Skip to content

Troubleshooting

Stephany Orjuela edited this page Mar 19, 2019 · 6 revisions
  • To check for errors in your inputs and parameter specifications, run
snakemake [--use-conda] checkinputs
  • If the snakemake error you get (typically starting with RuleException: CalledProcessError in line XXX of /ARMOR/Snakefile:) points to a Rmd file, or to a rule invoking an R script (e.g. edgeR, DRIMseq, tximeta), check the <output_folder>/Rout/ folder and look at the last .Rout file generated.

  • If you can't figure out the problem, open an issue and paste the code. We will contact you as soon as we can.