../../lib/autoconf/lang.m4:193: AC_LANG_CONFTEST is expanded from...
../../lib/autoconf/general.m4:2672: _AC_LINK_IFELSE is expanded from...
../../lib/autoconf/general.m4:2689: AC_LINK_IFELSE is expanded from...
m4/libtool.m4:1022: _LT_SYS_MODULE_PATH_AIX is expanded from...
m4/libtool.m4:4170: _LT_LINKER_SHLIBS is expanded from...
m4/libtool.m4:5249: _LT_LANG_C_CONFIG is expanded from...
m4/libtool.m4:138: _LT_SETUP is expanded from...
m4/libtool.m4:67: LT_INIT is expanded from...
configure.ac:150: the top level
configure.ac:150: warning: AC_LANG_CONFTEST: no AC_LANG_SOURCE call detected in body
../../lib/autoconf/lang.m4:193: AC_LANG_CONFTEST is expanded from...
../../lib/autoconf/general.m4:2672: _AC_LINK_IFELSE is expanded from...
../../lib/autoconf/general.m4:2689: AC_LINK_IFELSE is expanded from...
m4/libtool.m4:4170: _LT_LINKER_SHLIBS is expanded from...
m4/libtool.m4:5249: _LT_LANG_C_CONFIG is expanded from...
m4/libtool.m4:138: _LT_SETUP is expanded from...
m4/libtool.m4:67: LT_INIT is expanded from...
configure.ac:150: the top level
configure.ac:172: warning: AC_LANG_CONFTEST: no AC_LANG_SOURCE call detected in body
../../lib/autoconf/lang.m4:193: AC_LANG_CONFTEST is expanded from...
../../lib/autoconf/general.m4:2672: _AC_LINK_IFELSE is expanded from...
../../lib/autoconf/general.m4:2689: AC_LINK_IFELSE is expanded from...
m4/libtool.m4:1022: _LT_SYS_MODULE_PATH_AIX is expanded from...
m4/libtool.m4:5356: _LT_LANG_CXX_CONFIG is expanded from...
m4/libtool.m4:785: _LT_LANG is expanded from...
m4/libtool.m4:768: LT_LANG is expanded from...
configure.ac:172: the top level
libtoolize: putting auxiliary files in '.'.
libtoolize: copying file './ltmain.sh'
libtoolize: putting macros in AC_CONFIG_MACRO_DIRS, 'm4'.
libtoolize: copying file 'm4/libtool.m4'
libtoolize: copying file 'm4/ltoptions.m4'
libtoolize: copying file 'm4/ltsugar.m4'
libtoolize: copying file 'm4/ltversion.m4'
libtoolize: copying file 'm4/lt~obsolete.m4'
configure.ac:133: installing './compile'
configure.ac:115: installing './missing'
src/Makefile.am: installing './depcomp'
dh_auto_configure -a
./configure --build=arm-linux-gnueabihf --prefix=/usr --includedir=\${prefix}/include --mandir=\${prefix}/share/man --infodir=\${prefix}/share/info --sysconfdir=/etc --localstatedir=/var --disable-silent-rules --libdir=\${prefix}/lib/arm-linux-gnueabihf --runstatedir=/run --disable-maintainer-mode --disable-dependency-tracking
configure: WARNING: unrecognized options: --disable-maintainer-mode
configure:
Welcome to Clustal Omega - version 1.2.4 (AndreaGiacomo)
+NMMMMMMMMMS=
MMMMM? :MMMMM8
IMMMMS MMMMM,
~MMMMN ,MMMMM
=MMMMM MMMMM
?MMMMM +MMMMM
MMMMMS MMMMM
MMMMM MMMMM:
MMMMM MMMMM+
MMMMM MMMMM~
MMMMM MMMMM
MMMMMZ MMMMM
MMMMM ,MMMMZ
MMMM8 MMMM+
MMMMS MMMM,
MMMMO MMMM
,N SMMM MMM8 +8
,M7 M+ M+ :M8
,MMMMMMMMMMMMI MMMMMMMMMMMM8
,MMMMMMMMMMMM8 MMMMMMMMMMMM8
,MMMMMMMMMMMMN MMMMMMMMMMMM8
checking for a BSD-compatible install... /usr/bin/install -c
checking whether build environment is sane... yes
checking for a thread-safe mkdir -p... /bin/mkdir -p
checking for gawk... no
checking for mawk... mawk
checking whether make sets $(MAKE)... yes
checking whether make supports nested variables... yes
checking whether make supports the include directive... yes (GNU style)
checking for gcc... gcc
checking whether the C compiler works... yes
checking for C compiler default output file name... a.out
checking for suffix of executables...
