sra-toolkit_2.1.7a-1_i386.deb


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Description

sra-toolkit - utilities for the NCBI Sequence Read Archive

Property Value
Distribution Debian 7 (Wheezy)
Repository Debian Main i386
Package name sra-toolkit
Package version 2.1.7a
Package release 1
Package architecture i386
Package type deb
Installed size 3.47 KB
Download size 1.34 MB
Official Mirror ftp.br.debian.org
Tools for reading the SRA archive, generally by converting individual runs
into some commonly used format such as fastq.
The textual dumpers "sra-dump" and "vdb-dump" are provided in this
release as an aid in visual inspection. It is likely that their
actual output formatting will be changed in the near future to a
stricter, more formalized representation[s]. PLEASE DO NOT RELY UPON
THE OUTPUT FORMAT SEEN IN THIS RELEASE.
The "help" information will be improved in near future releases, and
the tool options will become standardized across the set. More documentation
will also be provided documentation on the NCBI web site.
Tool options may change in the next release. Version 1 tool options
will remain supported wherever possible in order to preserve
operation of any existing scripts.

Alternatives

Package Version Architecture Repository
sra-toolkit_2.1.7a-1_amd64.deb 2.1.7a amd64 Debian Main
sra-toolkit - - -

Requires

Name Value
libbz2-1.0 -
libc6 >= 2.3
libxml2 >= 2.6.27
sra-toolkit-libs0 >= 2.1.7a
zlib1g >= 1:1.1.4

Download

Type URL
Binary Package sra-toolkit_2.1.7a-1_i386.deb
Source Package sra-sdk

Install Howto

  1. Update the package index:
    # sudo apt-get update
  2. Install sra-toolkit deb package:
    # sudo apt-get install sra-toolkit

