Your message dated Tue, 02 Aug 2016 22:17:13 +0000
with message-id <e1buhzt-0007e6...@franck.debian.org>
and subject line Bug#816988: fixed in seqan 1.4.2+dfsg-1
has caused the Debian Bug report #816988,
regarding seqan: FTBFS when built with dpkg-buildpackage -A (No such file or
directory)
to be marked as done.
This means that you claim that the problem has been dealt with.
If this is not the case it is now your responsibility to reopen the
Bug report if necessary, and/or fix the problem forthwith.
(NB: If you are a system administrator and have no idea what this
message is talking about, this may indicate a serious mail system
misconfiguration somewhere. Please contact ow...@bugs.debian.org
immediately.)
--
816988: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=816988
Debian Bug Tracking System
Contact ow...@bugs.debian.org with problems
--- Begin Message ---
Package: src:seqan
Version: 1.4.1+dfsg-2
User: sanv...@debian.org
Usertags: binary-indep
Severity: important
Dear maintainer:
I tried to build this package with "dpkg-buildpackage -A"
(i.e. only architecture-independent packages), and it failed:
--------------------------------------------------------------------------------
[...]
debian/rules build-indep
dh build-indep
dh_testdir -i
dh_update_autotools_config -i
dh_auto_configure -i
mkdir -p obj-x86_64-linux-gnu
cd obj-x86_64-linux-gnu
cmake .. -DCMAKE_INSTALL_PREFIX=/usr -DCMAKE_VERBOSE_MAKEFILE=ON
-DCMAKE_BUILD_TYPE=None -DCMAKE_INSTALL_SYSCONFDIR=/etc
-DCMAKE_INSTALL_LOCALSTATEDIR=/var
-- The C compiler identification is GNU 5.3.1
-- The CXX compiler identification is GNU 5.3.1
-- Check for working C compiler: /usr/bin/cc
-- Check for working C compiler: /usr/bin/cc -- works
[... snipped ...]
cp --reflink=auto -a ./docs/main.py
debian/seqan-dev/usr/share/doc/seqan-dev/html/
cp --reflink=auto -a ./docs/main_tex.py
debian/seqan-dev/usr/share/doc/seqan-dev/html/
cp --reflink=auto -a ./docs/make.bat
debian/seqan-dev/usr/share/doc/seqan-dev/html/
cp --reflink=auto -a ./docs/make.sh
debian/seqan-dev/usr/share/doc/seqan-dev/html/
cp --reflink=auto -a ./docs/make2.bat
debian/seqan-dev/usr/share/doc/seqan-dev/html/
cp --reflink=auto -a ./docs/old_pages
debian/seqan-dev/usr/share/doc/seqan-dev/html/
cp --reflink=auto -a ./docs/pages
debian/seqan-dev/usr/share/doc/seqan-dev/html/
cp --reflink=auto -a ./docs/seqan_logo.gif
debian/seqan-dev/usr/share/doc/seqan-dev/html/
cp --reflink=auto -a ./docs/test_dddoc.py
debian/seqan-dev/usr/share/doc/seqan-dev/html/
install -d debian/seqan-dev/usr/include
cp --reflink=auto -a ./core/include/seqan debian/seqan-dev/usr/include/
# /usr/bin/join is part of coreutils package: Avoid name conflict by renaming
it to seqan-join
# This solution is withdrawn in favour of just providing a set of binaries
according to upstream
# in /usr/bin (via symlink) while others go to /usr/lib/seqan/bin (see
README.Debian)
