licensed, and does not download anything as part of
> > the install process. It has two dependencies: Python and the lynx
> > browser. Python 2 and 3 versions are included in the tarball but it is
> > presumed that the preferred Python version is now Python 3, so that is
> > the defaul
You created an itp so an intent to package.
If not willing to propose a apckage should be an rfp request for package.
Ideally you package your app and propose it for review and upload.
Requirements are an open source license and package install should not
download anything.
Only its execution can
Good news, upstream license has been modified after some rewriting (see
issue closed https://github.com/jshint/jshint/issues/1234), so should fit
for debian now
Package: wnpp
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X-Debbugs-Cc: debian-de...@lists.debian.org,
python-modules-t...@lists.alioth.debian.org
* Package name: python-ftputil
Version : 3.4
Upstream Author : Stefan Schwarzer
* URL : https://ftputil.sschwarzer.net/trac
Package: wnpp
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Owner: Olivier Sallou
X-CC: python-modules-t...@lists.alioth.debian.org
* Package name: python-irodsclient
Version : 0.8.1
Upstream Author : The University of North Carolina at Chapel Hill
* URL : https://github.com/irods/python
Package: wnpp
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X-CC: debian-med-packag...@lists.alioth.debian.org
* Package name: gkl
Version : 1.0.0
Upstream Author : Intel corporation
* URL : *Accelerated kernel library for genomics*
* L
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* Package name: gatk-native-bindings
Version : 1.0.0
Upstream Author : GATK authors
* URL : *https://github.com/broadinstitute/gatk-
- Mail original -
> De: "Andreas Tille"
> À: 777...@bugs.debian.org
> Cc: debian-pyt...@lists.debian.org, "Debian Science List"
>
> Envoyé: Vendredi 2 Février 2018 09:16:55
> Objet: Preconditions for python-moto finished - help
- Mail original -
> De: "Olivier Sallou" <olivier.sal...@irisa.fr>
> À: "Andreas Tille" <andr...@an3as.eu>
> Cc: debian-pyt...@lists.debian.org, "Debian Science List"
> <debian-scie...@lists.debian.org>, 777...@bugs.debian.or
- Mail original -
> De: "Andreas Tille"
> À: debian-pyt...@lists.debian.org, "Debian Science List"
> , 777...@bugs.debian.org
> Envoyé: Lundi 22 Janvier 2018 15:04:10
> Objet: Re: Next python-mote pre-condition - issue with pybuild:
>
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* Package name: biomaj3
Version : 3.1.3
Upstream Author : Olivier Sallou <olivier.sal...@irisa.fr>
* URL : https://github.com/gen
Package: wnpp
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Owner: Olivier Sallou <osal...@debian.org>
X-CC: debian-med-packag...@lists.alioth.debian.org
* Package name: biomaj3-cli
Version : 3.0.7
Upstream Author : Olivier Sallou <olivier.sal...@irisa.fr>
* URL : https://github.
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Owner: Olivier Sallou <osal...@debian.org>
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* Package name: biomaj3-daemon
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Upstream Author : Olivier Sallou <olivier.sal...@irisa.fr>
* URL : https://github.
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Owner: Olivier Sallou <osal...@debian.org>
X-CC: debian-med-packag...@lists.alioth.debian.org
* Package name: biomaj3-process
Version : 3.0.7
Upstream Author : Olivier Sallou <olivier.sal...@irisa.fr>
* URL : https://github.
Package: wnpp
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Owner: Olivier Sallou <osal...@debian.org>
X-CC: debian-med-packag...@lists.alioth.debian.org
* Package name: biomaj3-download
Version : 3.0.9
Upstream Author : Olivier Sallou <olivier.sal...@irisa.fr>
* URL : https:
Package: wnpp
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Owner: Olivier Sallou <osal...@debian.org>
X-CC: debian-med-packag...@lists.alioth.debian.org
* Package name: biomaj3-zipkin
Version : 0.2.2
Upstream Author : Olivier Sallou <olivier.sal...@irisa.fr>
* URL : http://biomaj.
