Summary
Changes to improve unarchiving of files plus minor bug fixes and improvements
Changes
- properly check for files to unarchive before running any jobs to ensure all required files are unarchived
- patterns currently defined in utils.defaults
- improve details in readme
- catch samples with no tests codes and raise as an error
- fix total sample no run in summary report
- fix the issue with subsetting the manifest to allow skipping samples, restricts valid samplename checking to just the subset
- strip whitespace on string inputs to not cause jobs to fail from inputs like exclude samples having bonus spaces
- addition of new input
-iunarchive_onlyto allow for just unarchiving and not running jobs - fix issue of single gene reports having
:in the report filename