SOFT : pgap
------

Site du soft: https://github.com/ncbi/pgap
-------------

LICENSE:
--------

NCBI PGAP CWL

See software documentation for more informations.

Location: /usr/local/bioinfo/src/pgap
---------

Load binaries and environment:
------------------------------

-> Version 7555
#Need Python and Singularity
module load devel/python/Python-3.11.1 containers/singularity/3.9.9

module load bioinfo/pgap/7555

ulimit -n 8000

ln -s /usr/local/bioinfo/src/pgap/pgap-2024-07-18.build7555/pgap_2024-07-18.build7555.sif .
ln -s /usr/local/bioinfo/src/pgap/pgap-2024-07-18.build7555 .
ln -s /usr/local/bioinfo/src/pgap/pgap-2024-07-18.build7555/VERSION .

-> Version 2025-05-06.build7983

#Need Python and Singularity
module load devel/python/Python-3.11.1 containers/singularity/3.9.9

module load bioinfo/pgap/2025-05-06.build7983


ulimit -n 8000

ln -s /usr/local/bioinfo/src/pgap/pgap-2025-05-06.build7983/pgap-utils_2025-05-06.build7983.sif .
ln -s /usr/local/bioinfo/src/pgap/pgap-2025-05-06.build7983 .


-> Version 2026-06-18.build8602
#Need Python and Singularity
module load devel/python/Python-3.11.1 containers/singularity/3.9.9

module load bioinfo/pgap/2026-06-18.build8602


ulimit -n 8000

ln -s /usr/local/bioinfo/src/pgap/pgap-2026-06-18.build8602/pgap-utils_2025-05-06.build7983.sif .
ln -s /usr/local/bioinfo/src/pgap/pgap-2026-06-18.build8602 .
ln -s /usr/local/bioinfo/src/pgap/pgap-2026-06-18.build8602/input-2026-06-18.build8602/packages.versions


#Warning! Works only in exclusive mode. --exclusive sbatch option is necessary. -c option don't work with singularity


Example directory for use on cluster:
-------------------------------------

/usr/local/bioinfo/src/pgap/example_on_cluster

To submit: sbatch test_pgap-2024-07-18.build7555.sh

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