Files

Path
/etc/ncbi/vdb-copy.kfg
/usr/bin/abi-dump
/usr/bin/abi-dump.2
/usr/bin/abi-dump.2.1.7
/usr/bin/abi-load
/usr/bin/abi-load.2
/usr/bin/abi-load.2.1.7
/usr/bin/align-info
/usr/bin/align-info.2
/usr/bin/align-info.2.1.7
/usr/bin/fastq-dump
/usr/bin/fastq-dump.2
/usr/bin/fastq-dump.2.1.7
/usr/bin/fastq-load
/usr/bin/fastq-load.2
/usr/bin/fastq-load.2.1.7
/usr/bin/helicos-load
/usr/bin/helicos-load.2
/usr/bin/helicos-load.2.1.7
/usr/bin/illumina-dump
/usr/bin/illumina-dump.2
/usr/bin/illumina-dump.2.1.7
/usr/bin/illumina-load
/usr/bin/illumina-load.2
/usr/bin/illumina-load.2.1.7
/usr/bin/kar
/usr/bin/kar.2
/usr/bin/kar.2.1.7
/usr/bin/kdbmeta
/usr/bin/kdbmeta.2
/usr/bin/kdbmeta.2.1.7
/usr/bin/rcexplain
/usr/bin/rcexplain.2
/usr/bin/rcexplain.2.1.7
/usr/bin/sam-dump
/usr/bin/sam-dump.2
/usr/bin/sam-dump.2.1.7
/usr/bin/sff-dump
/usr/bin/sff-dump.2
/usr/bin/sff-dump.2.1.7
/usr/bin/sff-load
/usr/bin/sff-load.2
/usr/bin/sff-load.2.1.7
/usr/bin/sra-dbcc
/usr/bin/sra-dbcc.2
/usr/bin/sra-dbcc.2.1.7
/usr/bin/sra-dump
/usr/bin/sra-dump.2
/usr/bin/sra-dump.2.1.7
/usr/bin/sra-kar
/usr/bin/sra-kar.2
/usr/bin/sra-kar.2.1.7
/usr/bin/sra-stat
/usr/bin/sra-stat.2
/usr/bin/sra-stat.2.1.10
/usr/bin/srf-load
/usr/bin/srf-load.2
/usr/bin/srf-load.2.1.7
/usr/bin/vdb-config
/usr/bin/vdb-config.2
/usr/bin/vdb-config.2.1.7
/usr/bin/vdb-copy
/usr/bin/vdb-copy.2
/usr/bin/vdb-copy.2.1.7
/usr/bin/vdb-dump
/usr/bin/vdb-dump.2
/usr/bin/vdb-dump.2.1.7
/usr/bin/vdb-lock
/usr/bin/vdb-lock.2
/usr/bin/vdb-lock.2.1.7
/usr/bin/vdb-unlock
/usr/bin/vdb-unlock.2
/usr/bin/vdb-unlock.2.1.7
/usr/lib/ncbi/mod/libaxf.so
/usr/lib/ncbi/mod/libaxf.so.1
/usr/lib/ncbi/mod/libaxf.so.1.0.6
/usr/lib/ncbi/mod/libsraxf.so
/usr/lib/ncbi/mod/libsraxf.so.1
/usr/lib/ncbi/mod/libsraxf.so.1.1.3
/usr/lib/ncbi/mod/libvxf.so
/usr/lib/ncbi/mod/libvxf.so.1
/usr/lib/ncbi/mod/libvxf.so.1.1.5
/usr/lib/ncbi/schema/454.vschema
/usr/lib/ncbi/schema/abi.vschema
/usr/lib/ncbi/schema/align.vschema
/usr/lib/ncbi/schema/built-in.vschema
/usr/lib/ncbi/schema/clip.vschema
/usr/lib/ncbi/schema/helicos.vschema
/usr/lib/ncbi/schema/illumina.vschema
/usr/lib/ncbi/schema/insdc.vschema
/usr/lib/ncbi/schema/ion-torrent.vschema
/usr/lib/ncbi/schema/ncbi.vschema
/usr/lib/ncbi/schema/pevents.vschema
/usr/lib/ncbi/schema/seq.vschema
/usr/lib/ncbi/schema/spotname.vschema
/usr/lib/ncbi/schema/sra.vschema
/usr/lib/ncbi/schema/stats.vschema
/usr/lib/ncbi/schema/vdb.vschema
/usr/lib/ncbi/wmod/libwaxf.so
/usr/lib/ncbi/wmod/libwaxf.so.1
/usr/lib/ncbi/wmod/libwaxf.so.1.0.6
/usr/lib/ncbi/wmod/libwsraxf.so
/usr/lib/ncbi/wmod/libwsraxf.so.1
/usr/lib/ncbi/wmod/libwsraxf.so.1.1.3
/usr/lib/ncbi/wmod/libwvxf.so
/usr/lib/ncbi/wmod/libwvxf.so.1
/usr/lib/ncbi/wmod/libwvxf.so.1.1.4
/usr/share/doc/sra-toolkit/README
/usr/share/doc/sra-toolkit/USAGE.gz
/usr/share/doc/sra-toolkit/changelog.Debian.gz
/usr/share/doc/sra-toolkit/changelog.gz
/usr/share/doc/sra-toolkit/copyright
/usr/share/doc/sra-toolkit/help/html/abi-dump-help.html
/usr/share/doc/sra-toolkit/help/html/abi-load-help.html
/usr/share/doc/sra-toolkit/help/html/bam-loader-help.html
/usr/share/doc/sra-toolkit/help/html/copycat-help.html
/usr/share/doc/sra-toolkit/help/html/crc32sum-help.html
/usr/share/doc/sra-toolkit/help/html/fastq-dump-help.html
/usr/share/doc/sra-toolkit/help/html/fastq-load-help.html
/usr/share/doc/sra-toolkit/help/html/illumina-dump-help.html
/usr/share/doc/sra-toolkit/help/html/illumina-load-help.html
/usr/share/doc/sra-toolkit/help/html/kar-help.html
/usr/share/doc/sra-toolkit/help/html/kdbmeta-help.html
/usr/share/doc/sra-toolkit/help/html/kqsh-help.html
/usr/share/doc/sra-toolkit/help/html/md5cp-help.html
/usr/share/doc/sra-toolkit/help/html/rcexplain-help.html
/usr/share/doc/sra-toolkit/help/html/sff-dump-help.html
/usr/share/doc/sra-toolkit/help/html/sra-dump-help.html
/usr/share/doc/sra-toolkit/help/html/sra-stat-help.html
/usr/share/doc/sra-toolkit/help/html/srapath-help.html
/usr/share/doc/sra-toolkit/help/html/srf-load-help.html
/usr/share/doc/sra-toolkit/help/html/txt2kdb-help.html
/usr/share/doc/sra-toolkit/help/html/vdb-dump-help.html
/usr/share/doc/sra-toolkit/help/txt/abi-dump-help.txt
/usr/share/doc/sra-toolkit/help/txt/abi-load-help.txt
/usr/share/doc/sra-toolkit/help/txt/bam-loader-help.txt
/usr/share/doc/sra-toolkit/help/txt/copycat-help.txt
/usr/share/doc/sra-toolkit/help/txt/crc32sum-help.txt
/usr/share/doc/sra-toolkit/help/txt/fastq-dump-help.txt
/usr/share/doc/sra-toolkit/help/txt/fastq-load-help.txt
/usr/share/doc/sra-toolkit/help/txt/illumina-dump-help.txt
/usr/share/doc/sra-toolkit/help/txt/illumina-load-help.txt
/usr/share/doc/sra-toolkit/help/txt/kar-help.txt
/usr/share/doc/sra-toolkit/help/txt/kdbmeta-help.txt
/usr/share/doc/sra-toolkit/help/txt/kqsh-help.txt
/usr/share/doc/sra-toolkit/help/txt/md5cp-help.txt
/usr/share/doc/sra-toolkit/help/txt/rcexplain-help.txt
/usr/share/doc/sra-toolkit/help/txt/sff-dump-help.txt
/usr/share/doc/sra-toolkit/help/txt/sra-dump-help.txt
/usr/share/doc/sra-toolkit/help/txt/sra-stat-help.txt
/usr/share/doc/sra-toolkit/help/txt/srapath-help.txt
/usr/share/doc/sra-toolkit/help/txt/srf-load-help.txt
/usr/share/doc/sra-toolkit/help/txt/txt2kdb-help.txt
/usr/share/doc/sra-toolkit/help/txt/vdb-dump-help.txt

