Source: htslib
Standards-Version: 4.7.4
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Uploaders:
 Charles Plessy <plessy@debian.org>,
 Andreas Tille <tille@debian.org>,
 Michael R. Crusoe <crusoe@debian.org>,
 Steffen Moeller <moeller@debian.org>,
 Étienne Mollier <emollier@debian.org>,
Section: science
Build-Depends:
 dpkg-dev (>= 1.22.5),
 debhelper-compat (= 14),
 libbz2-dev,
 libcurl4-gnutls-dev,
 liblzma-dev,
 libssl-dev,
 zlib1g-dev,
 libdeflate-dev,
 libhtscodecs-dev,
Vcs-Browser: https://salsa.debian.org/med-team/htslib
Vcs-Git: https://salsa.debian.org/med-team/htslib.git
Homepage: https://github.com/samtools/htslib

Package: libhts3t64
Architecture: any
Multi-Arch: same
Section: libs
Depends:
 ${misc:Depends},
 ${shlibs:Depends},
Pre-Depends:
 ${misc:Pre-Depends},
Breaks:
 libhts3 (<< ${source:Version}),
 libtabixpp (<< 1.0.0-5~),
 samtools (<< 1.17~),
Provides:
 ${t64:Provides},
Replaces:
 libhts3,
Description: C library for high-throughput sequencing data formats
 HTSlib is an implementation of a unified C library for accessing common file
 formats, such as SAM (Sequence Alignment/Map), CRAM and VCF (Variant Call
 Format), used for high-throughput sequencing data, and is the core library
 used by samtools and bcftools. HTSlib only depends on zlib. It is known to be
 compatible with gcc, g++ and clang.
 .
 HTSlib implements a generalized BAM (binary SAM) index, with file extension
 ‘csi’ (coordinate-sorted index). The HTSlib file reader first looks for the
 new index and then for the old if the new index is absent.

Package: libhts-dev
Architecture: any
Multi-Arch: same
Section: libdevel
Depends:
 libbz2-dev,
 libhts3t64 (= ${binary:Version}),
 libcurl4-gnutls-dev,
 libdeflate-dev,
 liblzma-dev,
 zlib1g-dev,
 ${misc:Depends},
Description: development files for the HTSlib
 HTSlib is an implementation of a unified C library for accessing common file
 formats, such as SAM (Sequence Alignment/Map), CRAM and VCF (Variant Call
 Format), used for high-throughput sequencing data, and is the core library
 used by samtools and bcftools. HTSlib only depends on zlib. It is known to be
 compatible with gcc, g++ and clang.
 .
 HTSlib implements a generalized BAM (binary SAM) index, with file extension
 ‘csi’ (coordinate-sorted index). The HTSlib file reader first looks for the
 new index and then for the old if the new index is absent.
 .
 This package contains development files for the HTSlib: headers, static
 library, manual pages, etc.
 .
 For compatibility with sambamba, the internal routine cram_to_bam was
 exported, hereto adopting a patch found in guix.

Package: htslib-test
Architecture: all
Multi-Arch: foreign
Depends:
 python3,
 ${misc:Depends},
 ${perl:Depends},
Description: Test data for HTSlib
 HTSlib is an implementation of a unified C library for accessing common file
 formats, such as SAM (Sequence Alignment/Map), CRAM and VCF (Variant Call
 Format), used for high-throughput sequencing data, and is the core library
 used by samtools and bcftools. HTSlib only depends on zlib. It is known to be
 compatible with gcc, g++ and clang.
 .
 HTSlib implements a generalized BAM (binary SAM) index, with file extension
 ‘csi’ (coordinate-sorted index). The HTSlib file reader first looks for the
 new index and then for the old if the new index is absent.
 .
 This package contains test files and scripts for the HTSlib.

Package: tabix
Architecture: any
Depends:
 ${misc:Depends},
 ${shlibs:Depends},
Description: generic indexer for TAB-delimited genome position files
 Tabix indexes files where some columns indicate sequence coordinates: name
 (usually a chromosome), start and stop. The input data file must be position
 sorted and compressed by bgzip (provided in this package), which has a gzip
 like interface. After indexing, tabix is able to quickly retrieve data lines by
 chromosomal coordinates. Fast data retrieval also works over network if an URI
 is given as a file name.
 .
 This package is built from the HTSlib source, and provides the bgzip, htsfile,
 and tabix tools.
