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GATK: Difference between revisions
→Running GATK via singularity
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for a particular [https://hub.docker.com/r/broadinstitute/gatk/tags%20page version]. | for a particular [https://hub.docker.com/r/broadinstitute/gatk/tags%20page version]. | ||
In your [[Running jobs|SBATCH]] script, you should use something like this: | |||
<pre> | |||
module load singularity | |||
singularity exec -B $PWD:/home -B /scratch/someuser:/outputs \ | |||
-B /projects/someuser/path/to/inputs:/inputs | |||
</pre> | |||
For more information about Singularity, you can watch the recorded [https://www.youtube.com/watch?v=kYb0aXS5DEE Singularity webinar]. | |||
==Frequently asked questions == <!--T:23--> | ==Frequently asked questions == <!--T:23--> | ||