MultiQC error
cellranger count outputs thousands with a comma surrounded by quotes: metrics_summary.csv
The count processes convert the csv to tsv:
sed -E 's/("([^"]*)")?,/\\2\t/g' ${sample}/outs/metrics_summary.csv | tr -d "," | sed "s/^/${sample}\t/" > ${sample}_metrics_summary.tsv
The sed is splitting the comma in the last comma: BPH389PrGF_metrics_summary.tsv
That makes multiqc have throws an error because it's seeing an extra column .command.log multiqc_report.html