staden-io-lib-utils_1.14.6-2_i386.deb


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Description

staden-io-lib-utils - programs for maniuplating DNA sequencing files

Distribution: Ubuntu 16.04 LTS (Xenial Xerus)
Repository: Ubuntu Universe i386
Package name: staden-io-lib-utils
Package version: 1.14.6
Package release: 2
Package architecture: i386
Package type: deb
Installed size: 483 B
Download size: 122.40 KB
Official Mirror: archive.ubuntu.com
The io_lib from the Staden package is a library of file reading and writing code to provide a general purpose trace file (and Experiment File) reading interface. It has been compiled and tested on a variety of unix systems, MacOS X and MS Windows. This package contains the programs that are distributed with the Staden io_lib for manipulating and converting sequencing data files, and in particular files to maniuplate short reads generated by second and third generation sequencers and stored in SRF format.

Alternatives

    Download

    Source package: staden-io-lib

    Install Howto

    1. Update the package index:
      # sudo apt-get update
    2. Install staden-io-lib-utils deb package:
      # sudo apt-get install staden-io-lib-utils

    Files

    • /usr/bin/append_sff
    • /usr/bin/convert_trace
    • /usr/bin/cram_dump
    • /usr/bin/cram_index
    • /usr/bin/cram_size
    • /usr/bin/extract_fastq
    • /usr/bin/extract_qual
    • /usr/bin/extract_seq
    • /usr/bin/get_comment
    • /usr/bin/hash_exp
    • /usr/bin/hash_extract
    • /usr/bin/hash_list
    • /usr/bin/hash_sff
    • /usr/bin/hash_tar
    • /usr/bin/index_tar
    • /usr/bin/makeSCF
    • /usr/bin/scf_dump
    • /usr/bin/scf_info
    • /usr/bin/scf_update
    • /usr/bin/scram_flagstat
    • /usr/bin/scram_merge
    • /usr/bin/scram_pileup
    • /usr/bin/scram_test
    • /usr/bin/scramble
    • /usr/bin/srf2fasta
    • /usr/bin/srf2fastq
    • /usr/bin/srf_dump_all
    • /usr/bin/srf_extract_hash
    • /usr/bin/srf_extract_linear
    • /usr/bin/srf_filter
    • /usr/bin/srf_index_hash
    • /usr/bin/srf_info
    • /usr/bin/srf_list
    • /usr/bin/trace_dump
    • /usr/bin/ztr_dump
    • /usr/share/doc-base/staden-io-lib-hash-file-format
    • /usr/share/doc-base/staden-io-lib-ztr-format
    • /usr/share/doc/staden-io-lib-utils/Hash_File_Format
    • /usr/share/doc/staden-io-lib-utils/README.gz
    • /usr/share/doc/staden-io-lib-utils/ZTR_format.gz
    • /usr/share/doc/staden-io-lib-utils/changelog.Debian.gz
    • /usr/share/doc/staden-io-lib-utils/copyright
    • /usr/share/man/man1/scramble.1.gz
    • /usr/share/man/man1/srf2fasta.1.gz
    • /usr/share/man/man1/srf2fastq.1.gz
    • /usr/share/man/man1/srf_dump_all.1.gz
    • /usr/share/man/man1/srf_filter.1.gz
    • /usr/share/man/man1/srf_index_hash.1.gz
    • /usr/share/man/man1/srf_info.1.gz
    • /usr/share/man/man1/srf_list.1.gz

    Changelog

    2015-11-24 - Andreas Tille <tille@debian.org> staden-io-lib (1.14.6-2) unstable; urgency=medium * Enable separate building of arch independet packages Closes: #806112 * Adapt to latest d-shlibs

    2015-11-08 - Andreas Tille <tille@debian.org> staden-io-lib (1.14.6-1) unstable; urgency=medium * New upstream version Closes: #793514

    2015-09-22 - Andreas Tille <tille@debian.org> staden-io-lib (1.14.2-1) unstable; urgency=medium [ Charles Plessy ] * Removed debian/libstaden-read1.symbols_old (that is what VCSes are for). [ Andreas Tille ] * New upstream version * New soname - so change library package name

    2015-07-27 - Andreas Tille <tille@debian.org> staden-io-lib (1.14.0-1) unstable; urgency=medium * New upstream version * Deactivated libstaden-read1.symbols for the moment by renaming it to libstaden-read1.symbols_old (feel free to maintain this file but in this form the package does not build) * d/copyright: remove paragraph about not existing file

    2015-07-05 - Andreas Tille <tille@debian.org> staden-io-lib (1.13.10-1) unstable; urgency=medium [ Andreas Tille ] * New upstream version * cme fix dpkg-control [ Charles Plessy ] * Multi-Arch: same. * Unfuzzy debian/patches/pathmax.patch. * Update symbols file.

    2014-06-20 - Charles Plessy <plessy@debian.org> staden-io-lib (1.13.7-1) unstable; urgency=medium * New upstream release. * Removed debian/patches/fix-bam-read.patch, applied upstream. * debian/libstaden-read1.symbols: updated. Some symbols are missing but it is in area of code that are considered beta (in my understanding).

    2014-04-24 - Andreas Tille <tille@debian.org> staden-io-lib (1.13.5-3) unstable; urgency=medium * debian/rules: fix permissions in arch=all package only when it is really built Closes: #745692

    2014-04-14 - Andreas Tille <tille@debian.org> staden-io-lib (1.13.5-2) unstable; urgency=medium * use dh-autoreconf Closes: 744664 * Add autopkgtest using new staden-io-lib-examples package

    2014-04-01 - Anibal Monsalve Salazar <anibal@debian.org> staden-io-lib (1.13.5-1.1) unstable; urgency=medium * Non-maintainer upload. * Fix io_lib/bam.c read Patch by Aleksandar Zlicic Add fix-bam-read.patch Closes: #736565

    2014-03-15 - Charles Plessy <plessy@debian.org> staden-io-lib (1.13.5-1) unstable; urgency=medium * New upstream release. * debian/libstaden-read1.symbols: updated symbols. * debian/patches/pathmax.patch: refreshed. * debian/patches/fix_bufferoverflow.patch: removed (applied upstream).

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