Bug#468760: RFP: libace-perl -- interface for the ACEDB database
Package: wnpp
Severity: wishlist
Dear all,
Recent versions of Bioperl, a suite of perl modules for
bioinformatics, depend on the modules provided by AcePerl. The
Debian-Med packaging team would be very happy to find a volunteer to
prepare a Debian package for it. We can provide support and
sponsorship (but please check first with the pkg-perl team if they
would be interested to host the package as well).
There might be copyright issues depending on the level of pickyness:
files under acelib/ have no clear copyright statement, but have been
released under GPL and LGPL in the ACEDB packages distributed by the
Sanger Center (see below). I do not know if these files are essential.
Package name : libace-perl
Version : 1.91
Upstream Author : Lincoln Stein lstein@cshl.org
URL : http://stein.cshl.org/AcePerl/
License : Same as Perl., and GPL/LGPL mix.
Programming Lang: Perl, C
Description : interface for the AceDB database
Here are stubs for the control and copyright files:
Priority: optional
Section: science
Homepage: interface for the AceDB database
Enhances: bioperl
Description: interface for the AceDB database
AcePerl is an object-oriented Perl interface for the AceDB
database. It provides functionality for connecting to remote AceDB
databases, performing queries, fetching ACE objects, and updating
databases. The programmer's API is compatible with the JADE Java API,
and interoperable with the API used by BoulderIO.
.
AceDB is a genome database system developed since 1989 primarily by
Jean Thierry-Mieg (CNRS, Montpellier) and Richard Durbin (Sanger
Institute). It was originally developed for the C.elegans genome
project , from which its name was derived (A C. elegans DataBase).
X-Format-Specification: http://wiki.debian.org/Proposals/CopyrightFormat
X-Upstream-Author: Lincoln Stein <lstein@cshl.org>
X-Source-Downloaded-From: http://stein.cshl.org/AcePerl/AcePerl.tar.gz
Files: acelib/*
Copyright: © 1991-1998 J Thierry-Mieg and R Durbin
License: Probably a mixture of GPL-2+ and LGPL-2+
This file is part of the ACEDB genome database package, written by
Richard Durbin (Sanger Centre, UK) rd@sanger.ac.uk, and
Jean Thierry-Mieg (CRBM du CNRS, France) mieg@kaa.crbm.cnrs-mop.fr
X-Comment: These files can be found licenced either as GPL-2+ or LGPL-2+
in ftp://ftp.sanger.ac.uk/pub/acedb/SUPPORTED/ACEDB-source.4.9.39.tar.gz
Files: Ace/Model.pm, Ace/Object.pm, Ace/Local.pm, Ace/Sequence/Multi.pm, Ace/Sequence/Homol.pm, Ace/Sequence/GappedAlignment.pm, Ace/Sequence/FeatureList.pm, Ace/Sequence/Feature.pm, Ace/Sequence/Gene.pm, Ace/Sequence/Transcript.pm, Ace/Sequence.pm
Copyright: © 1997-1999 Lincoln D. Stein
License: GPL-1+ | Artistic
(see below)
Files: *
Copyright: © 1998 Cold Spring Harbor Laboratory
License: GPL-1+ | Artistic
This library is free software; you can redistribute it and/or modify
it under the same terms as Perl itself. See the Artistic License file
in the main Perl distribution for specific terms and conditions of
use. In addition, the following disclaimers apply:
.
CSHL makes no representations whatsoever as to the SOFTWARE contained
herein. It is experimental in nature and is provided WITHOUT WARRANTY
OF MERCHANTABILITY OR FITNESS FOR A PARTICULAR PURPOSE OR ANY OTHER
WARRANTY, EXPRESS OR IMPLIED. CSHL MAKES NO REPRESENTATION OR
WARRANTY THAT THE USE OF THIS SOFTWARE WILL NOT INFRINGE ANY PATENT OR
OTHER PROPRIETARY RIGHT.
.
By downloading this SOFTWARE, your Institution hereby indemnifies CSHL
against any loss, claim, damage or liability, of whatsoever kind or
nature, which may arise from your Institution's respective use,
handling or storage of the SOFTWARE.
.
If publications result from research using this SOFTWARE, we ask that
CSHL be acknowledged and/or credit be given to CSHL scientists, as
scientifically appropriate.
X-Comment: On Debian systems, the complete text of the GNU General
Public License can be found in `/usr/share/common-licenses/GPL'.
X-Comment: On Debian systems, the complete text of the Artistic
license can be found in `/usr/share/common-licenses/Artistic'.
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