flexbar_2.50-2+b1_i386.deb


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Description

flexbar - flexible barcode and adapter removal for sequencing platforms

Property Value
Distribution Debian 9 (Stretch)
Repository Debian Main i386
Package filename flexbar_2.50-2+b1_i386.deb
Package name flexbar
Package version 2.50
Package release 2+b1
Package architecture i386
Package type deb
Category science
Homepage https://sourceforge.net/projects/flexbar/
License -
Maintainer Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Download size 256.74 KB
Installed size 1.21 MB
Flexbar preprocesses high-throughput sequencing data efficiently. It
demultiplexes barcoded runs and removes adapter sequences. Moreover,
trimming and filtering features are provided. Flexbar increases mapping
rates and improves genome and transcriptome assemblies. It supports
next-generation sequencing data in fasta/q and csfasta/q format from
Illumina, Roche 454, and the SOLiD platform.
Parameter names changed in Flexbar. Please review scripts. The recent
months, default settings were optimised, several bugs were fixed and
various improvements were made, e.g. revamped command-line interface,
new trimming modes as well as lower time and memory requirements.

Alternatives

Package Version Architecture Repository
flexbar_2.50-2+b1_amd64.deb 2.50 amd64 Debian Main
flexbar - - -

Requires

Name Value
libbz2-1.0 -
libc6 >= 2.4
libgcc1 >= 1:3.0
libstdc++6 >= 5.2
libtbb2 -
zlib1g >= 1:1.2.3.4

Download

Type URL
Mirror ftp.br.debian.org
Binary Package flexbar_2.50-2+b1_i386.deb
Source Package flexbar

Install Howto

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

Files

Path
/usr/bin/flexbar
/usr/share/doc/flexbar/README.test
/usr/share/doc/flexbar/changelog.Debian.gz
/usr/share/doc/flexbar/changelog.Debian.i386.gz
/usr/share/doc/flexbar/copyright
/usr/share/doc/flexbar/examples/adapters.fasta
/usr/share/doc/flexbar/examples/adapters_cs.fasta
/usr/share/doc/flexbar/examples/correct_result_any.csfasta
/usr/share/doc/flexbar/examples/correct_result_any.csfastq
/usr/share/doc/flexbar/examples/correct_result_any.fasta
/usr/share/doc/flexbar/examples/correct_result_any.fastq
/usr/share/doc/flexbar/examples/correct_result_left.csfasta
/usr/share/doc/flexbar/examples/correct_result_left.csfastq
/usr/share/doc/flexbar/examples/correct_result_left.fasta
/usr/share/doc/flexbar/examples/correct_result_left.fastq
/usr/share/doc/flexbar/examples/correct_result_left_tail.csfasta
/usr/share/doc/flexbar/examples/correct_result_left_tail.csfastq
/usr/share/doc/flexbar/examples/correct_result_left_tail.fasta
/usr/share/doc/flexbar/examples/correct_result_left_tail.fastq
/usr/share/doc/flexbar/examples/correct_result_right.csfasta
/usr/share/doc/flexbar/examples/correct_result_right.csfastq
/usr/share/doc/flexbar/examples/correct_result_right.fasta
/usr/share/doc/flexbar/examples/correct_result_right.fastq
/usr/share/doc/flexbar/examples/correct_result_right_tail.csfasta
/usr/share/doc/flexbar/examples/correct_result_right_tail.csfastq
/usr/share/doc/flexbar/examples/correct_result_right_tail.fasta
/usr/share/doc/flexbar/examples/correct_result_right_tail.fastq
/usr/share/doc/flexbar/examples/flexbar_test_csfasta.sh
/usr/share/doc/flexbar/examples/flexbar_test_csfastq.sh
/usr/share/doc/flexbar/examples/flexbar_test_fasta.sh
/usr/share/doc/flexbar/examples/flexbar_test_fastq.sh
/usr/share/doc/flexbar/examples/flexbar_test_zip.sh
/usr/share/doc/flexbar/examples/flexbar_validate.sh
/usr/share/doc/flexbar/examples/result_any.csfasta
/usr/share/doc/flexbar/examples/result_any.csfastq
/usr/share/doc/flexbar/examples/result_any.fasta
/usr/share/doc/flexbar/examples/result_any.fastq
/usr/share/doc/flexbar/examples/result_bz2.fastq
/usr/share/doc/flexbar/examples/result_gz.fastq
/usr/share/doc/flexbar/examples/result_left.csfasta
/usr/share/doc/flexbar/examples/result_left.csfastq
/usr/share/doc/flexbar/examples/result_left.fasta
/usr/share/doc/flexbar/examples/result_left.fastq
/usr/share/doc/flexbar/examples/result_left_tail.csfasta
/usr/share/doc/flexbar/examples/result_left_tail.csfastq
/usr/share/doc/flexbar/examples/result_left_tail.fasta
/usr/share/doc/flexbar/examples/result_left_tail.fastq
/usr/share/doc/flexbar/examples/result_right.csfasta
/usr/share/doc/flexbar/examples/result_right.csfastq
/usr/share/doc/flexbar/examples/result_right.fasta
/usr/share/doc/flexbar/examples/result_right.fastq
/usr/share/doc/flexbar/examples/result_right_tail.csfasta
/usr/share/doc/flexbar/examples/result_right_tail.csfastq
/usr/share/doc/flexbar/examples/result_right_tail.fasta
/usr/share/doc/flexbar/examples/result_right_tail.fastq
/usr/share/doc/flexbar/examples/test.csfasta
/usr/share/doc/flexbar/examples/test.csfastq
/usr/share/doc/flexbar/examples/test.fasta
/usr/share/doc/flexbar/examples/test.fastq
/usr/share/doc/flexbar/examples/test.fastq.bz2
/usr/share/doc/flexbar/examples/test.fastq.gz
/usr/share/lintian/overrides/flexbar
/usr/share/man/man1/flexbar.1.gz

