SOFT : fgbio
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Site du soft: https://github.com/fulcrumgenomics/fgbio
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LICENSE:
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MIT

See software documentation for more informations.

Location: /usr/local/bioinfo/src/fgbio
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Load binaries and environment:
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-> Version v0.7.0

#Need SE Java8
module load system/Java8

module load bioinfo/fgbio-v0.7.0

java -Xmx4g -jar $FGBIO --tmp-dir=<working_dir> <command> ...

or use absolute path

java -Xmx4g -jar /usr/local/bioinfo/src/fgbio/fgbio-v0.7.0/target/scala-2.12/fgbio-0.7.0.jar --tmp-dir=<working_dir> <command> ...


-> Version v1.3.0

#Need SE Java8
module load system/Java8

module load bioinfo/fgbio-v1.3.0

java -Xmx4g -jar $FGBIO --tmp-dir=<working_dir> <command> ...

or use absolute path

java -Xmx4g -jar /usr/local/bioinfo/src/fgbio/fgbio-v1.3.0/target/scala-2.13/fgbio-1.3.0.jar --tmp-dir=<working_dir> <command> ...


Example directory for use on cluster:
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/usr/local/bioinfo/src/fgbio/example_on_cluster

To submit: sbatch test_fgbio-v0.7.0.sh

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