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X-CC: debian-med-packag...@lists.alioth.debian.org
* Package name: biomaj3-user
Version : 3.0.6
Upstream Author : Olivier Sallou <olivier.sal...@irisa.fr>
* URL : http://biomaj.
ok, I have upoaded python3 version (policy specifies to upload python3 only)
Le jeu. 17 août 2017 à 12:41, Thomas Goirand <z...@debian.org> a écrit :
> On 08/17/2017 11:17 AM, olivier sallou wrote:
> > Hi,
> > I need the python3 consul client for a package, what is your prog
Package: wnpp
Severity: wishlist
Owner: Olivier Sallou <osal...@debian.org>
X-CC: debian-med-packag...@lists.alioth.debian.org
* Package name: biomaj3-core
Version : 3.0.9
Upstream Author : Olivier Sallou <olivier.sal...@irisa.fr>
* URL : http://biomaj.
Package: wnpp
Severity: wishlist
Owner: Olivier Sallou <osal...@debian.org>
* Package name: python-py-zipkin
Version : 0.9.0
Upstream Author : Yelp, Inc. <opensource+py-zip...@yelp.com>
* URL : https://github.com/Yelp/py_zipkin
* License
Package: wnpp
Severity: wishlist
Owner: Olivier Sallou <osal...@debian.org>
* Package name: thriftpy
Version : 0.3.9
Upstream Author : Lx Yu <i...@lxyu.net>
* URL : https://thriftpy.readthedocs.org/
* License : MIT
Programming Lang: Python
binaries are problems in Debian when managing modules with binaries.
Solution is usually to rename binary in one of the modules
For humanfriendly, you would get humanfriendly in python2 package and
humanfriendly3 in pythno3 for example, each with its own manpage.
Not very cool, as you need, in
Hi,
I would need python(3)-consul for a package, is there any progress on this
package?
Thanks
Olivier
Package: wnpp
Severity: wishlist
Owner: Olivier Sallou <osal...@debian.org>
* Package name: biomaj3
Version : 3.0.20
Upstream Author : Olivier Sallou
* URL : *https://github.com/genouest/biomaj
<https://github.com/genouest/biomaj>*
* License
Package: wnpp
Severity: wishlist
Owner: Olivier Sallou <osal...@debian.org>
* Package name: baitfisher
Version : 1.0
Upstream Author : Christoph Mayer
* URL : https://github.com/cmayer/BaitFisher-package
* License : GPL
Programming Lang: C++
Descr
Package: wnpp
Severity: wishlist
Owner: root
* Package name: bedops
Version : 2.4.20
Upstream Author : Shane J. Neph, M. Scott Kuehn and Alex P. Reynolds
* URL : https://github.com/bedops/bedops
* License : GPL
Programming Lang: C++
Package: wnpp
Severity: wishlist
Owner: Olivier Sallou <olivier.sal...@irisa.fr>
* Package name : python-dictobj
Version : 0.4
Upstream Author : William Grim
* URL : https://github.com/grimwm/py-dictobj
* License : Apache 2.0
Programming Lang: Python
Description : python l
Package: wnpp
Severity: wishlist
Owner: Olivier Sallou <olivier.sal...@irisa.fr>
* Package name: python-dictobj
Version : 0.4
Upstream Author : William Grim
* URL : https://github.com/grimwm/py-dictobj
* License : Apache 2.0
Programming Lang:
Package: wnpp
Severity: wishlist
Owner: Olivier Sallou osal...@debian.org
* Package name: repeatmasker-recon
Version : 1.08
Upstream Author : Institute for Systems Biology
* URL : http://www.repeatmasker.org/
* License : GPL
Programming Lang: C, Perl
Package: wnpp
Severity: wishlist
Owner: Olivier Sallou osal...@debian.org
* Package name: libsis-base-java
Version : 14.12.0
Upstream Author : ETH Zuerich, CISD
* URL : https://wiki-bsse.ethz.ch/display/JHDF5/Download+Page
* License : Apache
Programming Lang
Package: wnpp
Severity: wishlist
Owner: Olivier Sallou osal...@debian.org
* Package name: libsis-jhdf5-java
Version : 14.12.1
Upstream Author : ETH Zuerich CISD
* URL : http://svncisd.ethz.ch/repos/cisd/jhdf5/tags/release/
* License : Apache
Programming Lang
Package: wnpp
Severity: wishlist
Owner: Olivier Sallou osal...@debian.org
* Package name: python-eta
Version : 0.9.7
Upstream Author : Marcus Breese
* URL : https://github.com/mbreese/eta
* License : BSD
Programming Lang: Python
Description : python
Package: wnpp
Severity: wishlist
Owner: Olivier Sallou osal...@debian.org
