-
Notifications
You must be signed in to change notification settings - Fork 208
Open
Labels
bugSomething isn't workingSomething isn't working
Description
Description of the bug
The parse_samplesheet function breaks if the CSV has a BOM. Changing the encoding of open to "utf-8-sig" would handle cases with or without BOM. I think the BOM can be introduced if exporting via excel on windows.
Command used and terminal output
python ./bin/check_cellrangermulti.py ./assets/cellranger_barcodes_samplesheet_with_bom.csvRelevant files
You can use the attached samplesheet within the and run the cellranger_multi human test (or just run the check_cellrangermulti.py script) to replicate the failure
cellranger_barcodes_samplesheet_with_bom.csv
System information
Error appearing on MacOS as well as via AWS batch in nf-core/scrnaseq v4.1.0
grst
Metadata
Metadata
Assignees
Labels
bugSomething isn't workingSomething isn't working