Your message dated Wed, 01 Mar 2017 17:19:21 +0000
with message-id <e1cj7ul-0007i1...@fasolo.debian.org>
and subject line Bug#856424: fixed in libvcflib 1.0.0~rc1+dfsg1-3
has caused the Debian Bug report #856424,
regarding libvcflib-tools: vcflib cannot find its programs in
/usr/lib/vcflib/binaries
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.)
--
856424: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=856424
Debian Bug Tracking System
Contact ow...@bugs.debian.org with problems
--- Begin Message ---
Package: libvcflib-tools
Version: 1.0.0~rc1+dfsg1-1
Severity: grave
Justification: renders package unusable
Dear Maintainer,
* What led up to the situation?
I installed libvcflib-tools on testing/stretch. When I ran 'vcflib', I
saw this:
$ vcflib
Usage: /usr/bin/vcflib <program>
Existing programs are:
ls: cannot access '/usr/lib/vcflib/bin': No such file
or directory
* What exactly did you do (or not do) that was effective (or
ineffective)?
For now, I created a symlink from /usr/lib/vcflib/binaries to
/usr/lib/vcflib/bin.
* What was the outcome of this action?
Now vcflib can find its programs:
$ vcflib
Usage: /usr/bin/vcflib <program>
Existing programs are:
abba-baba LD plotHaps vcf2dag
[...]
It looks like the 'keep_R_files' patch from September 2016 changed the
path to which programs are installed, while trying to keep the R
scripts from being purged by 'make clean'.
These R scripts reside in a 'scripts' directory upstream; maybe moving
them in the Debian package as well, reverting BIN_DIR in the Makefile,
and installing them from the scripts directory would fix this.
-- System Information:
Debian Release: 9.0
APT prefers testing
APT policy: (500, 'testing'), (50, 'unstable')
Architecture: amd64 (x86_64)
Kernel: Linux 4.9.0-1-amd64 (SMP w/80 CPU cores)
Locale: LANG=en_US.UTF-8, LC_CTYPE=en_US.UTF-8 (charmap=UTF-8)
Shell: /bin/sh linked to /bin/dash
Init: systemd (via /run/systemd/system)
Versions of packages libvcflib-tools depends on:
ii libc6 2.24-9
ii libdisorder0 0.0.2-1
ii libfastahack0 0.0+20160702-1
ii libgcc1 1:6.3.0-6
ii libgomp1 6.3.0-6
ii libhts1 1.3.2-2
ii libsmithwaterman0 0.0+20160702-1
ii libstdc++6 6.3.0-6
ii libtabixpp0 1.0.0-2
ii libvcflib1 1.0.0~rc1+dfsg1-1
ii zlib1g 1:1.2.8.dfsg-5
libvcflib-tools recommends no packages.
libvcflib-tools suggests no packages.
-- no debconf information
--- End Message ---
--- Begin Message ---
Source: libvcflib
Source-Version: 1.0.0~rc1+dfsg1-3
We believe that the bug you reported is fixed in the latest version of
libvcflib, 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 856...@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 libvcflib 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: SHA256
Format: 1.8
Date: Wed, 01 Mar 2017 15:43:05 +0100
Source: libvcflib
Binary: libvcflib1 libvcflib-dev libvcflib-tools
Architecture: source amd64
Version: 1.0.0~rc1+dfsg1-3
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team
<debian-med-packag...@lists.alioth.debian.org>
Changed-By: Andreas Tille <ti...@debian.org>
Description:
libvcflib-dev - C++ library for parsing and manipulating VCF files
(development)
libvcflib-tools - C++ library for parsing and manipulating VCF files (tools)
libvcflib1 - C++ library for parsing and manipulating VCF files
Closes: 856424
Changes:
libvcflib (1.0.0~rc1+dfsg1-3) unstable; urgency=medium
.
* Fix location of binary tools
Closes: #856424
* Remove empty debian/upstream/metadata boilerplate
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libvcflib_1.0.0~rc1+dfsg1-3.debian.tar.xz
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libvcflib-dev_1.0.0~rc1+dfsg1-3_amd64.deb
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libvcflib-tools-dbgsym_1.0.0~rc1+dfsg1-3_amd64.deb
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