* Package name: bio-rainbow
Version : 2.4.0
Upstream Author : Jue Ruan ruan...@gmail.com
* URL : http://sourceforge.net/projects/bio-rainbow/
* License : GPL
Programming Lang: C, Perl
Package: wnpp
Severity: wishlist
Owner: Olivier Sallou olivier.sal...@irisa.fr
X-Debbugs-Cc: debian-...@lists.debian.org
* Package name: python-cutadapt
Version : 1.8.3
Upstream Author : Marcel Martin marcel.mar...@scilifelab.se
* URL : http://pypi.python.org/pypi
Le ven. 1 mai 2015 10:03, Andreas Tille andr...@an3as.eu a écrit :
Hi Olivier,
On Thu, Apr 30, 2015 at 03:16:51PM +, olivier sallou wrote:
The OBITools package is a set of programs specifically designed for
analyzing NGS data in a DNA metabarcoding context, taking into account
taxonomic
Le jeu. 30 avr. 2015 à 23:57, Ben Hutchings b...@decadent.org.uk a écrit :
On Thu, 2015-04-30 at 16:23 +, olivier sallou wrote:
[...]
Nope, not yet. However, as I discussed with one guy of the team some
time ago, I do not think there is any plan to go to python3.
This is an academic
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Owner: Olivier Sallou osal...@debian.org
* Package name: python-obitools
Version : 1.1.16
Upstream Author : Eric Coissac
* URL : http://metabarcoding.org//obitools/
* License : CeCILL-V2
Programming Lang: Python
Description
Le jeu. 30 avr. 2015 à 17:42, Scott Kitterman deb...@kitterman.com a
écrit :
On Thursday, April 30, 2015 05:13:03 PM Olivier Sallou wrote:
Package: wnpp
Severity: wishlist
Owner: Olivier Sallou osal...@debian.org
* Package name: python-obitools
Version : 1.1.16
Package: wnpp
Severity: wishlist
Owner: Olivier Sallou osal...@debian.org
* Package name: biojava4-live
Version : 4.0.0
Upstream Author : biojava team
* URL : *http://biojava.org/wiki/Main_Page
http://biojava.org/wiki/Main_Page*
* License : LGPL-2
Package: wnpp
Severity: wishlist
Owner: Bertrand Neron bne...@pasteur.fr
* Package name: macsyfinder
Version : 1.0.2
Upstream Author : Abby SS, Néron B, Ménager H, Touchon M, Rocha
* URL : https://github.com/gem-pasteur/macsyfinder
* License : GPL-3.
Subject: ITP: prodigal -- microbial (bacterial and archaeal) gene finding
program
Package: wnpp
Owner: Olivier Sallou olivier.sal...@irisa.fr
Severity: wishlist
* Package name: prodigal
Version : 2.60
Upstream Author : Doug Hyatt
* URL : http://prodigal.ornl.gov
Package: wnpp
Severity: wishlist
Owner: Olivier Sallou olivier.sal...@irisa.fr
* Package name: discosnp
Version : 1.0.1
Upstream Author : INRIA
* URL : http://colibread.inria.fr/discosnp/
* License : CeCILL
Programming Lang: C
Description : discovering
Package: wnpp
Severity: wishlist
Owner: Olivier Sallou olivier.sal...@irisa.fr
* Package name: mapsembler2
Version : 2.0.5
Upstream Author : INRIA
* URL : https://colibread.inria.fr/mapsembler2/
* License : CeCILL
Programming Lang: C
Description
Package: wnpp
Severity: wishlist
Owner: Olivier Sallou olivier.sal...@irisa.fr
* Package name: minia
Version : 1.6067
Upstream Author : Rayan
* URL : http://minia.genouest.org
* License : CeCILL
Programming Lang: C
Description : short-read assembler
Package: wnpp
Severity: wishlist
Owner: Olivier Sallou olivier.sal...@irisa.fr
* Package name: readseq2
Version : 2.1.30
Upstream Author : D. Gilbert gilbe...@bio.indiana.edu
* URL : http://iubio.bio.indiana.edu/soft/molbio/readseq/java/
* License : Public
Package: wnpp
Severity: wishlist
Owner: Olivier Sallou olivier.sal...@irisa.fr
* Package name: libcofoja-java
Version : 1.0~r139
Upstream Author : Google Inc
* URL : https://code.google.com/p/cofoja/
* License : LGPL
Programming Lang: Java
Description
Package: wnpp
Severity: wishlist
Owner: Olivier Sallou osal...@debian.org
* Package name: mobyle-tutorials
Version : 1.5.0
Upstream Author : Mobyle team
* URL : ftp://ftp.pasteur.fr/pub/GenSoft/projects/mobyle/
* License : LGPL-2+
Programming Lang: XML
2012/11/13 Charles Plessy ple...@debian.org
Package: wnpp
Severity: normal
I request assistance with maintaining the cloud-init package.
