Mercurial > repos > devteam > coverage
changeset 4:e3363e087468 draft default tip
planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tool_collections/gops/coverage commit d7b1a60c0aecc46b7f625c3e32f882562b512fd9
| author | devteam |
|---|---|
| date | Mon, 13 Jun 2022 16:21:57 +0000 |
| parents | 4ef9819dc7fb |
| children | |
| files | coverage.xml operation_filter.py |
| diffstat | 2 files changed, 1 insertions(+), 19 deletions(-) [+] |
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--- a/coverage.xml Thu Jun 22 18:41:02 2017 -0400 +++ b/coverage.xml Mon Jun 13 16:21:57 2022 +0000 @@ -18,7 +18,7 @@ <param name="input2" type="data" format="interval" label="Is covered by" help="Second dataset" /> </inputs> <outputs> - <data name="output" format_source="input1" metadata_source="input1" /> + <data name="output" format="interval" metadata_source="input1" /> </outputs> <tests> <test>
--- a/operation_filter.py Thu Jun 22 18:41:02 2017 -0400 +++ b/operation_filter.py Mon Jun 13 16:21:57 2022 +0000 @@ -45,22 +45,7 @@ error_map[name] = "A dataset of the appropriate type is required" -# Commented out by INS, 5/30/2007. What is the PURPOSE of this? -def exec_after_process(app, inp_data, out_data, param_dict, tool=None, stdout=None, stderr=None): - """Verify the output data after each run""" - for data in out_data.values(): - try: - if stderr and len( stderr ) > 0: - raise Exception( stderr ) - except Exception: - data.blurb = JOB_ERROR - data.state = JOB_ERROR - - def exec_after_merge(app, inp_data, out_data, param_dict, tool=None, stdout=None, stderr=None): - exec_after_process( - app, inp_data, out_data, param_dict, tool=tool, stdout=stdout, stderr=stderr) - # strip strand column if clusters were merged for data in out_data.values(): if param_dict['returntype'] is True: @@ -72,9 +57,6 @@ def exec_after_cluster(app, inp_data, out_data, param_dict, tool=None, stdout=None, stderr=None): - exec_after_process( - app, inp_data, out_data, param_dict, tool=tool, stdout=stdout, stderr=stderr) - # strip strand column if clusters were merged if param_dict["returntype"] == '1': for data in out_data.values():