Changelog

2015-12-05 - Andreas Tille <tille@debian.org>
flexbar (2.50-2) unstable; urgency=medium
* Fix bashisms in tests
Closes: #772255
* cme fix dpkg-control
* exclude false lintian positives
* d/control: do not mention removed file
2014-07-04 - Andreas Tille <tille@debian.org>
flexbar (2.50-1) unstable; urgency=medium
* New upstream version (patches applied)
* Add zlib1g-dev and libbz2-dev as Build-Depends
* Fixed upstream contact
2014-02-04 - Andreas Tille <tille@debian.org>
flexbar (2.40-2) unstable; urgency=medium
* Versioned Build-Depends from seqan-dev (>= 1.4.1)
2014-01-31 - Andreas Tille <tille@debian.org>
flexbar (2.40-1) unstable; urgency=low
* New upstream release
* Adapt quilt patches to new upstream + make sure test scripts will
fail on errors
* debian/watch: adapt to upstream versioning scheme
* debian/control:
- Architecture any since upstream fixed build system for 32bit systems
- cme fix dpkg-control
* Build against Debian packaged seqan
* debian/README.source: convinience copy of seqan removed by upstream
* debian/flexbar.1: Update manpage to new upstream version
* debian/README.test: Describe that not all tests are working properly
2013-06-13 - Andreas Tille <tille@debian.org>
flexbar (2.34-1) unstable; urgency=low
[ Tony Travis ]
* Updated from new upstream sources
* debian/control: Architecture: amd64 ia64
Closes: #705382
* debian/copyright: Files: include/tbb/* is not part of upstream source
any more so drop this paragraph
[ Andreas Tille ]
* New upstream version (adapt quilt patch)
* debian/flexbar.1: Enhanced help2man output
* debian/control: also enable other architectures featuring libtbb-dev
(i386, powerpc)
* Replace d/README.Debian by an updated README.source which documents
the usage of a possible use of Debian packaged seqan library
* debian/README.test:  Running the tests manually uncovers two
problems.  It needs to be investigated whether the tests are just
broken or the package has a problem
* add_shebang_to_tests.patch: Add shebang line to shell scripts
* debian/rules: clean up potential test results
2013-02-23 - Tony Travis <ajt@minke.ukfsn.org>
flexbar (2.32-1) unstable; urgency=low
* Initial release (Closes: #701539)

See Also

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flexloader_0.03-3+b1_i386.deb utility to configure SRAM based ALTERA devices
flexml_1.9.6-5+b1_i386.deb Fast validating XML processors and applications generator
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flightcrew_0.7.2+dfsg-9_i386.deb C++ epub validator
flightgear-data-ai_2016.4.2+dfsg-1_all.deb FlightGear Flight Simulator -- standard AI data
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flightgear-data-base_2016.4.2+dfsg-1_all.deb FlightGear Flight Simulator -- base files
flightgear-data-models_2016.4.2+dfsg-1_all.deb FlightGear Flight Simulator -- standard models
flightgear-phi_2016.4.2+dfsg1-1_all.deb FlightGear Flight Simulator -- Phi webfrontend
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