The package description is:
System to handle early initialization of a cloud instance. Cloud-init can
for
example set a default locale and a host
Le 11/8/12 8:40 AM, Olivier Sallou a écrit :
Le 11/7/12 3:29 PM, Andreas Tille a écrit :
Hi,
I stumbled upon this one and did some work on it in
Vcs-Svn:
http://svn.debian.org/debian-med/trunk/packages/babraham/fastqc/trunk/
It is close to lintian clean now but there is some
Le 11/8/12 8:40 AM, Olivier Sallou a écrit :
Le 11/7/12 3:29 PM, Andreas Tille a écrit :
Hi,
I stumbled upon this one and did some work on it in
Vcs-Svn:
http://svn.debian.org/debian-med/trunk/packages/babraham/fastqc/trunk/
It is close to lintian clean now but there is some
generation sequencing data
The Debian Med source code repository has some functional (not lintian
clean) package in
trunk/packages/babraham/fastqc.
--
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IRISA / University of Rennes 1
Campus de Beaulieu, 35000 RENNES - FRANCE
Tel: 02.99.84.71.95
gpg key id: 4096R/326D8438
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* Package name: libsnappy1.0.3-java
Version : 1.0.3-rc3
Upstream Author : Xerial.org
* URL :
https://code.google.com/p/snappy-java/downloads/list?can=4q=colspec=Filename+Summary+Uploaded
Package: wnpp
Severity: wishlist
Owner: Olivier Sallou osal...@debian.org
* Package name: soapdenovo
Version : 1.0.5
Upstream Author : BGI-Shenzhen
* URL : http://soap.genomics.org.cn/soapdenovo.html
* License : GPL3+
Programming Lang: C
Description
I have sent an email to upstream author to get a versioning between
binaries and sources.
Sources are not delivered, only in SVN, and not tagged.
We can watch new version via download page on binaries but we cannot
match a binary with a source SVN commit or tag.
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Package: wnpp
Severity: wishlist
Owner: Olivier Sallou osal...@debian.org
* Package name: logol
Version : 1.5.0
Upstream Author : Olivier Sallou olivier.sal...@irisa.fr
* URL : http://logol.genouest.org
* License : CeCILL
Programming Lang: Java, Prolog
Package: wnpp
Severity: wishlist
Owner: Olivier Sallou osal...@debian.org
* Package name: biojava3
Version : 3.0.4
Upstream Author : BioJava team
* URL : http://www.biojava.org/
* License : LGPL
Programming Lang: Java
Description : Java API to develop
Package: wnpp
Severity: wishlist
Owner: Olivier Sallou osal...@debian.org
* Package name: forester
Version : 0.955
* URL : http://code.google.com/p/forester/
* License : LGPL
Programming Lang: Java
Description : library for phylogenomics
Upstream author licensed impacted file under GLP v3, leveraging issue.
-- Forwarded message --
From: Cay Horstmann c...@horstmann.com
Date: 2012/3/24
Subject: Re: Licensing of an old Java code
To: olivier sallou olivier.sal...@gmail.com
I attach the latest version that I have
Package: wnpp
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Owner: Olivier Sallou osal...@debian.org
* Package name: libjlapack-java
Version : 0.8
Upstream Author : Keith Seymour
* URL : http://icl.cs.utk.edu/f2j/
* License : BSD
Programming Lang: Fortran, Java
Description
Package: wnpp
Severity: wishlist
Owner: Olivier Sallou osal...@debian.org
* Package name: libnetlib-java
Version : 0.9.3
Upstream Author : Sam Halliday sam.halli...@gmail.com
* URL : http://code.google.com/p/netlib-java
* License : BSD
Programming Lang
Arrggh!!
