biomaj-properties_1.2.1-1_all.deb


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Description

biomaj-properties - biological data-bank updater - example properties files

Property Value
Distribution Debian 7 (Wheezy)
Repository Debian Main amd64
Package filename biomaj-properties_1.2.1-1_all.deb
Package name biomaj-properties
Package version 1.2.1
Package release 1
Package architecture all
Package type deb
Homepage -
License -
Maintainer -
Download size 33.52 KB
Installed size 250 B
This package contains a set of data bank properties files that can be
used as examples for BioMAJ. It contains descriptions for many existing
data banks with or without workflows to transform data. Some files may
require additional programs (such as BLAST) for post-processing.

Alternatives

Package Version Architecture Repository
biomaj-properties_1.2.1-1_all.deb 1.2.1 all Debian Main
biomaj-properties - - -

Download

Type URL
Mirror ftp.br.debian.org
Binary Package biomaj-properties_1.2.1-1_all.deb
Source Package biomaj

Install Howto

  1. Update the package index:
    # sudo apt-get update
  2. Install biomaj-properties deb package:
    # sudo apt-get install biomaj-properties

Files

Path
/usr/share/biomaj/examples/db_properties/workflow_without_process/Anopheles_gambiae.properties
/usr/share/biomaj/examples/db_properties/workflow_without_process/Apis_mellifera.properties
/usr/share/biomaj/examples/db_properties/workflow_without_process/Arabidopsis_thaliana.properties
/usr/share/biomaj/examples/db_properties/workflow_without_process/Bacteria.properties
/usr/share/biomaj/examples/db_properties/workflow_without_process/Bos_taurus.properties
/usr/share/biomaj/examples/db_properties/workflow_without_process/Caenorhabditis_elegans.properties
/usr/share/biomaj/examples/db_properties/workflow_without_process/Canis_familiaris.properties
/usr/share/biomaj/examples/db_properties/workflow_without_process/D_rerio.properties
/usr/share/biomaj/examples/db_properties/workflow_without_process/Drosophila_melanogaster.properties
/usr/share/biomaj/examples/db_properties/workflow_without_process/Felis_catus.properties
/usr/share/biomaj/examples/db_properties/workflow_without_process/Fungi.properties
/usr/share/biomaj/examples/db_properties/workflow_without_process/Gallus_gallus.properties
/usr/share/biomaj/examples/db_properties/workflow_without_process/H_sapiens.properties
/usr/share/biomaj/examples/db_properties/workflow_without_process/M_musculus.properties
/usr/share/biomaj/examples/db_properties/workflow_without_process/Macaca_mulatta.properties
/usr/share/biomaj/examples/db_properties/workflow_without_process/Monodelphis_domestica.properties
/usr/share/biomaj/examples/db_properties/workflow_without_process/Pan_troglodytes.properties
/usr/share/biomaj/examples/db_properties/workflow_without_process/Plasmodium_falciparum.properties
/usr/share/biomaj/examples/db_properties/workflow_without_process/R_norvegicus.properties
/usr/share/biomaj/examples/db_properties/workflow_without_process/Saccharomyces_cerevisiae.properties
/usr/share/biomaj/examples/db_properties/workflow_without_process/Schizosaccharomyces_pombe.properties
/usr/share/biomaj/examples/db_properties/workflow_without_process/Strongylocentrotus_purpuratus.properties
/usr/share/biomaj/examples/db_properties/workflow_without_process/Tribolium_castaneum.properties
/usr/share/biomaj/examples/db_properties/workflow_without_process/alu.properties
/usr/share/biomaj/examples/db_properties/workflow_without_process/astral.properties
/usr/share/biomaj/examples/db_properties/workflow_without_process/dbest.properties
/usr/share/biomaj/examples/db_properties/workflow_without_process/drosoph.properties
/usr/share/biomaj/examples/db_properties/workflow_without_process/ecoli.properties
/usr/share/biomaj/examples/db_properties/workflow_without_process/env.properties
/usr/share/biomaj/examples/db_properties/workflow_without_process/enzyme.properties
/usr/share/biomaj/examples/db_properties/workflow_without_process/est.properties
/usr/share/biomaj/examples/db_properties/workflow_without_process/genbankRelease.properties