checking whether we are cross compiling... no
checking for suffix of object files... o
checking whether we are using the GNU C compiler... yes
checking whether gcc accepts -g... yes
checking for gcc option to accept ISO C89... none needed
checking whether gcc understands -c and -o together... yes
checking dependency style of gcc... none
checking how to run the C preprocessor... gcc -E
checking for grep that handles long lines and -e... /bin/grep
checking for egrep... /bin/grep -E
checking for ANSI C header files... yes
checking for sys/types.h... yes
checking for sys/stat.h... yes
checking for stdlib.h... yes
checking for string.h... yes
checking for memory.h... yes
checking for strings.h... yes
checking for inttypes.h... yes
checking for stdint.h... yes
checking for unistd.h... yes
checking minix/config.h usability... no
checking minix/config.h presence... no
checking for minix/config.h... no
checking whether it is safe to define __EXTENSIONS__... yes
checking build system type... arm-unknown-linux-gnueabihf
checking host system type... arm-unknown-linux-gnueabihf
checking whether make sets $(MAKE)... (cached) yes
checking how to print strings... printf
checking for a sed that does not truncate output... /bin/sed
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checking for ld used by gcc... /usr/bin/ld
checking if the linker (/usr/bin/ld) is GNU ld... yes
checking for BSD- or MS-compatible name lister (nm)... /usr/bin/nm -B
checking the name lister (/usr/bin/nm -B) interface... BSD nm
checking whether ln -s works... yes
checking the maximum length of command line arguments... 1572864
checking how to convert arm-unknown-linux-gnueabihf file names to arm-unknown-linux-gnueabihf format... func_convert_file_noop
checking how to convert arm-unknown-linux-gnueabihf file names to toolchain format... func_convert_file_noop
checking for /usr/bin/ld option to reload object files... -r
checking for objdump... objdump
checking how to recognize dependent libraries... pass_all
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checking how to associate runtime and link libraries... printf %s\n
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checking command to parse /usr/bin/nm -B output from gcc object... ok
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configure: creating ./config.status
config.status: creating Makefile
config.status: creating src/Makefile
config.status: creating clustalo.pc
config.status: creating Doxyfile
config.status: creating src/clustal/Makefile
config.status: creating src/hhalign/Makefile
config.status: creating src/kmpp/Makefile
config.status: creating src/squid/Makefile
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config.status: executing depfiles commands
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configure: WARNING: unrecognized options: --disable-maintainer-mode
dh_auto_build -a
make -j4
make[1]: Entering directory '/<<PKGBUILDDIR>>'
Making all in src
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make all-recursive
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libtool: compile: g++ -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -fno-strict-aliasing -DCLUSTALO -DCLUSTALO_NOFILE -DDEFAULT_FILTER=90 -fopenmp -O3 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c hhalign.cpp -o hhalign.o >/dev/null 2>&1
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libtool: link: ranlib .libs/libhhalign.a
libtool: link: ( cd ".libs" && rm -f "libhhalign.la" && ln -s "../libhhalign.la" "libhhalign.la" )
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Making all in squid
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libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DCLUSTALO -O3 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c aligneval.c -o aligneval.o >/dev/null 2>&1
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DCLUSTALO -O3 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c cluster.c -fPIC -DPIC -o .libs/cluster.o
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DCLUSTALO -O3 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c clustal.c -o clustal.o >/dev/null 2>&1
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DCLUSTALO -O3 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c alignio.c -o alignio.o >/dev/null 2>&1
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libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DCLUSTALO -O3 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c dayhoff.c -fPIC -DPIC -o .libs/dayhoff.o
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DCLUSTALO -O3 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c cluster.c -o cluster.o >/dev/null 2>&1
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libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DCLUSTALO -O3 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c dayhoff.c -o dayhoff.o >/dev/null 2>&1
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libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DCLUSTALO -O3 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c eps.c -o eps.o >/dev/null 2>&1
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libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DCLUSTALO -O3 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c file.c -fPIC -DPIC -o .libs/file.o
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/bin/bash ../../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DCLUSTALO -O3 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o gki.lo gki.c
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libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DCLUSTALO -O3 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c getopt.c -fPIC -DPIC -o .libs/getopt.o
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DCLUSTALO -O3 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c gki.c -fPIC -DPIC -o .libs/gki.o
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DCLUSTALO -O3 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c gsi.c -fPIC -DPIC -o .libs/gsi.o
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DCLUSTALO -O3 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c file.c -o file.o >/dev/null 2>&1
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DCLUSTALO -O3 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c getopt.c -o getopt.o >/dev/null 2>&1
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libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DCLUSTALO -O3 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c gki.c -o gki.o >/dev/null 2>&1
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DCLUSTALO -O3 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c gsi64.c -fPIC -DPIC -o .libs/gsi64.o
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DCLUSTALO -O3 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c gsi64.c -o gsi64.o >/dev/null 2>&1
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libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DCLUSTALO -O3 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c iupac.c -fPIC -DPIC -o .libs/iupac.o
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libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DCLUSTALO -O3 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c msa.c -fPIC -DPIC -o .libs/msa.o