Changelog

2012-01-10 - Charles Plessy <plessy@debian.org>
sra-sdk (2.1.7a-1) unstable; urgency=low
[ Charles Plessy ]
61e22aa New upstream release (Closes: #627861).
1b09fd5 Normalised debian/copyright file with config-edit.
a93e7b5 Wildcard characters to match 64 or 32 according to the architecture.
3d66d80 New upstream source location in debian/watch.
74e5234 Mark the use of git-buildpackage by debian/gbp.conf.
0074d68 Simplified Homepage URL in debian/control.
5cd8039 Use a target that allows dynamic linking (debian/rules).
9815817 Do not install empty /usr/bin/ncbi directory (debian/rules).
fb42792 Updated debian/sra-toolkit-libs0.symbols.
866f773 Install config.kfg and vdb-copy.kfg in /etc/ncbi.
[ Andreas Tille ]
9e6e831 Suggest patches for build system to build on non i386&amd64
architectures as well as BSD and Hurd
2011-05-24 - Charles Plessy <plessy@debian.org>
sra-sdk (2.0.1-1) unstable; urgency=low
* Initial release (Closes: #610603).

See Also

Package Description
src2tex_2.12h-8_i386.deb A converter from source program files to TeX format files
srecord_1.58-1+b1_i386.deb collection of powerful tools for manipulating EPROM load files
sredird_2.2.1-1.1_i386.deb RFC 2217 compliant Telnet serial port redirector
srf-doc_0.1+dfsg-1_all.deb specification documents for the SRF format DNA sequence data
srg_1.3.6-1_i386.deb Fast, Flexible and Detailed log analysis for the Squid Proxy
srptools_0.0.4-1.2_i386.deb Tools for Infiniband attached storage (SRP)
srs_0.31-5_all.deb command-line Sender Rewriting Scheme client
srtp-docs_1.4.4+20100615~dfsg-2+deb7u2_all.deb Secure RTP (SRTP) and UST Reference Implementations - documentation
srtp-utils_1.4.4+20100615~dfsg-2+deb7u2_i386.deb Secure RTP (SRTP) and UST Reference Implementations - utilities
ss-dev_2.0-1.42.5-1.1+deb7u1_i386.deb command-line interface parsing library - headers and static libraries
ssake-examples_3.8-2_all.deb example data for SSAKE, a genomic assembler of short reads
ssake_3.8-2_all.deb genomics application for assembling millions of very short DNA sequences
ssed_3.62-7_i386.deb The super sed stream editor
ssft_0.9.13_all.deb Shell Scripts Frontend Tool
ssh-askpass-fullscreen_0.3-3.1_i386.deb Under Gnome2, asks user for a passphrase for ssh-add
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