/usr/share/biomaj/examples/db_properties/workflow_without_process/geneontology.properties
/usr/share/biomaj/examples/db_properties/workflow_without_process/go.properties
/usr/share/biomaj/examples/db_properties/workflow_without_process/gss.properties
/usr/share/biomaj/examples/db_properties/workflow_without_process/htgs.properties
/usr/share/biomaj/examples/db_properties/workflow_without_process/human_genomic.properties
/usr/share/biomaj/examples/db_properties/workflow_without_process/human_genomic_transcript.properties
/usr/share/biomaj/examples/db_properties/workflow_without_process/igSeq.properties
/usr/share/biomaj/examples/db_properties/workflow_without_process/interpro.properties
/usr/share/biomaj/examples/db_properties/workflow_without_process/mouse_genomic_transcript.properties
/usr/share/biomaj/examples/db_properties/workflow_without_process/nr.properties
/usr/share/biomaj/examples/db_properties/workflow_without_process/nt.properties
/usr/share/biomaj/examples/db_properties/workflow_without_process/omim.properties
/usr/share/biomaj/examples/db_properties/workflow_without_process/other_genomic.properties
/usr/share/biomaj/examples/db_properties/workflow_without_process/patent.properties
/usr/share/biomaj/examples/db_properties/workflow_without_process/pdb.properties
/usr/share/biomaj/examples/db_properties/workflow_without_process/pfam.properties
/usr/share/biomaj/examples/db_properties/workflow_without_process/prosite.properties
/usr/share/biomaj/examples/db_properties/workflow_without_process/refseq.properties
/usr/share/biomaj/examples/db_properties/workflow_without_process/refseqRelease.properties
/usr/share/biomaj/examples/db_properties/workflow_without_process/rfam.properties
/usr/share/biomaj/examples/db_properties/workflow_without_process/sts.properties
/usr/share/biomaj/examples/db_properties/workflow_without_process/swissprot.properties
/usr/share/biomaj/examples/db_properties/workflow_without_process/taxonomy.properties
/usr/share/biomaj/examples/db_properties/workflow_without_process/tgi.properties
/usr/share/biomaj/examples/db_properties/workflow_without_process/unigene.properties
/usr/share/biomaj/examples/db_properties/workflow_without_process/uniprot.properties
/usr/share/biomaj/examples/db_properties/workflow_without_process/uniref.properties
/usr/share/biomaj/examples/db_properties/workflow_without_process/uniref100.properties
/usr/share/biomaj/examples/db_properties/workflow_without_process/uniref50.properties
/usr/share/biomaj/examples/db_properties/workflow_without_process/uniref90.properties
/usr/share/biomaj/examples/db_properties/workflow_without_process/vector.properties
/usr/share/biomaj/examples/db_properties/workflow_without_process/wgs.properties
/usr/share/biomaj/examples/db_properties/workflow_without_process/yeast.properties
/usr/share/biomaj/examples/db_properties/workflow_withprocess/Anopheles_gambiae.properties
/usr/share/biomaj/examples/db_properties/workflow_withprocess/Apis_mellifera.properties
/usr/share/biomaj/examples/db_properties/workflow_withprocess/Arabidopsis_thaliana.properties
/usr/share/biomaj/examples/db_properties/workflow_withprocess/Bacteria.properties
/usr/share/biomaj/examples/db_properties/workflow_withprocess/Bos_taurus.properties
/usr/share/biomaj/examples/db_properties/workflow_withprocess/Caenorhabditis_elegans.properties
/usr/share/biomaj/examples/db_properties/workflow_withprocess/Canis_familiaris.properties
/usr/share/biomaj/examples/db_properties/workflow_withprocess/D_rerio.properties
/usr/share/biomaj/examples/db_properties/workflow_withprocess/Drosophila_melanogaster.properties
/usr/share/biomaj/examples/db_properties/workflow_withprocess/Fungi.properties
/usr/share/biomaj/examples/db_properties/workflow_withprocess/Gallus_gallus.properties
/usr/share/biomaj/examples/db_properties/workflow_withprocess/H_sapiens.properties
/usr/share/biomaj/examples/db_properties/workflow_withprocess/M_musculus.properties
/usr/share/biomaj/examples/db_properties/workflow_withprocess/Macaca_mulatta.properties
/usr/share/biomaj/examples/db_properties/workflow_withprocess/Monodelphis_domestica.properties
