MultiQC error

Gervaise Henry
2019-08-13T21:25:58-05:00

cellranger count outputs thousands with a comma surrounded by quotes:
[metrics_summary.csv](/uploads/bf7663f603940a9dbfb96b3160d4771f/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](/uploads/20184c06a382db3e20af3ce0af99b2cb/BPH389PrGF_metrics_summary.tsv)

That makes multiqc have throws an error because it's seeing an extra column
[.command.log](/uploads/c21552c1ce8661c4437aed92b15e9641/.command.log)
[multiqc_report.html](/uploads/3e8f11ff09e7b37e13d46656b416608f/multiqc_report.html)