Your message dated Mon, 15 Oct 2007 19:43:40 +0000
with message-id <[EMAIL PROTECTED]>
and subject line Bug#427439: fixed in emboss 5.0.0-2
has caused the attached Bug report 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 I am
talking about this indicates a serious mail system misconfiguration
somewhere. Please contact me immediately.)
Debian bug tracking system administrator
(administrator, Debian Bugs database)
--- Begin Message ---
Package: emboss
Version: 4.1.0-1
Severity: serious
Justification: Policy 10.1
EMBOSS contains files with similar name to programs installed by other
pacakges. (Thanks to Aaron M. Ucko for reporting).
[EMAIL PROTECTED]:~/src/emboss/emboss-4.1.0/debian/emboss
$ for x in usr/bin/*; do apt-file search -F $x; done
cons: usr/bin/cons
pscan: usr/bin/pscan
hsffig: usr/bin/splitter
As explained in the following email, the plan is to ping the
maintainer by private emain, then on -devel, and then by filing
serious bugs against their pacakges. If they answer, we will rename
the file in /usr/bin and provide it under its original name in
/usr/lib/emboss. If they do not answer, I will ask for the removal of
their pacakge.
http://lists.debian.org/debian-devel/2007/05/msg01016.html
-- Charles
-- System Information:
Debian Release: 4.0
APT prefers testing
APT policy: (500, 'testing'), (500, 'stable'), (1, 'experimental')
Architecture: powerpc (ppc64)
Shell: /bin/sh linked to /bin/bash
Kernel: Linux 2.6.18-4-powerpc64
Locale: LANG=fr_FR.UTF-8, LC_CTYPE=fr_FR.UTF-8 (charmap=UTF-8)
Versions of packages emboss depends on:
ii emboss-data 4.1.0-1 Data files for the EMBOSS package
ii emboss-lib 4.1.0-1 EMBOSS Libraries
ii libc6 2.3.6.ds1-13 GNU C Library: Shared libraries
ii libfreetype6 2.2.1-5 FreeType 2 font engine, shared lib
ii libgd2-xpm 2.0.33-5.2 GD Graphics Library version 2
ii libjpeg62 6b-13 The Independent JPEG Group's JPEG
ii libpng12-0 1.2.15~beta5-1 PNG library - runtime
ii libx11-6 2:1.0.3-7 X11 client-side library
ii tcsh [c-shell] 6.14.00-7 TENEX C Shell, an enhanced version
ii zlib1g 1:1.2.3-13 compression library - runtime
Versions of packages emboss recommends:
ii dialign 2.2.1-1 Segment-based multiple sequence al
ii primer3 1.1.1-1 Tool to design flanking oligo nucl
-- no debconf information
--- End Message ---
--- Begin Message ---
Source: emboss
Source-Version: 5.0.0-2
We believe that the bug you reported is fixed in the latest version of
emboss, which is due to be installed in the Debian FTP archive:
emboss-data_5.0.0-2_all.deb
to pool/main/e/emboss/emboss-data_5.0.0-2_all.deb
emboss-doc_5.0.0-2_all.deb
to pool/main/e/emboss/emboss-doc_5.0.0-2_all.deb
emboss-lib_5.0.0-2_i386.deb
to pool/main/e/emboss/emboss-lib_5.0.0-2_i386.deb
emboss_5.0.0-2.diff.gz
to pool/main/e/emboss/emboss_5.0.0-2.diff.gz
emboss_5.0.0-2.dsc
to pool/main/e/emboss/emboss_5.0.0-2.dsc
emboss_5.0.0-2_i386.deb
to pool/main/e/emboss/emboss_5.0.0-2_i386.deb
libajax5-dev_5.0.0-2_i386.deb
to pool/main/e/emboss/libajax5-dev_5.0.0-2_i386.deb
libajax5_5.0.0-2_i386.deb
to pool/main/e/emboss/libajax5_5.0.0-2_i386.deb
libnucleus5-dev_5.0.0-2_i386.deb
to pool/main/e/emboss/libnucleus5-dev_5.0.0-2_i386.deb
libnucleus5_5.0.0-2_i386.deb
to pool/main/e/emboss/libnucleus5_5.0.0-2_i386.deb
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 [EMAIL PROTECTED],
and the maintainer will reopen the bug report if appropriate.
