Hey :wave:, on my latest runs I firstly run 3 samples completely and after a successful run I started a new run with 71 samples using -resume, Interestingly the samples.tsv was kept the same and the cohort only run for 3 samples.
The samples.tsv for 3 samples only had information for 3 samples, and after resuming the sample sample.tsv was used, so the other 68 samples where ignored by mtbseq as they weren't mentioned on the samples.tsv file.
As a solution for this, I added cache: false to the collectFile operator, so the file will be generated again on every run.
Feel free to add your thoughts on the comments session, I'm available to discuss and make any requested modification.
Hey :wave:, on my latest runs I firstly run 3 samples completely and after a successful run I started a new run with 71 samples using
-resume
, Interestingly thesamples.tsv
was kept the same and the cohort only run for 3 samples.The samples.tsv for 3 samples only had information for 3 samples, and after resuming the sample sample.tsv was used, so the other 68 samples where ignored by mtbseq as they weren't mentioned on the samples.tsv file.
As a solution for this, I added
cache: false
to thecollectFile
operator, so the file will be generated again on every run.Feel free to add your thoughts on the comments session, I'm available to discuss and make any requested modification.
Kindly, Davi