stacks-2.1-lp150.1.1.x86_64.rpm


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Description

stacks - Pipeline to analyze restriction enzyme-based data

Property Value
Distribution openSUSE Leap 15.0
Repository Science all
Package filename stacks-2.1-lp150.1.1.x86_64.rpm
Package name stacks
Package version 2.1
Package release lp150.1.1
Package architecture x86_64
Package type rpm
Category Productivity/Scientific/Other
Homepage http://catchenlab.life.illinois.edu/stacks/
License GPL-3.0-only
Maintainer -
Download size 1.30 MB
Installed size 7.05 MB
Stacks is a software pipeline for building loci from short-read sequences, such as those generated on the Illumina platform.
Stacks was developed to work with restriction enzyme-based data, such as RAD-seq, for the purpose of building genetic maps and
conducting population genomics and phylogeography.

Alternatives

Package Version Architecture Repository
stacks - - -

Requires

Name Value
/bin/bash -
/usr/bin/env -
/usr/bin/perl -
/usr/bin/python -
libc.so.6(GLIBC_2.17)(64bit) -
libgcc_s.so.1()(64bit) -
libgcc_s.so.1(GCC_3.0)(64bit) -
libgomp.so.1()(64bit) -
libgomp.so.1(GOMP_1.0)(64bit) -
libgomp.so.1(GOMP_2.0)(64bit) -
libgomp.so.1(GOMP_4.0)(64bit) -
libgomp.so.1(OMP_1.0)(64bit) -
libm.so.6()(64bit) -
libm.so.6(GLIBC_2.2.5)(64bit) -
libpthread.so.0()(64bit) -
libpthread.so.0(GLIBC_2.2.5)(64bit) -
libpthread.so.0(GLIBC_2.3.2)(64bit) -
libstdc++.so.6()(64bit) -
libstdc++.so.6(CXXABI_1.3)(64bit) -
libstdc++.so.6(CXXABI_1.3.5)(64bit) -
libstdc++.so.6(CXXABI_1.3.8)(64bit) -
libstdc++.so.6(CXXABI_1.3.9)(64bit) -
libstdc++.so.6(GLIBCXX_3.4)(64bit) -
libstdc++.so.6(GLIBCXX_3.4.11)(64bit) -
libstdc++.so.6(GLIBCXX_3.4.14)(64bit) -
libstdc++.so.6(GLIBCXX_3.4.15)(64bit) -
libstdc++.so.6(GLIBCXX_3.4.18)(64bit) -
libstdc++.so.6(GLIBCXX_3.4.20)(64bit) -
libstdc++.so.6(GLIBCXX_3.4.21)(64bit) -
libstdc++.so.6(GLIBCXX_3.4.9)(64bit) -
libz.so.1()(64bit) -
libz.so.1(ZLIB_1.2.0)(64bit) -
libz.so.1(ZLIB_1.2.3.5)(64bit) -
perl -
python -

Provides

Name Value
stacks = 2.1-lp150.1.1
stacks(x86-64) = 2.1-lp150.1.1

Download

Type URL
Mirror widehat.opensuse.org
Binary Package stacks-2.1-lp150.1.1.x86_64.rpm
Source Package stacks-2.1-lp150.1.1.src.rpm

Install Howto

  1. Add the Science repository:
    # zypper addrepo http://widehat.opensuse.org/opensuse/repositories/science/openSUSE_Leap_15.0/ science
  2. Install stacks rpm package:
    # zypper install stacks