/usr/share/biomaj/examples/db_properties/workflow_withprocess/Pan_troglodytes.properties
/usr/share/biomaj/examples/db_properties/workflow_withprocess/Plasmodium_falciparum.properties
/usr/share/biomaj/examples/db_properties/workflow_withprocess/R_norvegicus.properties
/usr/share/biomaj/examples/db_properties/workflow_withprocess/Saccharomyces_cerevisiae.properties
/usr/share/biomaj/examples/db_properties/workflow_withprocess/Schizosaccharomyces_pombe.properties
/usr/share/biomaj/examples/db_properties/workflow_withprocess/Strongylocentrotus_purpuratus.properties
/usr/share/biomaj/examples/db_properties/workflow_withprocess/Tribolium_castaneum.properties
/usr/share/biomaj/examples/db_properties/workflow_withprocess/alu.properties
/usr/share/biomaj/examples/db_properties/workflow_withprocess/astral.properties
/usr/share/biomaj/examples/db_properties/workflow_withprocess/dbest.properties
/usr/share/biomaj/examples/db_properties/workflow_withprocess/drosoph.properties
/usr/share/biomaj/examples/db_properties/workflow_withprocess/ecoli.properties
/usr/share/biomaj/examples/db_properties/workflow_withprocess/env.properties
/usr/share/biomaj/examples/db_properties/workflow_withprocess/enzyme.properties
/usr/share/biomaj/examples/db_properties/workflow_withprocess/est.properties
/usr/share/biomaj/examples/db_properties/workflow_withprocess/genbankRelease.properties
/usr/share/biomaj/examples/db_properties/workflow_withprocess/geneontology.properties
/usr/share/biomaj/examples/db_properties/workflow_withprocess/go.properties
/usr/share/biomaj/examples/db_properties/workflow_withprocess/gss.properties
/usr/share/biomaj/examples/db_properties/workflow_withprocess/htgs.properties
/usr/share/biomaj/examples/db_properties/workflow_withprocess/human_genomic.properties
/usr/share/biomaj/examples/db_properties/workflow_withprocess/human_genomic_transcript.properties
/usr/share/biomaj/examples/db_properties/workflow_withprocess/igSeq.properties
/usr/share/biomaj/examples/db_properties/workflow_withprocess/interpro.properties
/usr/share/biomaj/examples/db_properties/workflow_withprocess/mouse_genomic_transcript.properties
/usr/share/biomaj/examples/db_properties/workflow_withprocess/nr.properties
/usr/share/biomaj/examples/db_properties/workflow_withprocess/nt.properties
/usr/share/biomaj/examples/db_properties/workflow_withprocess/omim.properties
/usr/share/biomaj/examples/db_properties/workflow_withprocess/other_genomic.properties
/usr/share/biomaj/examples/db_properties/workflow_withprocess/patent.properties
/usr/share/biomaj/examples/db_properties/workflow_withprocess/pdb.properties
/usr/share/biomaj/examples/db_properties/workflow_withprocess/pfam.properties
/usr/share/biomaj/examples/db_properties/workflow_withprocess/prosite.properties
/usr/share/biomaj/examples/db_properties/workflow_withprocess/refseq.properties
/usr/share/biomaj/examples/db_properties/workflow_withprocess/refseqRelease.properties
/usr/share/biomaj/examples/db_properties/workflow_withprocess/rfam.properties
/usr/share/biomaj/examples/db_properties/workflow_withprocess/sts.properties
/usr/share/biomaj/examples/db_properties/workflow_withprocess/swissprot.properties
/usr/share/biomaj/examples/db_properties/workflow_withprocess/taxonomy.properties
/usr/share/biomaj/examples/db_properties/workflow_withprocess/tgi.properties
/usr/share/biomaj/examples/db_properties/workflow_withprocess/unigene.properties
/usr/share/biomaj/examples/db_properties/workflow_withprocess/uniprot.properties
/usr/share/biomaj/examples/db_properties/workflow_withprocess/uniref.properties
/usr/share/biomaj/examples/db_properties/workflow_withprocess/uniref100.properties
/usr/share/biomaj/examples/db_properties/workflow_withprocess/uniref50.properties
/usr/share/biomaj/examples/db_properties/workflow_withprocess/uniref90.properties
/usr/share/biomaj/examples/db_properties/workflow_withprocess/vector.properties
/usr/share/biomaj/examples/db_properties/workflow_withprocess/wgs.properties
/usr/share/biomaj/examples/db_properties/workflow_withprocess/yeast.properties
/usr/share/doc/biomaj-properties/changelog.Debian.gz
/usr/share/doc/biomaj-properties/copyright

