2008
emboss (5.0.0-7) unstable; urgency=low
* Changed the doc-base section according to the new policy. * Updated my email address. * Updated the contact address in the manpages.
-- Charles Plessy <plessy@debian.org> Fri, 16 May 2008 19:58:37 +0900
emboss (5.0.0-6) unstable; urgency=low
* New bugfixes released upstream:
- Fixes failure on some databases if the PAGESIZE was set large
and the CACHESIZE was set small.
- Platform-independence modifications added.
* debian/README.Debian: described the change of default pager for tfm.
-- Charles Plessy <charles-debian-nospam@plessy.org> Fri, 07 Mar 2008 10:15:31 +0900
emboss (5.0.0-5) unstable; urgency=low
* New bugfixes released upstream.
- Fixes changed ID format in GCG databases.
- Fixes reading from PIR databases.
- Fixes a problem with O in protein sequences for pyrrolysine.
- Fixes a problem in GENBANK output format.
- Fixes a problem in reading protein sequences from Staden
"spin" interface.
- Fixes tokens that are longer than the maximum length.
- debian/patches now uses the monolithic upstream patch instead of
file-per-file fixes. You can find longer explanations in the header
of debian/patches/patch-1-3.
-- Charles Plessy <charles-debian-nospam@plessy.org> Sat, 01 Mar 2008 11:46:26 +0900
emboss (5.0.0-4) unstable; urgency=low
* debian/patches:
- using-pager-in-tfm.patch:
Patching tfm so that it uses the alternatives system `/usr/bin/pager'
if the `PAGER' environment variable is not defined.
- embindex-fix-2008-01-19.patch:
Official fix 3. EMBOSS-5.0.0/nucleus/embindex.c 18 Jan 2008.
Order and fill fixes to sort out potential problems with kw/de/tx
indexes.
-- Charles Plessy <charles-debian-nospam@plessy.org> Wed, 23 Jan 2008 20:56:22 +0900
emboss (5.0.0-3) unstable; urgency=low
[ Nelson A. de Oliveira ]
* Using bzip2 compression for packages. This saves about 832KB of space.
[ Charles Plessy ]
* debian/patches/ajindex-fix-2008-01-09.patch:
- Fixes rare secondary index problem with input files over 2Gb.
* debian/control:
- Swiched maintainership to the Debian-Med packaging team.
- Relocated the package to the Debian-Med Subversion repository.
- Allowed upload by Debian Maintainers.
- Checked that the package is compliant to Policy 3.7.3
- Added dialign again to the Recommends: field. It only disapperared from
the documentation; the edialign program is still there.
- -dev packages now depend on their corresponding libraries.
- Replaced occurences of $(source:Version} by ${binary:Version} to make
the packages binNMU safe.
- emboss-data and emboss-doc do not Suggest: emboss anymore.
- Changed the description of libajax5 and libnucleus5 so that they are not
identical.
- Removed the XS- prefix in the Vcs fields.
- Build-depends on autotools-dev.
* debian/rules:
- Removes Makefiles ignored by make distclean in the test directory.
- Uses config.(sub|guess) from the autotools-dev package.
-- Charles Plessy <charles-debian-nospam@plessy.org> Thu, 10 Jan 2008 21:27:31 +0900
2007
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).
-- Charles Plessy <charles-debian-nospam@plessy.org> Sat, 13 Oct 2007 15:05:53 +0900
emboss (5.0.0-1) unstable; urgency=low
* New upstream version
* Renaming cons and pscan to em_cons and em_pscan, see README.Debian
for more information.
* Moved all the binaries to /usr/lib/emboss. /usr/bin contains only
symbolic links (Closes : #427439, #427440).
* Makes sure that there is a Makefile befor invoking the clean rule.
* Added /etc/emboss/embossrc.d directory for future modular
configuration.
* Swiched from dpatch to quilt (no patches for the moment).
* Build-depend on libemboss-acd-perl to generate manpages with
acd2docbook.pl, written especially for this package (Closes: #423938).
* Adding a placeholder file to force the includion of debian/manpages.
* Removing the entries in the Debian menu until we agree that we
want them.
-- Charles Plessy <charles-debian-nospam@plessy.org> Thu, 19 Jul 2007 13:56:11 +0900
emboss (4.1.0-1) experimental; urgency=low
* New maintainer and uploaders * First official relase (Closes: #156276) * Xlib transition. * Using dpatch and /usr/share/dpatch/dpatch.make to manage patches. * Added XS-Vcs entries in debian/changelog. * Removed the pcre includes from the emboss-libs package. * Fixed watch file. * Emboss Recommends:dialign and Suggests:clustalw.
-- Charles Plessy <charles-debian-nospam@plessy.org> Mon, 12 Mar 2007 08:26:15 +0900
2004
emboss (2.8.0-2) unstable; urgency=low
* Fixed manpages being in both emboss and emboss-lib * Removed circ.dep. emboss <-> emboss-lib
-- Matt Hope <dopey@debian.org> Fri, 21 May 2004 12:47:47 +1000
2003
emboss (2.8.0-1) unstable; urgency=low
* New upstream release
-- Matt Hope <dopey@debian.org> Fri, 5 Dec 2003 15:08:54 +1100
emboss (2.7.1-1) unstable; urgency=low
* New upstream release
* emboss-lib
- Fixed the shlibs.
-- Matt Hope <matth@bioinformatics.unsw.edu.au> Mon, 7 Jul 2003 14:36:14 +1000
emboss (2.6.0-1) unstable; urgency=low
* New upstream release
-- Matt Hope <matth@bioinformatics.unsw.edu.au> Fri, 7 Apr 2003 21:41:12 +1000
2002
emboss (2.4.1-1) unstable; urgency=low
* Initial package.
Thanks for the feedback from everyone.
(Closes: Bug#156276 ITP)
-- Matt Hope <matth@bioinformatics.unsw.edu.au> Sat, 6 Jul 2002 01:11:17 +1000