The file src/util/org/j_paine/formatter/CJFormat.java presents a non
compatible license:
/*^M
* Gary Cornell and Cay S. Horstmann, Core Java (Book/CD-ROM)^M
* Published By SunSoft Press/Prentice-Hall^M
* Copyright (C) 1996 Sun Microsystems Inc.^M
* All Rights Reserved. ISBN
?
Regarding the nature of this particular code, I don't think this would
an issue for you.
If you agree to do so, can you please answer this email with a format
agreement as well as the selected licence.
Regards
Olivier Sallou
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Key fingerprint
Package: wnpp
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Owner: Olivier Sallou olivier.sal...@irisa.fr
* Package name: j2f
Version : 0.8.1
Upstream Author : Keith Seymour (seym...@cs.utk.edu)
* URL : http://sourceforge.net/projects/f2j/
* License : GPL
Programming Lang: C
Package: wnpp
Severity: wishlist
Owner: Olivier Sallou olivier.sal...@irisa.fr
* Package name: gassst
Version : 1.28
Upstream Author : Dominique Lavanier dominique.lavan...@irisa.fr
* URL : http://www.irisa.fr/symbiose/projects/gassst/
* License : CeCILL v2
Clustal-Omega is a general purpose multiple sequence alignment (MSA)
program for proteins. It produces high quality MSAs and is capable of
handling data-sets of hundreds of thousands of sequences in reasonable
time.
In default mode, users give a file of sequences to be aligned and
these are
Package: wnpp
Severity: wishlist
Owner: Olivier Sallou olivier.sal...@irisa.fr
* Package name: clustalo
Version : 1.0.3
Upstream Author : clust...@ucd.ie
* URL : http://www.clustal.org/omega/
* License : GPL
Programming Lang: C
Description : Clustal
Package: wnpp
Severity: wishlist
Owner: Olivier Sallou olivier.sal...@irisa.fr
* Package name: libbio-chado-schema-perl
Version : 0.09010
Upstream Author : Robert Bruels rbu...@cpan.org
* URL :
http://search.cpan.org/~rbuels/Bio-Chado-Schema/lib/Bio/Chado/Schema.pm
Package: wnpp
Severity: wishlist
Owner: Olivier Sallou olivier.sal...@irisa.fr
* Package name: libdbix-class-tree-nestedset-perl
Version : 0.10
Upstream Author : Ian Docherty pa...@iandocherty.com
* URL :
http://search.cpan.org/~icydee/DBIx-Class-Tree-NestedSet-0.10
Hi,
maybe package name should be libtorque-drmaa.
Debian contains torque-xxx packages for Torque stuff, and as drmaa is a
library I think it should be name according to this scheme.
drmaa lib for sge is libdrmaa(-xxx for java etc...), so it would also be
coherent.
Regards,
Olivier
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Package: wnpp
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Owner: Olivier Sallou olivier.sal...@irisa.fr
* Package name: ruby-cassiopee
Version : 0.1.8
Upstream Author : Olivier Sallou olivier.sal...@irisa.fr
* URL : https://rubygems.org/gems/cassiopee
* License : GPL
Programming
Package: wnpp
Severity: wishlist
Owner: Olivier Sallou olivier.sal...@irisa.fr
* Package name: ruby-text
Version : 1.1.2
Upstream Author : Paul Battley, Michael Neumann, Tim Fletcher
* URL : https://rubygems.org/gems/Text
* License : GPL
Programming Lang
Package: wnpp
Severity: wishlist
Owner: Olivier Sallou olivier.sal...@irisa.fr
* Package name: chado
Version : 1.11
Upstream Author : GMOD
* URL : http://gmod.org/wiki/Chado_-_Getting_Started
* License : Artistic License 2.0
Programming Lang: Perl,SQL
owner: olivier.sal...@irisa.fr
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* Package name: mobyle
Version : 1.0.0
Upstream Author : Herve Menager herve.mena...@pasteur.fr
* URL : https://projets.pasteur.fr/wiki/mobyle/download
* License : GPL
Programming
Package: wnpp
Severity: wishlist
Owner: Olivier Sallou olivier.sal...@irisa.fr
* Package name: pycaptcha
Version : 2.4
Upstream Author : Micah Dowty micah at navi cx
* URL : http://pypi.python.org/pypi/PyCAPTCHA/0.4
* License : MIT
Programming Lang: Python
I tried to clarify license on pointers fonts embedded in upstream software.
