0.17.0

• CheckTaskAwsem now parses log and raises a more informative error message for certain cases at least, including:

  • No space left in device (either input download failure, docker pull failure or other space issue)
  • CWL missing input

• custom_errors field is now accepted in the input json args to let users define a custom, job-specific error messages based on log file. Tibanna will find pattern in the log file and report an error as the specified error_type. If pattern is multi-line, specify multiline: True (default False).

  • example:

    "custom_errors": [
        {
           "error_type": "Unmatching pairs in fastq"
           "pattern": "paired reads have different names: .+", 
           "multiline": false
        }
    ]
    

These changes require redeployment.

tibanna deploy_core -n check_task_awsem -g <usergroup> [-s <suffix>]
tibanna deploy_core -n run_task_awsem -g <usergroup> [-s <suffix>]