Changelog

2012-10-19 - Olivier Sallou <osallou@debian.org>
biomaj (1.2.1-1) unstable; urgency=low
* New usptream release
* Add Japanase debconf translation (Closes: #690698)
Thanks to victory <victory.deb@gmail.com>
2012-10-04 - Olivier Sallou <osallou@debian.org>
biomaj (1.2.0-10) unstable; urgency=low
* debian/rules, debian/postinst: fix permissions on
properties file.
2012-10-03 - Olivier Sallou <osallou@debian.org>
biomaj (1.2.0-9) unstable; urgency=low
* debian/patches/set_env_file_for_debian:
Prevent env.sh file update by program at install
(Closes: #688433)
2012-08-01 - Olivier Sallou <osallou@debian.org>
biomaj (1.2.0-8) unstable; urgency=low
[ Olivier Sallou ]
* debian/copyright: Fix copyright URL
* debian/control: Switch to Standards 3.9.4
* debian/rules, debian/postinst, debian/postrm: fix conffile update
conflicting with Debian Policy (Closes: #688433).
2012-08-01 - Olivier Sallou <osallou@debian.org>
biomaj (1.2.0-7) unstable; urgency=low
[ Olivier Sallou ]
Patch from James Page <james.page@ubuntu.com> (Closes: #683517)
* Transition package to use default java implementation:
- d/rules: Specify source/target = 1.5 to ensure bytecode is backwards
compatible.
- d/control: BD on default-jdk only. Switch runtime dependency to
default-jre | java6-runtime. 
2012-05-08 - Olivier Sallou <osallou@debian.org>
biomaj (1.2.0-6) unstable; urgency=low
[ Olivier Sallou ]
* Clean files for purge (Closes: #678490).
[ Andreas Tille ]
* debian/upstream: Enhance upstream information (authors format, missing
fields)
[Debconf translation updates]
* French (Olivier Sallou, proofread by the French l10n team).
2012-02-01 - Olivier Sallou <olivier.sallou@irisa.fr>
biomaj (1.2.0-5) unstable; urgency=low
* Add missing file to package to get the console help (Closes: #658833)
- biomaj.install
2011-12-16 - Olivier Sallou <olivier.sallou@irisa.fr>
biomaj (1.2.0-4) unstable; urgency=low
* [Olivier Sallou]
* config: remove biomaj/jdk_home, not needed anymore
* Debconf templates and debian/control reviewed by the debian-l10n-
english team as part of the Smith review project. Closes: #653408
* [Debconf translation updates]
* Russian (Yuri Kozlov).  Closes: #656111
* Italian (Francesca Ciceri).  Closes: #656254
* French (Olivier Sallou).  Closes: #656066
* Czech (Michal Simunek).  Closes: #656670
* Dutch; (Jeroen Schot).  Closes: #657009
* German (Chris Leick).  Closes: #657024
* Danish (Joe Hansen).  Closes: #657341
* Indonesian (Mahyuddin Susanto).  Closes: #657463
* Spanish; (Camaleón).  Closes: #657491
* Polish (Michał Kułach).  Closes: #657512
* Swedish (Martin Bagge / brother).  Closes: #657548
* Portuguese (Miguel Figueiredo).  Closes: #657664
2011-12-16 - Olivier Sallou <olivier.sallou@irisa.fr>
biomaj (1.2.0-3) unstable; urgency=low
* Add Portuguese translation for debconf (Closes: #651680)
- Thanks to Pedro Ribeiro <p.m42.ribeiro@gmail.com> 
2011-11-11 - Olivier Sallou <olivier.sallou@irisa.fr>
biomaj (1.2.0-2) unstable; urgency=low
* Fix Mysql dependency name.

See Also

Package Description
biomaj_1.2.1-1_all.deb biological data-bank updater
bioperl-run_1.6.9-1_all.deb BioPerl wrappers: scripts
bioperl_1.6.901-3_all.deb Perl tools for computational molecular biology
biosig-tools_1.3.0-2_amd64.deb format conversion tools for biomedical data formats
biosquid-dev_1.9g+cvs20050121-2_amd64.deb headers and static library for biological sequence analysis
biosquid_1.9g+cvs20050121-2_amd64.deb utilities for biological sequence analysis
bip_0.8.8-2_amd64.deb multiuser irc proxy with conversation replay and more
bird6_1.3.7-1_amd64.deb Internet Routing Daemon
bird_1.3.7-1_amd64.deb Internet Routing Daemon
birthday_1.6.2-3_amd64.deb Display information about pending events on login
bisho_0.27.2+git20111122.9e68ef3d-1_amd64.deb Meego web services settings
bison++_1.21.11-3_amd64.deb Generate a parser in c or c++ from BNF notation
bison_2.5.dfsg-2.1_amd64.deb YACC-compatible parser generator
bisonc++-doc_4.01.00-1_all.deb Bison-style parser generator for C++
bisonc++_4.01.00-1_amd64.deb Bison-style parser generator for C++
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