diff --git a/src/nf_modules/gatk4/main.nf b/src/nf_modules/gatk4/main.nf index 82784453695e575e83538abf0dc2c3fa2a3946d8..63803f26ed99a113f5d87b4f0c8609c4212f75d2 100644 --- a/src/nf_modules/gatk4/main.nf +++ b/src/nf_modules/gatk4/main.nf @@ -128,8 +128,8 @@ process recalibrate_snp_table { gatk --java-options "-Xmx${xmx_memory}G" BaseRecalibrator \ -R ${fasta} \ -I ${bam} \ - -knownSites ${snp_file} \ - -knownSites ${indel_file} \ + -known-sites ${snp_file} \ + -known-sites ${indel_file} \ -O recal_data_table """ }