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libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DCLUSTALO -O3 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c phylip.c -fPIC -DPIC -o .libs/phylip.o
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Making all in kmpp
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libtool: compile: g++ -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -DCLUSTALO -O3 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c KmTree.cpp -o KmTree.o >/dev/null 2>&1
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libtool: link: ar cr .libs/libkmpp.a .libs/KMeans.o .libs/KmTree.o .libs/KmUtils.o
libtool: link: ranlib .libs/libkmpp.a
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make[4]: Leaving directory '/<<PKGBUILDDIR>>/src/kmpp'
Making all in clustal
make[4]: Entering directory '/<<PKGBUILDDIR>>/src/clustal'
/bin/bash ../../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -O3 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o hhalign_wrapper.lo hhalign_wrapper.c
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libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -O3 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c hhalign_wrapper.c -fPIC -DPIC -o .libs/hhalign_wrapper.o
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libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -O3 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c log.c -fPIC -DPIC -o .libs/log.o
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -O3 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c list.c -o list.o >/dev/null 2>&1
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -O3 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c log.c -o log.o >/dev/null 2>&1
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/bin/bash ../../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -O3 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o muscle_tree.lo muscle_tree.c
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -O3 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c muscle_upgma.c -fPIC -DPIC -o .libs/muscle_upgma.o
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -O3 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c muscle_tree.c -fPIC -DPIC -o .libs/muscle_tree.o
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -O3 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c muscle_upgma.c -o muscle_upgma.o >/dev/null 2>&1
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -O3 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c ktuple_pair.c -o ktuple_pair.o >/dev/null 2>&1
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libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -O3 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c mbed.c -fPIC -DPIC -o .libs/mbed.o
/bin/bash ../../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -O3 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o pair_dist.lo pair_dist.c
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -O3 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c pair_dist.c -fPIC -DPIC -o .libs/pair_dist.o
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -O3 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c muscle_tree.c -o muscle_tree.o >/dev/null 2>&1
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -O3 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c hhalign_wrapper.c -o hhalign_wrapper.o >/dev/null 2>&1
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -O3 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c pair_dist.c -o pair_dist.o >/dev/null 2>&1
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -O3 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c mbed.c -o mbed.o >/dev/null 2>&1
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libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -O3 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c progress.c -fPIC -DPIC -o .libs/progress.o
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -O3 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c progress.c -o progress.o >/dev/null 2>&1
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/bin/bash ../../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -O3 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o symmatrix.lo symmatrix.c
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -O3 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c seq.c -fPIC -DPIC -o .libs/seq.o
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -O3 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c symmatrix.c -fPIC -DPIC -o .libs/symmatrix.o
/bin/bash ../../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -O3 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o tree.lo tree.c
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -O3 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c tree.c -fPIC -DPIC -o .libs/tree.o
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -O3 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c symmatrix.c -o symmatrix.o >/dev/null 2>&1
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -O3 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c tree.c -o tree.o >/dev/null 2>&1
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/bin/bash ../../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -O3 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o weights.lo weights.c
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -O3 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c util.c -fPIC -DPIC -o .libs/util.o
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -O3 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c weights.c -fPIC -DPIC -o .libs/weights.o
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -O3 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c seq.c -o seq.o >/dev/null 2>&1
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -O3 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c util.c -o util.o >/dev/null 2>&1
libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../../src -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -O3 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c weights.c -o weights.o >/dev/null 2>&1
/bin/bash ../../libtool --tag=CC --mode=link gcc -fopenmp -O3 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -o libclustal.la hhalign_wrapper.lo ktuple_pair.lo list.lo log.lo muscle_upgma.lo muscle_tree.lo mbed.lo pair_dist.lo progress.lo seq.lo symmatrix.lo tree.lo util.lo weights.lo -largtable2 -lm
libtool: link: ar cr .libs/libclustal.a .libs/hhalign_wrapper.o .libs/ktuple_pair.o .libs/list.o .libs/log.o .libs/muscle_upgma.o .libs/muscle_tree.o .libs/mbed.o .libs/pair_dist.o .libs/progress.o .libs/seq.o .libs/symmatrix.o .libs/tree.o .libs/util.o .libs/weights.o
libtool: link: ranlib .libs/libclustal.a
libtool: link: ( cd ".libs" && rm -f "libclustal.la" && ln -s "../libclustal.la" "libclustal.la" )
make[4]: Leaving directory '/<<PKGBUILDDIR>>/src/clustal'
make[4]: Entering directory '/<<PKGBUILDDIR>>/src'
g++ -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -fopenmp -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o main.o main.cpp
gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -fopenmp -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o mymain.o mymain.c
/bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -fopenmp -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c -o clustal-omega.lo clustal-omega.c
libtool: compile: gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -fopenmp -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c clustal-omega.c -fPIC -DPIC -o .libs/clustal-omega.o
clustal-omega.c: In function 'PrintLongVersion':
clustal-omega.c:152:49: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time]
152 | PACKAGE_VERSION, PACKAGE_CODENAME, __DATE__);
| ^~~~~~~~
libtool: compile: gcc -DHAVE_CONFIG_H -I. -Wdate-time -D_FORTIFY_SOURCE=2 -O3 -fopenmp -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -c clustal-omega.c -o clustal-omega.o >/dev/null 2>&1
/bin/bash ../libtool --tag=CC --mode=link gcc -O3 -fopenmp -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -static -Wl,-z,relro -Wl,-z,now -o libclustalo.la -rpath /usr/lib/arm-linux-gnueabihf clustal-omega.lo clustal/libclustal.la hhalign/libhhalign.la squid/libsquid.la kmpp/libkmpp.la -largtable2 -lm
libtool: link: (cd .libs/libclustalo.lax/libclustal.a && ar x "/<<PKGBUILDDIR>>/src/clustal/.libs/libclustal.a")
libtool: link: (cd .libs/libclustalo.lax/libhhalign.a && ar x "/<<PKGBUILDDIR>>/src/hhalign/.libs/libhhalign.a")
libtool: link: (cd .libs/libclustalo.lax/libsquid.a && ar x "/<<PKGBUILDDIR>>/src/squid/.libs/libsquid.a")
libtool: link: (cd .libs/libclustalo.lax/libkmpp.a && ar x "/<<PKGBUILDDIR>>/src/kmpp/.libs/libkmpp.a")
libtool: link: ar cr .libs/libclustalo.a clustal-omega.o .libs/libclustalo.lax/libclustal.a/hhalign_wrapper.o .libs/libclustalo.lax/libclustal.a/ktuple_pair.o .libs/libclustalo.lax/libclustal.a/list.o .libs/libclustalo.lax/libclustal.a/log.o .libs/libclustalo.lax/libclustal.a/mbed.o .libs/libclustalo.lax/libclustal.a/muscle_tree.o .libs/libclustalo.lax/libclustal.a/muscle_upgma.o .libs/libclustalo.lax/libclustal.a/pair_dist.o .libs/libclustalo.lax/libclustal.a/progress.o .libs/libclustalo.lax/libclustal.a/seq.o .libs/libclustalo.lax/libclustal.a/symmatrix.o .libs/libclustalo.lax/libclustal.a/tree.o .libs/libclustalo.lax/libclustal.a/util.o .libs/libclustalo.lax/libclustal.a/weights.o .libs/libclustalo.lax/libhhalign.a/hhalign.o .libs/libclustalo.lax/libsquid.a/a2m.o .libs/libclustalo.lax/libsquid.a/aligneval.o .libs/libclustalo.lax/libsquid.a/alignio.o .libs/libclustalo.lax/libsquid.a/clustal.o .libs/libclustalo.lax/libsquid.a/cluster.o .libs/libclustalo.lax/libsquid.a/dayhoff.o .libs/libclustalo.lax/libsquid.a/eps.o .libs/libclustalo.lax/libsquid.a/file.o .libs/libclustalo.lax/libsquid.a/getopt.o .libs/libclustalo.lax/libsquid.a/gki.o .libs/libclustalo.lax/libsquid.a/gsi.o .libs/libclustalo.lax/libsquid.a/gsi64.o .libs/libclustalo.lax/libsquid.a/hsregex.o .libs/libclustalo.lax/libsquid.a/iupac.o .libs/libclustalo.lax/libsquid.a/msa.o .libs/libclustalo.lax/libsquid.a/msf.o .libs/libclustalo.lax/libsquid.a/phylip.o .libs/libclustalo.lax/libsquid.a/revcomp.o .libs/libclustalo.lax/libsquid.a/rk.o .libs/libclustalo.lax/libsquid.a/selex.o .libs/libclustalo.lax/libsquid.a/seqencode.o .libs/libclustalo.lax/libsquid.a/shuffle.o .libs/libclustalo.lax/libsquid.a/sqerror.o .libs/libclustalo.lax/libsquid.a/sqio.o .libs/libclustalo.lax/libsquid.a/squidcore.o .libs/libclustalo.lax/libsquid.a/sre_ctype.o .libs/libclustalo.lax/libsquid.a/sre_math.o .libs/libclustalo.lax/libsquid.a/sre_random.o .libs/libclustalo.lax/libsquid.a/sre_string.o .libs/libclustalo.lax/libsquid.a/ssi.o .libs/libclustalo.lax/libsquid.a/stack.o .libs/libclustalo.lax/libsquid.a/stockholm.o .libs/libclustalo.lax/libsquid.a/stopwatch.o .libs/libclustalo.lax/libsquid.a/translate.o .libs/libclustalo.lax/libsquid.a/types.o .libs/libclustalo.lax/libsquid.a/vectorops.o .libs/libclustalo.lax/libsquid.a/weight.o .libs/libclustalo.lax/libkmpp.a/KMeans.o .libs/libclustalo.lax/libkmpp.a/KmTree.o .libs/libclustalo.lax/libkmpp.a/KmUtils.o
libtool: link: ranlib .libs/libclustalo.a
libtool: link: rm -fr .libs/libclustalo.lax
libtool: link: ( cd ".libs" && rm -f "libclustalo.la" && ln -s "../libclustalo.la" "libclustalo.la" )
/bin/bash ../libtool --tag=CXX --mode=link g++ -O3 -fopenmp -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -o clustalo main.o mymain.o libclustalo.la -largtable2 -lm
libtool: link: g++ -O3 -fopenmp -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z -Wl,relro -Wl,-z -Wl,now -o clustalo main.o mymain.o ./.libs/libclustalo.a /usr/lib/arm-linux-gnueabihf/libargtable2.so -lm -fopenmp
/usr/bin/ld: ./.libs/libclustalo.a(clustal-omega.o): in function `AlnToHHMFile':
./src/clustal-omega.c:393: warning: the use of `mktemp' is dangerous, better use `mkstemp' or `mkdtemp'
make[4]: Leaving directory '/<<PKGBUILDDIR>>/src'
make[3]: Leaving directory '/<<PKGBUILDDIR>>/src'
make[2]: Leaving directory '/<<PKGBUILDDIR>>/src'
make[2]: Entering directory '/<<PKGBUILDDIR>>'
make[2]: Nothing to be done for 'all-am'.
make[2]: Leaving directory '/<<PKGBUILDDIR>>'
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
debian/rules override_dh_auto_test-arch
make[1]: Entering directory '/<<PKGBUILDDIR>>'
dh_auto_test -a
make -j4 check VERBOSE=1
make[2]: Entering directory '/<<PKGBUILDDIR>>'
Making check in src
make[3]: Entering directory '/<<PKGBUILDDIR>>/src'
Making check in hhalign
make[4]: Entering directory '/<<PKGBUILDDIR>>/src/hhalign'
make[4]: Nothing to be done for 'check'.
make[4]: Leaving directory '/<<PKGBUILDDIR>>/src/hhalign'
Making check in squid
make[4]: Entering directory '/<<PKGBUILDDIR>>/src/squid'
make[4]: Nothing to be done for 'check'.
make[4]: Leaving directory '/<<PKGBUILDDIR>>/src/squid'
Making check in kmpp
make[4]: Entering directory '/<<PKGBUILDDIR>>/src/kmpp'
make[4]: Nothing to be done for 'check'.
make[4]: Leaving directory '/<<PKGBUILDDIR>>/src/kmpp'
Making check in clustal
make[4]: Entering directory '/<<PKGBUILDDIR>>/src/clustal'
make[4]: Nothing to be done for 'check'.
make[4]: Leaving directory '/<<PKGBUILDDIR>>/src/clustal'
make[4]: Entering directory '/<<PKGBUILDDIR>>/src'
make[4]: Leaving directory '/<<PKGBUILDDIR>>/src'
make[3]: Leaving directory '/<<PKGBUILDDIR>>/src'
make[3]: Entering directory '/<<PKGBUILDDIR>>'
make[3]: Nothing to be done for 'check-am'.
make[3]: Leaving directory '/<<PKGBUILDDIR>>'
make[2]: Leaving directory '/<<PKGBUILDDIR>>'
# Run additional test from python-biopython package to verify that
# this will work as well
src/clustalo -i debian/tests/biopython_testdata/f002 --guidetree-out temp_test.dnd -o temp_test.aln --outfmt clustal --force
rm temp_test.aln temp_test.dnd
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
create-stamp debian/debhelper-build-stamp
dh_testroot -a
dh_prep -a
dh_installdirs -a
debian/rules override_dh_auto_install-arch
make[1]: Entering directory '/<<PKGBUILDDIR>>'
dh_auto_install -a
make -j1 install DESTDIR=/<<PKGBUILDDIR>>/debian/tmp AM_UPDATE_INFO_DIR=no
make[2]: Entering directory '/<<PKGBUILDDIR>>'
Making install in src
make[3]: Entering directory '/<<PKGBUILDDIR>>/src'
Making install in hhalign
make[4]: Entering directory '/<<PKGBUILDDIR>>/src/hhalign'
make[5]: Entering directory '/<<PKGBUILDDIR>>/src/hhalign'
make[5]: Nothing to be done for 'install-exec-am'.
