[Debian-med-packaging] seaview_4.0-1_amd64.changes is NEW
Archive Administrator
installer at ftp-master.debian.org
Tue May 26 23:47:03 UTC 2009
(new) seaview_4.0-1.diff.gz optional non-free/science
(new) seaview_4.0-1.dsc optional non-free/science
(new) seaview_4.0-1_amd64.deb optional non-free/science
WARNING: Already present in m distribution.
Multiplatform interface for sequence alignment and phylogeny
SeaView reads and writes various file formats (NEXUS, MSF, CLUSTAL, FASTA,
PHYLIP, MASE, Newick) of DNA and protein sequences and of phylogenetic trees.
Alignments can be manually edited. It drives the programs Muscle or Clustal W
for multiple sequence alignment, and also allows to use any external alignment
algorithm able to read and write FASTA-formatted files. It computes
phylogenetic trees by parsimony using PHYLIP's dnapars/protpars algorithm, by
distance with NJ or BioNJ algorithms on a variety of evolutionary distances, or
by maximum likelihood using the program PhyML 3.0. SeaView draws phylogenetic
trees on screen or PostScript files, and allows to download sequences from
EMBL/GenBank/UniProt using the Internet.
(new) seaview_4.0.orig.tar.gz optional non-free/science
Changes: seaview (1:4.0-1) unstable; urgency=low
.
* New upstream version
- Computes and draws parsimony, distance and PhyML phylogenetic trees.
- This new version unfortunately uses non-free files, and has therefore been
removed from Debian, but is distributed in the ‘non-free’ section of its
archive as a service its users.
* debian/control:
- Changed section to non-free/science.
- Build-Depends on libxft-dev and libxext-dev.
- Recommends phyml, muscle and clustalw.
- Dropped dependency on xterm.
- checked package conformance with Policy 3.8.1.
- Updated description and removed reference from it.
- Dropped build dependency on quilt.
* debian/patches and debian/README.source removed:
- 20-no-PDF-in-help.patch: upstream wording became true for Debian as well.
- 21-location-of-seaview.help.patch: passing -DHELPFILENAME through
debian/rules instead.
- 40-seaview_align.sh-newline.patch, seaview_align-full_path.patch:
seaview_align.sh was removed upstream.
* debian/README.Debian deleted as well (obsolete).
* debian/rules:
- Makes `seaview' instead of `seaviewps' as (non-free) PDF support is not
default anymore.
- Indicate the location of the help file with:
-DHELPFILENAME=\\\"/usr/share/doc/seaview/seaview.html\\\"
- Uses `dh clean' and $(RM) macro in the clean target.
- Uses `dh binary-arch` in the binary-arch target (created debian/docs,
debian/seaview.examples, and debian/manpages).
- Removed protein.mase from examples (removed upstream).
- Removed patching facilities (no patches to apply anymore).
* Removed `seaview_align.sh' from debian/install, as it was removed upstream.
* debian/copyright:
- Incremented year and version.
- Link to the precise versions of the GNU GPL and LGPL.
- Added the necessary disclaimers because SeaView became non-free.
* Updated the manpage (debian/seaview.1*).
* Registered the new help file with doc-base (debian/seaview.doc-base.help).
Override entries for your package:
Announcing to debian-devel-changes at lists.debian.org
Your package contains new components which requires manual editing of
the override file. It is ok otherwise, so please be patient. New
packages are usually added to the override file about once a week.
You may have gotten the distribution wrong. You'll get warnings above
if files already exist in other distributions.
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