diff --git a/workflow/main.nf b/workflow/main.nf index 272e256517890031a475f24f57582e036e2876a0..4a29476519ce8e6f7c478ecc3229b9c372a83710 100755 --- a/workflow/main.nf +++ b/workflow/main.nf @@ -29,7 +29,7 @@ process cr_count { path(fastq) output: - tuple val(sample), path("${sample}/outs/**") + tuple val(sample), path("${task.index}_${sample}/outs/**") script: // Check reference @@ -66,7 +66,7 @@ process cr_count { // Run Cell Ranger count """ - cellranger count --id=$sample \ + cellranger count --id=${task.index}_${sample} \ --transcriptome=$ref \ --fastqs=. \ --sample=$sample \