Closed rhshah closed 5 years ago
Having error while utilizing the --java-options "-Xmx4G"
with an error Could not find or load main class "-Xmx4G"
. I have temporarily deactivated this parameter until we figure out a resolution. GH-31
$(inputs.input.basename.replace('.bam', '')).recal.table
along with -output
prefix in the Arguments inside CWL gives a warning. GH-31 @ionox0
Tool: GATK BaseQualityScoreRecalibrator Location: https://software.broadinstitute.org/gatk/documentation/tooldocs/current/org_broadinstitute_hellbender_tools_walkers_bqsr_BaseRecalibrator.php GATK Version: 4.1.2