Bug#729282: ITP: htslib -- C library for high-throughput sequencing data formats

[Charles Plessy <plessy@debian.org>]

Package: wnpp
Severity: wishlist
Owner: Charles Plessy <plessy@debian.org>

Hello everybody,

I intend to package the HTSlib, that some existing packages (samtools,
tabix) will need later.

Cheers,

-- Charles Plessy, Tsurumi, Kanagawa, Japan

  Package name    : htslib
  Version         : 0.2
  Upstream Author : See below
  URL             : https://github.com/samtools/htslib/tree/develop
  License         : Mostly MIT, see below
  Programming Lang: C
  Description     : C library for high-throughput sequencing data formats


Package: libhts0
Architecture: any
Multi-Arch: same
Depends: ${shlibs:Depends},
         ${misc:Depends}
Description: C library for high-throughput sequencing data formats
 
 HTSlib is a unified C library for accessing common file formats, such as SAM
 (Sequence Alignment/Map) and VCF (Variant Call Format), used for nucleic acid
 sequence data obtained by high-throughput sequencing.
 .
 HTSlib implements a generalized BAM (binary SAM) index.  The HTSlib file
 reader first looks for the new index and then for the old if the new index is
 absent.
 .
 HTSlib is still experimental.  It has not been tested on large-scale real data. Some
 useful APIs are missing.

Package: libhts-dev
Architecture: any
Multi-Arch: same
Section: libdevel
Depends: ${shlibs:Depends},
         ${misc:Depends}
Description: Development files for the HTSlib
 HTSlib is a unified C library for accessing common file formats, such as SAM
 (Sequence Alignment/Map) and VCF (Variant Call Format), used for nucleic acid
 sequence data obtained by high-throughput sequencing.
 .
 This package contains development files: headers, static library, manual pages,
 etc.

Package: htslib-test
Architecture: all
Depends: ${misc:Depends}
Description: Test data for HTSlib
 HTSlib is a unified C library for accessing common file formats, such as SAM
 (Sequence Alignment/Map) and VCF (Variant Call Format), used for nucleic acid
 sequence data obtained by high-throughput sequencing.
 .
 This package contains test files and scripts for the HTSlib.


Files: *
Copyright: (C) 2012-2013 Genome Research Ltd.
           (c) 2008 Broad Institute / Massachusetts Institute of Technology
           The Wellcome Trust Sanger Institute
           (c) 2008, 2009, 2011 by Attractive Chaos <attractor@live.co.uk>
License: MIT

Files: cram/*
Copyright: (c) 2012-2013 Genome Research Ltd.
           (c) 1995-1996 MEDICAL RESEARCH COUNCIL
License: Various_BSD-3-Clause

Files: cram/md5.? 
Copyright: No copyright is claimed
License: solar-MD5
 This is an OpenSSL-compatible implementation of the RSA Data Security, Inc.
 MD5 Message-Digest Algorithm (RFC 1321).
 .
 Homepage:
 http://openwall.info/wiki/people/solar/software/public-domain-source-code/md5
 .
 Author:
 Alexander Peslyak, better known as Solar Designer <solar at openwall.com>
 .
 This software was written by Alexander Peslyak in 2001.  No copyright is
 claimed, and the software is hereby placed in the public domain.
 In case this attempt to disclaim copyright and place the software in the
 public domain is deemed null and void, then the software is
 Copyright (c) 2001 Alexander Peslyak and it is hereby released to the
 general public under the following terms:
 .
 Redistribution and use in source and binary forms, with or without
 modification, are permitted.
 .
 There's ABSOLUTELY NO WARRANTY, express or implied.

Files: htslib/razf.?
Copyright: 2008, Jue Ruan <ruanjue@gmail.com>, Heng Li <lh3@sanger.ac.uk>
License: BSD-2-clause~with-minor-differences-in-the-disclaimer