stacks-software
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stacks
Stacks is a software pipeline for building loci from short-read sequences, such as those generated on the Illumina platform.
v1.24
- Version: 1.24
- Added: December, 2014
Usage
- Show all available versions of stacks
module avail stacks
- Load stacks module:
module load stacks/1.24
Installation
- download stacks tarball & compile it
wget http://creskolab.uoregon.edu/stacks/source/stacks-1.24.tar.gz -O stacks-1.24.tar.gz tar -xvf stacks-1.24.tar.gz cd stacks-1.24/ sudo mkdir -p /export/apps/stacks/1.24/ sudo chown -R joguya:joguya /export/apps/stacks/1.24/ ./configure --prefix=/export/apps/stacks/1.24/ --enable-bam --with-bam-include-path=/export/apps/samtools/0.1.19/include/bam --with-bam-lib-path=/export/apps/samtools/0.1.19/lib make make install sudo chown -R root:root /export/apps/stacks/1.24/
- stacks module file
#%Module1.0 ##################################################################### ## ## stacks Modulefile ## By James Oguya, j.oguya@cgiar.org ## February, 2015 ## set appname stacks set version 1.24 set prefix /export/apps/${appname}/${version} set exec_prefix ${prefix} set url "http://creskolab.uoregon.edu/stacks/manual/" set msg "a software pipeline for building loci from short-read sequences, such as those generated on the Illumina platform.\Stacks Official Site: $url\n" module-whatis $msg proc ModulesHelp { } { puts stderr "$msg" } conflict stacks prepend-path PATH ${exec_prefix}/bin
- deploy the new module using ansible
ansible-playbook site.yml -u provisioning -K -s --limit=compute --tags=module
stacks-software.1423128473.txt.gz · Last modified: 2015/02/05 09:27 by joguya