<tool id="chap" name="CHESS Analysis Pipeline" version="0.1.0+galaxy0" python_template_version="3.5" profile="21.05">
    <requirements>
      <requirement type="package" version="0.0.2">ChessAnalysisPipeline</requirement>
    </requirements>
    <command detect_errors="exit_code"><![CDATA[
        which python && cp '$input' data.csv && CHAP --config '$config'
    ]]></command>
    <inputs>
        <param type="data" name="config" format="yaml" />
        <param type="data" name="input" format="csv" />
    </inputs>
    <outputs>
        <data name="output" format="csv" from_work_dir="test-data" />
    </outputs>
    <tests>
        <test>
            <param name="config" value="config.yaml"/>
            <param name="input" value="data.csv"/>
            <output name="output" value="data.out"/>
        </test>
    </tests>
    <help><![CDATA[
        usage: PROG [-h] [--config CONFIG] [--verbose]

options:
  -h, --help       show this help message and exit
  --config CONFIG  Input configuration file
  --verbose        verbose output

    ]]></help>
    <citations>
        <citation type="bibtex">
@misc{githubChessAnalysisPipeline,
  author = {LastTODO, FirstTODO},
  year = {TODO},
  title = {ChessAnalysisPipeline},
  publisher = {GitHub},
  journal = {GitHub repository},
  url = {https://github.com/CHESSComputing/ChessAnalysisPipeline},
}</citation>
    </citations>
</tool>