@@ -8,7 +8,7 @@ task count { | |||
command <<< | |||
mkdir -p /cromwell_root/tmp/ballgown/${sample_id} | |||
cp -r ${sep=" " ballgown} /cromwell_root/tmp/ballgown/${sample_id} | |||
count -i /cromwell_root/tmp/ballgown -l 150 -g ${sample_id}_gene_count_matrix.csv -t ${sample_id}_transcript_count_matrix.csv | |||
count -i /cromwell_root/tmp/ballgown -g ${sample_id}_gene_count_matrix.csv -t ${sample_id}_transcript_count_matrix.csv | |||
>>> | |||
runtime { |