Debian distribution maintenance software
pp.
Charles Plessy <[EMAIL PROTECTED]> (supplier of updated emboss 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 [EMAIL PROTECTED])
-----BEGIN PGP SIGNED MESSAGE-----
Hash: SHA1
Format: 1.7
Date: Sat, 13 Oct 2007 15:05:53 +0900
Source: emboss
Binary: libajax5 emboss-data emboss-doc emboss libajax5-dev libnucleus5-dev
libnucleus5 emboss-lib
Architecture: source i386 all
Version: 5.0.0-2
Distribution: unstable
Urgency: low
Maintainer: Debian EMBOSS Packaging Team <[EMAIL PROTECTED]>
Changed-By: Charles Plessy <[EMAIL PROTECTED]>
Description:
emboss - The European Molecular Biology Open Software Suite
emboss-data - Data files for the EMBOSS package
emboss-doc - Documentation for EMBOSS
emboss-lib - EMBOSS Libraries
libajax5 - Core library used by all EMBOSS applications
libajax5-dev - Development files for libajax
libnucleus5 - Core library used by all EMBOSS applications
libnucleus5-dev - Development files for libajax
Closes: 423941 427439 433316 435232 442554
Changes:
emboss (5.0.0-2) unstable; urgency=low
.
[ Charles Plessy ]
* Using a emboss/psiphi.c file fixed by upstream
ftp://emboss.open-bio.org/pub/EMBOSS/fixes/psiphi.c
* Documentation:
- Building the manpages offline to save buildd time, therefore not
depending anymore on the XML toolchain.
- Added a "e" suffix to the manpages, to avoid conflicts.
(Closes: #427439)
- Linked /usr/share/emboss-doc/doc/ to /usr/share/EMBOSS/docs, and
registered documentation in doc-base. (Closes: #423941)
* Gave their own packages to the AJAX and NUCLEUS libraries.
- Header files are in /usr/include/ajax and /usr/include/nucleus.
- The private pcre files are kept under /usr/include/ajax. (Closes:
#433316)
* Packaging:
- Removed the extra Tag field in debian/control.
- Removed the recommendation on dialign, as edialign disappeared.
- Tightened the Depends: relationship between emboss and
emboss-lib (Closes: #435232).
- Removed inactive developer from the uploaders list.
- Suggests: embassy.
* Temporarly incorporates a relicenced version of the EMBOSS Quick
Guide, until it becomes part of the original tarball. Its sources
are shipped uuencoded, therfore emboss now build-depends on sharutils.
.
[ Nelson A. de Oliveira ]
* Checked and fixed clean target. (Closes: #442554).
Files:
23c85d828e3abcb632014f3a474a88fd 1057 science optional emboss_5.0.0-2.dsc
91266420594a53a8bd75d1c300e8a6af 239712 science optional emboss_5.0.0-2.diff.gz
4e57780b93d6080a4434beeef2cf9aa1 924264 science optional
emboss_5.0.0-2_i386.deb
004081be1b7243ba81758fd5a687dd3d 814668 science optional
emboss-data_5.0.0-2_all.deb
b0ea4f3cebe4c383a9e5ee29466f6695 5011684 doc optional
emboss-doc_5.0.0-2_all.deb
ce1b432c587a8b33cb153042f377470e 430090 libs optional
emboss-lib_5.0.0-2_i386.deb
bcb0e841dfb1b08bbd395f9a0b911292 691736 libs optional libajax5_5.0.0-2_i386.deb
9b0ea9ae3197efd39948c1264f85c620 850252 libdevel optional
libajax5-dev_5.0.0-2_i386.deb
143f936780b165b2f51ec0540ea6c0e7 175644 libs optional
libnucleus5_5.0.0-2_i386.deb
08f79585a18254eef501199d6766b3c3 202878 libdevel optional
libnucleus5-dev_5.0.0-2_i386.deb
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--- End Message ---
