Cannot locate GATK.jar file

CRG-CNAG / CalliNGS-NF

GATK RNA-Seq Variant Calling in Nextflow

Mozilla Public License 2.0

130 stars 53 forks source link

Cannot locate GATK.jar file #17

Closed Jokendo-collab closed 3 years ago

Jokendo-collab commented 4 years ago

I have over 200 RNAsew raw files and I wanted to run this program on our HPC, which uses slurm as a job scheduler. I keep on getting this error even after downloading the correct version (3.7) of the gatk jar file. Can you help me on how to configure this pipeline to run on HPC?

pditommaso commented 3 years ago

Same as https://github.com/CRG-CNAG/CalliNGS-NF/issues/18#issuecomment-671456240