# mv /<<BUILDDIR>>/seqan-1.4.1+dfsg/debian/seqan-apps/usr/bin/join
/<<BUILDDIR>>/seqan-1.4.1+dfsg/debian/seqan-apps/usr/bin/seqan-join
#
# Formerly binaries were installed into usr/lib/seqan/bin/
# and only some of them were made available in /usr/bin via dh_link
# Since there is no obvious reason for this neither is there any
# documentation that explains the motivation this is commented here.
#for APP in `find /<<BUILDDIR>>/seqan-1.4.1+dfsg/obj*/apps -mindepth 1
-maxdepth 1 -executable -type f` ; do \
# cp -a $APP
/<<BUILDDIR>>/seqan-1.4.1+dfsg/debian/seqan-apps/usr/lib/seqan/bin/ ; done
# ------------------------------------------------------------------
# Formerly readmes were named README.app. It seems more consistent
# to keep upstream documentation layout which in addition contains
# some example files. So the old code is commented here.
#for APP in `find apps -name README` ; do \
# app=`echo $APP | sed 's?.*apps/\(.\+\)/README?\1?'` ; \
# echo $app ; \
# cp -a $APP
/<<BUILDDIR>>/seqan-1.4.1+dfsg/debian/seqan-apps/usr/share/doc/seqan-apps/README.$app
; \
#done
# ------------------------------------------------------------------
# Delete additional LICENSE files
find /<<BUILDDIR>>/seqan-1.4.1+dfsg/debian/seqan-apps -type f -name LICENSE
-delete
find: '/<<BUILDDIR>>/seqan-1.4.1+dfsg/debian/seqan-apps': No such file or
directory
debian/rules:26: recipe for target 'override_dh_install' failed
make[1]: *** [override_dh_install] Error 1
make[1]: Leaving directory '/<<BUILDDIR>>/seqan-1.4.1+dfsg'
debian/rules:19: recipe for target 'binary-indep' failed
make: *** [binary-indep] Error 2
dpkg-buildpackage: error: fakeroot debian/rules binary-indep gave error exit
status 2
--------------------------------------------------------------------------------
Sorry not to have a fix, as I am reporting many bugs similar to
this one. The common hints are:
* If the only architecture-independent packages are dummy transitional
ones and they were released with jessie, the easy fix is to drop them
now.
* When using "dh", it is allowed to use (independently)
optional targets override_dh_foo-arch and override_dh_foo-indep
(for several values of "foo").
Once that both "dpkg-buildpackage -A" and "dpkg-buildpackage -B" work
properly, the package would be suitable to be uploaded in source-only
form if you wish.
Thanks.
--- End Message ---
--- Begin Message ---
Source: seqan
Source-Version: 1.4.2+dfsg-1
We believe that the bug you reported is fixed in the latest version of
seqan, which is due to be installed in the Debian FTP archive.
A summary of the changes between this version and the previous one is
attached.
Thank you for reporting the bug, which will now be closed. If you
have further comments please address them to 816...@bugs.debian.org,
and the maintainer will reopen the bug report if appropriate.
Debian distribution maintenance software
pp.
Andreas Tille <ti...@debian.org> (supplier of updated seqan package)
(This message was generated automatically at their request; if you
believe that there is a problem with it please contact the archive
administrators by mailing ftpmas...@ftp-master.debian.org)
-----BEGIN PGP SIGNED MESSAGE-----
Hash: SHA512
Format: 1.8
Date: Tue, 02 Aug 2016 15:58:06 +0200
Source: seqan
Binary: seqan-dev
Architecture: source all
Version: 1.4.2+dfsg-1
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team
<debian-med-packag...@lists.alioth.debian.org>
Changed-By: Andreas Tille <ti...@debian.org>
Description:
seqan-dev - C++ library for the analysis of biological sequences (development
Closes: 766741 809058 811841 816988 818088
Changes:
seqan (1.4.2+dfsg-1) unstable; urgency=medium
.
[Andreas Tille]
* New upstream version
Closes: #766741
* Moved packaging to Git
* Adapt watch file to fetch only seqan 1.x series
* Update list of uploaders
* Add compression option to watch file
* Remove extras and core/apps from upstream source since these will be taken
from seqan2 series (when doing so remove other unneeded stuff and binary
files)
* Add README.source to explain removals
* Moved debian/upstream to debian/upstream/metadata
* Drop documentation since developers should rather use seqan2
Closes: #816988, #809058
* Install cmake files
Closes: #818088
.
[Gert Wollny]
* d/rules: Add -DNDEBUG to CXXFLAGS, Closes: #811841
* d/rules: enable parallel build
Checksums-Sha1:
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d9048975034c2c60a88b7898787b24b114e0deae 7148 seqan_1.4.2+dfsg-1.debian.tar.xz
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Checksums-Sha256:
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seqan_1.4.2+dfsg-1.dsc
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seqan_1.4.2+dfsg.orig.tar.xz
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seqan_1.4.2+dfsg-1.debian.tar.xz
053be6ca2b664f1b68293e4ad67f00199469c7a315cdd4300a10ed025dbda830 1097160
seqan-dev_1.4.2+dfsg-1_all.deb
Files:
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57c743c6d788509e3e19cd9b75ae38b9 9175900 science optional
seqan_1.4.2+dfsg.orig.tar.xz
72bda9f7a4ecd4e21f95e693bfffc4f2 7148 science optional
seqan_1.4.2+dfsg-1.debian.tar.xz
052c3ff94fd682373ec1092b2a24231e 1097160 libdevel optional
seqan-dev_1.4.2+dfsg-1_all.deb
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