/bin/mkdir -p '/<<PKGBUILDDIR>>/debian/tmp/usr/include/clustalo/hhalign'
/usr/bin/install -c -m 644 general.h hhfunc.h '/<<PKGBUILDDIR>>/debian/tmp/usr/include/clustalo/hhalign'
make[5]: Leaving directory '/<<PKGBUILDDIR>>/src/hhalign'
make[4]: Leaving directory '/<<PKGBUILDDIR>>/src/hhalign'
Making install in squid
make[4]: Entering directory '/<<PKGBUILDDIR>>/src/squid'
make[5]: Entering directory '/<<PKGBUILDDIR>>/src/squid'
make[5]: Nothing to be done for 'install-exec-am'.
/bin/mkdir -p '/<<PKGBUILDDIR>>/debian/tmp/usr/include/clustalo/squid'
/usr/bin/install -c -m 644 gki.h gsi64.h msa.h rk.h squid.h stopwatch.h sqfuncs.h sre_random.h ssi.h stockholm.h vectorops.h version.h '/<<PKGBUILDDIR>>/debian/tmp/usr/include/clustalo/squid'
make[5]: Leaving directory '/<<PKGBUILDDIR>>/src/squid'
make[4]: Leaving directory '/<<PKGBUILDDIR>>/src/squid'
Making install in kmpp
make[4]: Entering directory '/<<PKGBUILDDIR>>/src/kmpp'
make[5]: Entering directory '/<<PKGBUILDDIR>>/src/kmpp'
make[5]: Nothing to be done for 'install-exec-am'.
make[5]: Nothing to be done for 'install-data-am'.
make[5]: Leaving directory '/<<PKGBUILDDIR>>/src/kmpp'
make[4]: Leaving directory '/<<PKGBUILDDIR>>/src/kmpp'
Making install in clustal
make[4]: Entering directory '/<<PKGBUILDDIR>>/src/clustal'
make[5]: Entering directory '/<<PKGBUILDDIR>>/src/clustal'
make[5]: Nothing to be done for 'install-exec-am'.
/bin/mkdir -p '/<<PKGBUILDDIR>>/debian/tmp/usr/include/clustalo/clustal'
/usr/bin/install -c -m 644 hhalign_wrapper.h ktuple_pair.h log.h mbed.h muscle_tree.h pair_dist.h progress.h seq.h symmatrix.h tree.h util.h weights.h '/<<PKGBUILDDIR>>/debian/tmp/usr/include/clustalo/clustal'
make[5]: Leaving directory '/<<PKGBUILDDIR>>/src/clustal'
make[4]: Leaving directory '/<<PKGBUILDDIR>>/src/clustal'
make[4]: Entering directory '/<<PKGBUILDDIR>>/src'
make[5]: Entering directory '/<<PKGBUILDDIR>>/src'
/bin/mkdir -p '/<<PKGBUILDDIR>>/debian/tmp/usr/lib/arm-linux-gnueabihf'
/bin/bash ../libtool --mode=install /usr/bin/install -c libclustalo.la '/<<PKGBUILDDIR>>/debian/tmp/usr/lib/arm-linux-gnueabihf'
libtool: install: /usr/bin/install -c .libs/libclustalo.lai /<<PKGBUILDDIR>>/debian/tmp/usr/lib/arm-linux-gnueabihf/libclustalo.la
libtool: install: /usr/bin/install -c .libs/libclustalo.a /<<PKGBUILDDIR>>/debian/tmp/usr/lib/arm-linux-gnueabihf/libclustalo.a
libtool: install: chmod 644 /<<PKGBUILDDIR>>/debian/tmp/usr/lib/arm-linux-gnueabihf/libclustalo.a
libtool: install: ranlib /<<PKGBUILDDIR>>/debian/tmp/usr/lib/arm-linux-gnueabihf/libclustalo.a
libtool: warning: remember to run 'libtool --finish /usr/lib/arm-linux-gnueabihf'
/bin/mkdir -p '/<<PKGBUILDDIR>>/debian/tmp/usr/bin'
/bin/bash ../libtool --mode=install /usr/bin/install -c clustalo '/<<PKGBUILDDIR>>/debian/tmp/usr/bin'
libtool: install: /usr/bin/install -c clustalo /<<PKGBUILDDIR>>/debian/tmp/usr/bin/clustalo
/bin/mkdir -p '/<<PKGBUILDDIR>>/debian/tmp/usr/include/clustalo/'
/usr/bin/install -c -m 644 clustal-omega-config.h clustal-omega.h '/<<PKGBUILDDIR>>/debian/tmp/usr/include/clustalo/'
make[5]: Leaving directory '/<<PKGBUILDDIR>>/src'
make[4]: Leaving directory '/<<PKGBUILDDIR>>/src'
make[3]: Leaving directory '/<<PKGBUILDDIR>>/src'
make[3]: Entering directory '/<<PKGBUILDDIR>>'
make[4]: Entering directory '/<<PKGBUILDDIR>>'
make[4]: Nothing to be done for 'install-exec-am'.
