diff --git a/workflow/main.nf b/workflow/main.nf index 4aaeb852f5a7f3e6b30c8b0672f7db368203eb4d..bf58849f8318776221df9cd2381fca9fd80506ce 100755 --- a/workflow/main.nf +++ b/workflow/main.nf @@ -90,7 +90,8 @@ process mkfastq { output: file("**/outs/**/*.fastq.gz") into fastqPaths file("**/outs/**/*.fastq.gz") into cellrangerCount - file("**/outs/fastq_path/Stats/Stats.json") into bqcPaths + file("**/outs/fastq_path/Stats/*") into bqcPaths + file("**/outs/fastq_path/Reports/*") into fqcPaths2 val "${bcl.baseName}" into bclName script: