diff --git a/conf/pipeline/raredisease/hasta.config b/conf/pipeline/raredisease/hasta.config index 56c1a97..4e00c56 100644 --- a/conf/pipeline/raredisease/hasta.config +++ b/conf/pipeline/raredisease/hasta.config @@ -7,11 +7,11 @@ process { cpus = { check_max( 16 * task.attempt, 'cpus' ) } memory = { check_max( 80.GB * task.attempt, 'memory' ) } } - withname: BCFTOOLS_VIEW { + withName: BCFTOOLS_VIEW { if (params.genome == 'GRCh37') { ext.args = '--output-type v --apply-filters PASS --exclude "INFO/clinical_genomics_mipAF > 0.40 | INFO/swegenAF > 0.40 | INFO/clingen_ngiAF > 0.40 | INFO/gnomad_svAF > 0.40 "' } else if (params.genome == 'GRCh38') { - ext.args = '--output-type v --apply-filters PASS --exclude "INFO/swegenAF > 0.40"' + ext.args = '--output-type v --apply-filters PASS --exclude "INFO/swegen_FRQ > 0.40"' } publishDir = [ enabled: false,