/bin/mkdir -p '/<<PKGBUILDDIR>>/debian/tmp/usr/share/doc/clustal-omega'
/usr/bin/install -c -m 644 README '/<<PKGBUILDDIR>>/debian/tmp/usr/share/doc/clustal-omega'
/bin/mkdir -p '/<<PKGBUILDDIR>>/debian/tmp/usr/lib/arm-linux-gnueabihf/pkgconfig'
/usr/bin/install -c -m 644 clustalo.pc '/<<PKGBUILDDIR>>/debian/tmp/usr/lib/arm-linux-gnueabihf/pkgconfig'
make[4]: Leaving directory '/<<PKGBUILDDIR>>'
make[3]: Leaving directory '/<<PKGBUILDDIR>>'
make[2]: Leaving directory '/<<PKGBUILDDIR>>'
rm -rf debian/tmp/usr/lib/pkgconfig
rm -f debian/tmp/usr/lib/*/libclustalo.la
mv debian/tmp/usr/include debian/libclustalo-dev/usr
mv debian/tmp/usr/lib debian/libclustalo-dev/usr
mv debian/tmp/usr/bin debian/clustalo/usr
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
dh_install -a
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
dh_fixperms -a
dh_missing -a
dh_missing: warning: usr/share/doc/clustal-omega/README exists in debian/tmp but is not installed to anywhere
The following debhelper tools have reported what they installed (with files per package)
* dh_install: clustalo (0), libclustalo-dev (0), libclustalo-doc (0)
* dh_installdocs: clustalo (1), libclustalo-dev (0), libclustalo-doc (0)
* dh_installexamples: clustalo (2), libclustalo-dev (0), libclustalo-doc (0)
* dh_installman: clustalo (1), libclustalo-dev (0), libclustalo-doc (0)
If the missing files are installed by another tool, please file a bug against it.
When filing the report, if the tool is not part of debhelper itself, please reference the
"Logging helpers and dh_missing" section from the "PROGRAMMING" guide for debhelper (10.6.3+).
(in the debhelper package: /usr/share/doc/debhelper/PROGRAMMING.gz)
Be sure to test with dpkg-buildpackage -A/-B as the results may vary when only a subset is built
For a short-term work-around: Add the files to debian/not-installed
dh_dwz -a
dh_strip -a
dh_makeshlibs -a
dh_shlibdeps -a
dpkg-shlibdeps: warning: debian/clustalo/usr/bin/clustalo 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/clustalo/usr/bin/clustalo was not linked against ld-linux-armhf.so.3 (it uses none of the library's symbols)
dh_installdeb -a
dh_gencontrol -a
dpkg-gencontrol: warning: Depends field of package libclustalo-dev: substitution variable ${shlibs:Depends} used, but is not defined
dh_md5sums -a
dh_builddeb -a
dpkg-deb: building package 'clustalo' in '../clustalo_1.2.4-6_armhf.deb'.
dpkg-deb: building package 'clustalo-dbgsym' in '../clustalo-dbgsym_1.2.4-6_armhf.deb'.
dpkg-deb: building package 'libclustalo-dev' in '../libclustalo-dev_1.2.4-6_armhf.deb'.
dpkg-genbuildinfo --build=any
dpkg-genchanges --build=any -mRaspbian wandboard test autobuilder <root@raspbian.org> >../clustalo_1.2.4-6_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 2020-05-13T05:23:54Z
Finished
--------
I: Built successfully
+------------------------------------------------------------------------------+
| Post Build Chroot |
+------------------------------------------------------------------------------+
+------------------------------------------------------------------------------+
| Changes |
+------------------------------------------------------------------------------+
clustalo_1.2.4-6_armhf.changes:
-------------------------------
Format: 1.8
Date: Sun, 10 May 2020 20:05:31 +0200
Source: clustalo
Binary: clustalo clustalo-dbgsym libclustalo-dev
Architecture: armhf
Version: 1.2.4-6
Distribution: bullseye-staging
Urgency: medium
Maintainer: Raspbian wandboard test autobuilder <root@raspbian.org>
Changed-By: Andreas Tille <tille@debian.org>
Description:
clustalo - General-purpose multiple sequence alignment program for proteins
libclustalo-dev - Library to embed Clustal Omega
Closes: 956324
Changes:
clustalo (1.2.4-6) unstable; urgency=medium
.
[ Matthew Fernand ]
* Fix some issues with logging calls
* Increase field boundaries to avoid out of range access
* Fix memory leak that fixes a typoed ifdef and a missing free()
.
[ Adrian Bunk ]
* Disabling OpenMP for mipsel
Closes: #956324
Checksums-Sha1:
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3ac66e65d3dd4c0362439e511e9832be9c5e7632 6670 clustalo_1.2.4-6_armhf.buildinfo
64a0fa1712380b51076efc634f766e431c272f56 226648 clustalo_1.2.4-6_armhf.deb
e85a9fbe0526ab37d0064d6e77418b9956905ad2 278372 libclustalo-dev_1.2.4-6_armhf.deb
Checksums-Sha256:
958c9f2b3cd7fd3577c016f19ef69e405b0bba519b6eacd44feff4ab4cc561e7 700968 clustalo-dbgsym_1.2.4-6_armhf.deb
5c093899b884c9d37bf2ca9b982f0f645180080ec404d050db6403ea33c539ac 6670 clustalo_1.2.4-6_armhf.buildinfo
363233f0879282d7a251bfcc47180374d0d3ccdd0b14ec90d8a07ba96a911a0a 226648 clustalo_1.2.4-6_armhf.deb
246076716d978d6bb068cffee40c1a6bbc861e96b0c80e328f31ff6394573baf 278372 libclustalo-dev_1.2.4-6_armhf.deb
Files:
14c2cebf9cf9ccf20e1f834961b33f2c 700968 debug optional clustalo-dbgsym_1.2.4-6_armhf.deb
df8b16cd37c30ac120e148ca6021dc11 6670 science optional clustalo_1.2.4-6_armhf.buildinfo
a4464568d03d8c377027dc46812e2f5a 226648 science optional clustalo_1.2.4-6_armhf.deb
eb4e9873c92acef3b0a7c2ea69604369 278372 libdevel optional libclustalo-dev_1.2.4-6_armhf.deb
+------------------------------------------------------------------------------+
| Package contents |
+------------------------------------------------------------------------------+
clustalo-dbgsym_1.2.4-6_armhf.deb
---------------------------------
new Debian package, version 2.0.
size 700968 bytes: control archive=536 bytes.
