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tassel-software
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Table of Contents
Tassel
- Version 3.0.165
- Added August, 2014
- One of the scientist requested us to add a new module known as tassel for evaluating traits associations, evolutionary patterns, and linkage disequilibrium.
Usage
- Load tassel module
module load tassel/3.0.165
Installation
- Download/clone tassel repo, in /export/apps/, create tassel/ folder & in it create tassel_version_number folder in this case it would be 3.0.165.
- Copy over the binaries to /export/apps/tassel/tassel_version_number/ i.e. /export/apps/tassel/3.0.165/
- Clone hpc-environment-modules from github
- cd to hpc-environment-modules git repo & mkdir tassel, in it create the module file & name it the version number i.e. 3.0.165
- Commit & push to github
- Run ansible & limit to compute nodes & modules tag
ssh hpc git clone git://git.code.sf.net/p/tassel/tassel3-standalone tassel3 cd tassel3/ git checkout V3.0.165 sudo su - mkdir -p /export/apps/tassel/3.0.165/ cp -rv * /export/apps/tassel/3.0.165/
- Clone environment modules & add a new module
git clone https://github.com/ilri/hpc-environment-modules.git cd hpc-environment-modules/ mkdir / vim tassel/3.0.165
- tassel module file
#%Module1.0##################################################################### ## ## tassel modulefile ## By James Oguya <j.oguya@cgiar.org> ## August, 2014 ## module-whatis "Tassel is a software package to evaluate traits associations, evolutionary patterns, and linkage disequilibrium. http://www.maizegenetics.net/tassel/" # for TCL script use set version 3.0.165 set appname tassel set prefix /export/apps/${appname}/${version} set exec_prefix ${prefix} conflict tassel prepend-path PATH ${exec_prefix} conflict tassel # tassel depends on perl 5.16.3, load the perl module as well if { ![is-loaded perl] } { module load perl }
- Deploy new module using ansible
ansible-playbook site.yml -i private/hosts --limit compute --tags=modules -u joguya -K
- Test to confirm success: do a module avail, module load tassel/3.0.165
module avail module load tassel/3.0.165 module ls run_anything.pl module unload
tassel-software.1408462594.txt.gz · Last modified: 2014/08/19 15:36 by joguya
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