Mercurial > repos > rv43 > chess_tomo
changeset 0:7cc026583189 draft
planemo upload for repository https://github.com/rolfverberg/galaxytools commit 0814301cace61040b468d4185a9056a1aed4050d
| author | rv43 |
|---|---|
| date | Mon, 20 Mar 2023 17:54:33 +0000 |
| parents | |
| children | 07647d52d7d3 |
| files | test.py test.xml |
| diffstat | 2 files changed, 55 insertions(+), 0 deletions(-) [+] |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test.py Mon Mar 20 17:54:33 2023 +0000 @@ -0,0 +1,34 @@ +#!/usr/bin/env python3 + +import logging + +import sys +import argparse +import numpy as np + +def __main__(): + + # Parse command line arguments + parser = argparse.ArgumentParser( + description='Test') + parser.add_argument('-l', '--log', + type=argparse.FileType('w'), + default=sys.stdout, + help='Log file') + args = parser.parse_args() + + # Set basic log configuration + logging_format = '%(asctime)s : %(levelname)s - %(module)s : %(funcName)s - %(message)s' + log_level = 'INFO' + level = getattr(logging, log_level.upper(), None) + if not isinstance(level, int): + raise ValueError(f'Invalid log_level: {log_level}') + logging.basicConfig(format=logging_format, level=level, force=True, + handlers=[logging.StreamHandler()]) + + logging.info(f'log = {args.log}') + logging.info(f'is log stdout? {args.log is sys.stdout}') + +if __name__ == "__main__": + __main__() +
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test.xml Mon Mar 20 17:54:33 2023 +0000 @@ -0,0 +1,21 @@ +<tool id="test" name="Test" version="0.1.0" python_template_version="3.9"> + <description>Test</description> + <command detect_errors="exit_code"><![CDATA[ + $__tool_directory__/test.py + -l '$log' + ]]></command> + <outputs> + <data name="log" format="txt" label="Log"/> + </outputs> + <help><![CDATA[ + Test. + ]]></help> + <citations> + <citation type="bibtex"> +@misc{test, + author = {Verberg, Rolf}, + year = {2022}, + title = {Test}, +}</citation> + </citations> +</tool>