Files

Path
/usr/bin/clone_filter
/usr/bin/count_fixed_catalog_snps.py
/usr/bin/cstacks
/usr/bin/denovo_map.pl
/usr/bin/gstacks
/usr/bin/integrate_alignments.py
/usr/bin/kmer_filter
/usr/bin/phasedstacks
/usr/bin/populations
/usr/bin/process_radtags
/usr/bin/process_shortreads
/usr/bin/ref_map.pl
/usr/bin/sstacks
/usr/bin/stacks-dist-extract
/usr/bin/stacks-gdb
/usr/bin/stacks-integrate-alignments
/usr/bin/tsv2bam
/usr/bin/ustacks
/usr/share/doc/packages/stacks/ChangeLog
/usr/share/doc/packages/stacks/README
/usr/share/licenses/stacks/LICENSE
/usr/share/stacks/
/usr/share/stacks/php/CatalogClass.php
/usr/share/stacks/php/Locus.php
/usr/share/stacks/php/ajax.js
/usr/share/stacks/php/annotate.js
/usr/share/stacks/php/annotate_marker.php
/usr/share/stacks/php/catalog.php
/usr/share/stacks/php/catalog_genotypes.php
/usr/share/stacks/php/constants.php.dist
/usr/share/stacks/php/correct_genotype.php
/usr/share/stacks/php/correct_genotypes.php
/usr/share/stacks/php/db_functions.php
/usr/share/stacks/php/export.js
/usr/share/stacks/php/export_batch.php
/usr/share/stacks/php/fst_view.php
/usr/share/stacks/php/hapstat_view.php
/usr/share/stacks/php/header.php
/usr/share/stacks/php/index.php
/usr/share/stacks/php/last_modified.php
/usr/share/stacks/php/phist_view.php
/usr/share/stacks/php/pop_view.php
/usr/share/stacks/php/population_view.js
/usr/share/stacks/php/samples.php
/usr/share/stacks/php/sequence_blast.php
/usr/share/stacks/php/stack_view.php
/usr/share/stacks/php/stacks.css
/usr/share/stacks/php/stacks.js
/usr/share/stacks/php/stacks_functions.php
/usr/share/stacks/php/sumstat_view.php
/usr/share/stacks/php/tag.php
/usr/share/stacks/php/tags.php
/usr/share/stacks/php/version.php
/usr/share/stacks/php/view_sequence.php
/usr/share/stacks/php/export/
/usr/share/stacks/php/images/caret-d.png
/usr/share/stacks/php/images/caret-u.png
/usr/share/stacks/php/images/excel_icon.png
/usr/share/stacks/php/images/l-arrow-disabled.png
/usr/share/stacks/php/images/l-arrow.png
/usr/share/stacks/php/images/r-arrow-disabled.png
/usr/share/stacks/php/images/r-arrow.png
/usr/share/stacks/php/images/stacks_bg.png
/usr/share/stacks/php/images/stacks_logo_rev_small.png
/usr/share/stacks/sql/catalog_index.sql
/usr/share/stacks/sql/chr_index.sql
/usr/share/stacks/sql/mysql.cnf.dist
/usr/share/stacks/sql/stacks.sql
/usr/share/stacks/sql/tag_index.sql

Changelog

2018-07-12 - flyos@mailoo.org
- Update to 2.1
- Fixed issue with shebang in perl and python files
- Cleaned spec file using spec-cleaner
2017-01-20 - flyos@mailoo.org
- Update to 1.44
- Enabled SparseHash feature
- Clean samtools dependency
2016-04-30 - flyos@mailoo.org
- Cleaner spec file
2016-04-21 - flyos@mailoo.org
- Changed "./configure" and "make install" for "%configure" and "%make_install"
2016-04-20 - flyos@mailoo.org
Initial release.-

See Also

Package Description
stb-devel-2.32.1549563867.59e9702-lp150.5.1.noarch.rpm Single-File Public Domain Libraries for C/C++
storm-1.1.3-lp150.1.3.x86_64.rpm Apache Storm realtime computation system
storm-doc-1.1.3-lp150.1.3.x86_64.rpm Apache Storm Documentation
storm-kit-1.1.3-lp150.4.1.noarch.rpm Build-time dependency of project "storm"
storm-logviewer-1.1.3-lp150.1.3.x86_64.rpm Storm Logviewer service
storm-nimbus-1.1.3-lp150.1.3.x86_64.rpm Storm Nimbus service
storm-pacemaker-1.1.3-lp150.1.3.x86_64.rpm Storm Pacemaker service
storm-supervisor-1.1.3-lp150.1.3.x86_64.rpm Storm Supervisor service
storm-ui-1.1.3-lp150.1.3.x86_64.rpm Storm UI service
storm-zookeeper-1.1.3-lp150.1.3.x86_64.rpm Zookeeper server for testing Storm
suitesparse-devel-5.4.0-lp150.49.1.x86_64.rpm Development headers for SuiteSparse
suitesparse-devel-static-5.4.0-lp150.49.1.x86_64.rpm Static version of SuiteSparse libraries
sumo-1.2.0-lp150.2.1.x86_64.rpm Eclipse Simulation of Urban Mobility - A Microscopic Traffic Simulation
sundials-2.5.0-lp150.2.6.x86_64.rpm Suite of nonlinear solvers
sundials-devel-2.5.0-lp150.2.6.x86_64.rpm Suite of nonlinear solvers (developer files)
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