Frequently Asked Questions
If you have more question please write us a ticket on github.
- MPRAsnakeflow is not able to create a Conda environment
If you get a message like:
Caused by: json.decoder.JSONDecodeError: Extra data: line 1 column 2785 (char 2784)#
Try to do the following steps
rm -r .snakemake/metadata .snakemake/incomplete
Afterwards try MPRAsnakeflow again. If the above error still occurs, rerun after deleting the entire
.snakemake
folder.- Can I use STARR-seq with MPRAsnakeflow?
No, not yet!
- The pipeline is giving an error “BUG: Out of jobs ready to be started, but not all files built yet.” and won’t run. How can I fix this?
Please update snakemake, as this error is highly likely to have occured from snakemake internal issues.