374 bytes, 12 lines control
106 bytes, 1 lines md5sums
Package: clustalo-dbgsym
Source: clustalo
Version: 1.2.4-6
Auto-Built-Package: debug-symbols
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 739
Depends: clustalo (= 1.2.4-6)
Section: debug
Priority: optional
Description: debug symbols for clustalo
Build-Ids: 499bddd53387a361d7746c67f6825e36c7e8e79e
drwxr-xr-x root/root 0 2020-05-10 18:05 ./
drwxr-xr-x root/root 0 2020-05-10 18:05 ./usr/
drwxr-xr-x root/root 0 2020-05-10 18:05 ./usr/lib/
drwxr-xr-x root/root 0 2020-05-10 18:05 ./usr/lib/debug/
drwxr-xr-x root/root 0 2020-05-10 18:05 ./usr/lib/debug/.build-id/
drwxr-xr-x root/root 0 2020-05-10 18:05 ./usr/lib/debug/.build-id/49/
-rw-r--r-- root/root 746408 2020-05-10 18:05 ./usr/lib/debug/.build-id/49/9bddd53387a361d7746c67f6825e36c7e8e79e.debug
drwxr-xr-x root/root 0 2020-05-10 18:05 ./usr/share/
drwxr-xr-x root/root 0 2020-05-10 18:05 ./usr/share/doc/
lrwxrwxrwx root/root 0 2020-05-10 18:05 ./usr/share/doc/clustalo-dbgsym -> clustalo
clustalo_1.2.4-6_armhf.deb
--------------------------
new Debian package, version 2.0.
size 226648 bytes: control archive=936 bytes.
706 bytes, 14 lines control
547 bytes, 8 lines md5sums
Package: clustalo
Version: 1.2.4-6
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 549
Depends: libargtable2-0 (>= 7), libc6 (>= 2.29), libgcc-s1 (>= 3.5), libgomp1 (>= 6), libstdc++6 (>= 5.2)
Section: science
Priority: optional
Homepage: http://www.clustal.org/omega/
Description: General-purpose multiple sequence alignment program for proteins
Clustal Omega is a general-purpose multiple sequence alignment (MSA)
program, primarily for amino-acid sequences. It produces high quality MSAs
and is capable of handling data sets of hundreds of thousands of sequences
in reasonable time, using multiple processors where available.
drwxr-xr-x root/root 0 2020-05-10 18:05 ./
drwxr-xr-x root/root 0 2020-05-10 18:05 ./usr/
drwxr-xr-x root/root 0 2020-05-10 18:05 ./usr/bin/
-rwxr-xr-x root/root 527064 2020-05-10 18:05 ./usr/bin/clustalo
drwxr-xr-x root/root 0 2020-05-10 18:05 ./usr/share/
drwxr-xr-x root/root 0 2020-05-10 18:05 ./usr/share/doc/
drwxr-xr-x root/root 0 2020-05-10 18:05 ./usr/share/doc/clustalo/
-rw-r--r-- root/root 10994 2013-08-27 12:07 ./usr/share/doc/clustalo/README.gz
-rw-r--r-- root/root 1423 2020-05-10 18:05 ./usr/share/doc/clustalo/changelog.Debian.gz
-rw-r--r-- root/root 1730 2016-12-21 15:00 ./usr/share/doc/clustalo/changelog.gz
-rw-r--r-- root/root 1230 2020-05-10 18:05 ./usr/share/doc/clustalo/copyright
drwxr-xr-x root/root 0 2020-05-10 18:05 ./usr/share/doc/clustalo/examples/
-rw-r--r-- root/root 2269 2020-05-10 18:05 ./usr/share/doc/clustalo/examples/example.fa
-rw-r--r-- root/root 1742 2020-05-10 18:05 ./usr/share/doc/clustalo/examples/f002
drwxr-xr-x root/root 0 2020-05-10 18:05 ./usr/share/man/
drwxr-xr-x root/root 0 2020-05-10 18:05 ./usr/share/man/man1/
-rw-r--r-- root/root 1083 2020-05-10 18:05 ./usr/share/man/man1/clustalo.1.gz
libclustalo-dev_1.2.4-6_armhf.deb
---------------------------------
new Debian package, version 2.0.
size 278372 bytes: control archive=1528 bytes.
509 bytes, 14 lines control
2409 bytes, 33 lines md5sums
Package: libclustalo-dev
Source: clustalo
Version: 1.2.4-6
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 931
Depends: libargtable2-dev, clustalo (= 1.2.4-6)
Suggests: libclustalo-doc
Section: libdevel
Priority: optional
Homepage: http://www.clustal.org/omega/
Description: Library to embed Clustal Omega
This package contains headers and libraries to include Clustal Omega
in a program. It provides Clustal Omega usage with an API.
