Closed ianfore closed 3 years ago
Pipeline job composed in python submitted via pipelines().run fails. See runstats() method in gcpls_samtools.py
The parameters for the run match those for a job submitted via the command line. The details appear to be the same in task list interface.
For now the workaround is to submit the job via subprocess.run()
Determined the problem was with how the command line was submitted. Elements of the command line must be submitted as a list of strings rather than a single string. Fix was committed here
Pipeline job composed in python submitted via pipelines().run fails. See runstats() method in gcpls_samtools.py
The parameters for the run match those for a job submitted via the command line. The details appear to be the same in task list interface.
For now the workaround is to submit the job via subprocess.run()