@@ -11,8 +11,8 @@ task samtools { | |||
nt=$(nproc) | |||
mkdir -p /cromwell_root/tmp/samtools | |||
cd /cromwell_root/tmp/samtools | |||
/opt/conda/bin/samtools -@ $nt index ${sep=' ' tumor_bam} | |||
/opt/conda/bin/samtools -@ $nt index ${sep=' ' normal_bam} | |||
/opt/conda/bin/samtools index ${sep=' ' tumor_bam} | |||
/opt/conda/bin/samtools index ${sep=' ' normal_bam} | |||
>>> | |||
runtime { |