drwxr-xr-x root/root 0 2020-05-10 18:05 ./
drwxr-xr-x root/root 0 2020-05-10 18:05 ./usr/
drwxr-xr-x root/root 0 2020-05-10 18:05 ./usr/include/
drwxr-xr-x root/root 0 2020-05-10 18:05 ./usr/include/clustalo/
-rw-r--r-- root/root 9523 2020-05-10 18:05 ./usr/include/clustalo/clustal-omega-config.h
-rw-r--r-- root/root 4740 2020-05-10 18:05 ./usr/include/clustalo/clustal-omega.h
drwxr-xr-x root/root 0 2020-05-10 18:05 ./usr/include/clustalo/clustal/
-rw-r--r-- root/root 1159 2020-05-10 18:05 ./usr/include/clustalo/clustal/hhalign_wrapper.h
-rw-r--r-- root/root 1251 2020-05-10 18:05 ./usr/include/clustalo/clustal/ktuple_pair.h
-rw-r--r-- root/root 1787 2020-05-10 18:05 ./usr/include/clustalo/clustal/log.h
-rw-r--r-- root/root 866 2020-05-10 18:05 ./usr/include/clustalo/clustal/mbed.h
-rw-r--r-- root/root 4112 2020-05-10 18:05 ./usr/include/clustalo/clustal/muscle_tree.h
-rw-r--r-- root/root 1303 2020-05-10 18:05 ./usr/include/clustalo/clustal/pair_dist.h
-rw-r--r-- root/root 1257 2020-05-10 18:05 ./usr/include/clustalo/clustal/progress.h
-rw-r--r-- root/root 4032 2020-05-10 18:05 ./usr/include/clustalo/clustal/seq.h
-rw-r--r-- root/root 2310 2020-05-10 18:05 ./usr/include/clustalo/clustal/symmatrix.h
-rw-r--r-- root/root 1066 2020-05-10 18:05 ./usr/include/clustalo/clustal/tree.h
-rw-r--r-- root/root 2308 2020-05-10 18:05 ./usr/include/clustalo/clustal/util.h
-rw-r--r-- root/root 741 2020-05-10 18:05 ./usr/include/clustalo/clustal/weights.h
drwxr-xr-x root/root 0 2020-05-10 18:05 ./usr/include/clustalo/hhalign/
-rw-r--r-- root/root 2961 2020-05-10 18:05 ./usr/include/clustalo/hhalign/general.h
-rw-r--r-- root/root 859 2020-05-10 18:05 ./usr/include/clustalo/hhalign/hhfunc.h
drwxr-xr-x root/root 0 2020-05-10 18:05 ./usr/include/clustalo/squid/
-rw-r--r-- root/root 1381 2020-05-10 18:05 ./usr/include/clustalo/squid/gki.h
-rw-r--r-- root/root 3473 2020-05-10 18:05 ./usr/include/clustalo/squid/gsi64.h
-rw-r--r-- root/root 13442 2020-05-10 18:05 ./usr/include/clustalo/squid/msa.h
-rw-r--r-- root/root 1264 2020-05-10 18:05 ./usr/include/clustalo/squid/rk.h
-rw-r--r-- root/root 10390 2020-05-10 18:05 ./usr/include/clustalo/squid/sqfuncs.h
-rw-r--r-- root/root 19594 2020-05-10 18:05 ./usr/include/clustalo/squid/squid.h
-rw-r--r-- root/root 489 2020-05-10 18:05 ./usr/include/clustalo/squid/sre_random.h
-rw-r--r-- root/root 7610 2020-05-10 18:05 ./usr/include/clustalo/squid/ssi.h
-rw-r--r-- root/root 1868 2020-05-10 18:05 ./usr/include/clustalo/squid/stockholm.h
-rw-r--r-- root/root 1937 2020-05-10 18:05 ./usr/include/clustalo/squid/stopwatch.h
-rw-r--r-- root/root 1434 2020-05-10 18:05 ./usr/include/clustalo/squid/vectorops.h
-rw-r--r-- root/root 333 2020-05-10 18:05 ./usr/include/clustalo/squid/version.h
drwxr-xr-x root/root 0 2020-05-10 18:05 ./usr/lib/
drwxr-xr-x root/root 0 2020-05-10 18:05 ./usr/lib/arm-linux-gnueabihf/
-rw-r--r-- root/root 811776 2020-05-10 18:05 ./usr/lib/arm-linux-gnueabihf/libclustalo.a
drwxr-xr-x root/root 0 2020-05-10 18:05 ./usr/lib/arm-linux-gnueabihf/pkgconfig/
-rw-r--r-- root/root 250 2020-05-10 18:05 ./usr/lib/arm-linux-gnueabihf/pkgconfig/clustalo.pc
drwxr-xr-x root/root 0 2020-05-10 18:05 ./usr/share/
drwxr-xr-x root/root 0 2020-05-10 18:05 ./usr/share/doc/
drwxr-xr-x root/root 0 2020-05-10 18:05 ./usr/share/doc/libclustalo-dev/
-rw-r--r-- root/root 1423 2020-05-10 18:05 ./usr/share/doc/libclustalo-dev/changelog.Debian.gz
-rw-r--r-- root/root 1730 2016-12-21 15:00 ./usr/share/doc/libclustalo-dev/changelog.gz
-rw-r--r-- root/root 1230 2020-05-10 18:05 ./usr/share/doc/libclustalo-dev/copyright
+------------------------------------------------------------------------------+
| Post Build |
+------------------------------------------------------------------------------+
+------------------------------------------------------------------------------+
| Cleanup |
+------------------------------------------------------------------------------+
Purging /<<BUILDDIR>>
Not cleaning session: cloned chroot in use
+------------------------------------------------------------------------------+
| Summary |
+------------------------------------------------------------------------------+
Build Architecture: armhf
Build-Space: 29528
Build-Time: 481
Distribution: bullseye-staging
Host Architecture: armhf
Install-Time: 372
Job: clustalo_1.2.4-6
Machine Architecture: armhf
Package: clustalo
Package-Time: 901
Source-Version: 1.2.4-6
Space: 29528
Status: successful
Version: 1.2.4-6
--------------------------------------------------------------------------------
Finished at 2020-05-13T05:23:54Z
Build needed 00:15:01, 29528k disc space