Author is ok to allow modifications on sources.
- Mail transféré -
De: Russ Rowlett rowl...@email.unc.edu
À: Olivier Sallou olivier.sal...@irisa.fr
Envoyé: Lundi 1 Août 2011 23:04:46
Objet: RE: font pointers
Message original
Sujet: RE: font pointers license
Date : Tue, 2 Aug 2011 12:36:41 +
De :Rowlett, Russ rowl...@email.unc.edu
Pour : Olivier Sallou olivier.sal...@irisa.fr
Yes, that would be OK.
Russ
From: Olivier Sallou
/intro/circular_approach ---
this makes Circos ideal for exploring relationships between objects or
positions
Upstream author: Martin Krzywinski mart...@bcgsc.ca
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Tel: 02.99.84.71.95
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License: GPL2+
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Tel: 02.99.84.71.95
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X-Debbugs-CC:debian-...@lists.debian.org
Language: Perl
Homepage: http://search.cpan.org/dist/Math-VecStat/
Description: This package offers some basic statistics on vectors
(min,max,average,)
Dependencies: None
Upstream author: Andrea Spinelli
--
Olivier
Package: wnpp
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Owner: Olivier Sallou olivier.sal...@irisa.fr
Package name: ncbi-blast-plus
Version : 2.2.25
URL :
http://blast.ncbi.nlm.nih.gov/Blast.cgi?CMD=WebPAGE_TYPE=BlastDocsDOC_TYPE=Download
License : public domain
Programming Lang: C
I could have a look for dropdown css.
License is GNU GPL.
It comes from http://lwis.net/free-css-drop-down-menu/
For readseq.c, I decided to remove contrib directory from source, while
other contribs are not clear from license point of view.
Contribs are not required for software usage.
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Package: wnpp
Severity: wishlist
X-Debbugs-CC: debian-...@lists.debian.org
Maintainer: Olivier Sallou olivier.sal...@irisa.fr
Language: C
License: GNU v2
Upstream Author: Nicolas Joly nj...@pasteur.fr
Homepage: ftp://ftp.pasteur.fr/pub/gensoft/projects/squizz/
Description:
Squizz is a sequence
I created a support request at upstream source to get more info on some
licensing issues in files. I join mail exchange and reference
Support Requests item #3201863, was opened at 2011-03-07 08:01
Message generated for change (Settings changed) made by scottcain
You can respond by visiting:
Package has been update to use javascript libraries packaged in Debian
(prototype/scriptaculous) after maintainer has updated them on sid.
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Regards
Olivier
Le 2/23/11 2:36 PM, Olivier Sallou a écrit :
Hi,
I repackaged gbrowse2, I gonna update the svn of gbrowse on trunk
I will let you know once ready to have a look ...
Olivier
Le 2/6/11 1:52 PM, Charles Plessy a écrit :
Le Sun, Feb 06, 2011 at 10:49:42AM +0100, Olivier Sallou
Hi,
I repackaged gbrowse2, I gonna update the svn of gbrowse on trunk
I will let you know once ready to have a look ...
Olivier
Le 2/6/11 1:52 PM, Charles Plessy a écrit :
Le Sun, Feb 06, 2011 at 10:49:42AM +0100, Olivier Sallou a écrit :
I am looking at GBrowse2 packaging.
If I succeed
for working on this package
Andreas.
On Wed, Jan 05, 2011 at 06:14:27PM +0100, Olivier Sallou wrote:
Package: biomaj
Version: 1.1.0
Severity: wishlist
I want to package the Biomaj tool (http://biomaj.genouest.org) for Debian.
The tool is already on production on several servers worldwide
Package name: biomaj
Version : 1.1.0
Upstream Author : Olivier Sallou olivier.sal...@irisa.fr
Programming Lang: Java
License: CeCILL, french equivalent of GNU GPL
Description: Biological banks updater
BioMAJ downloads remote biological data banks, check their status
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