SOFT : PGDSpider
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Site du soft: http://www.cmpg.unibe.ch/software/PGDSpider/
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LICENSE:
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BSD 3-Clause License

See software documentation for more informations.

Location: /usr/local/bioinfo/src/PGDSpider
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Load binaries and environment:
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-> Version v2.1.1.5

xecute PGDSpider-cli (command line): 

module load bioinfo/PGDSpider/2.1.1.5

java -Xmx1024m -Xms512m -jar $PGD_HOME/PGDSpider2-cli.jar ...
or use absolute path: 
java -Xmx1024m -Xms512m -jar /usr/local/bioinfo/src/PGDSpider/PGDSpider_2.1.1.5/PGDSpider2-cli.jar ...

Execute PGDSpider GUI: 

Need to be in graphical mode connection to genobioinfo server:
ssh -X <login>@genobioinfo.toulouse.inrae.fr

Connect in graphical mode on (see FAQ: https://vm-genoword.toulouse.inrae.fr/FAQ/faq/job-submission/#interactive-with-x11-forwarding)
$ srun --x11 --mem=4G --pty bash
$ module load bioinfo/PGDSpider/2.1.1.5
$ PGDSpider2.sh

Example directory for use on cluster:
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For cli mode:

/usr/local/bioinfo/src/PGDSpider/example_on_cluster

To submit: sbatch test_PGDSpider_2.1.1.5.sh

See software documentation and our FAQ (http://bioinfo.genotoul.fr/index.php/faq/) for more informations.