view chap/chap.xml @ 135:0c1d552dd924 draft

planemo upload for repository https://github.com/CHESSComputing/ChessAnalysisPipeline commit 85285b9b70eaf7c5db051ed50b000339023ccdf2-dirty

<tool id="CHAP_test" name="CHESS Analysis Pipeline" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" python_template_version="@PYTHON_TEMPLATE_VERSION@" profile="@PROFILE@">
  <macros>
    <import>../macros.xml</import>
  </macros>
  <requirements>
    <expand macro="chap-requirement" />
  </requirements>
  <command detect_errors="exit_code"><![CDATA[
      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="json" />
  </outputs>
  <tests>
      <test>
          <param name="config" value="config.yaml"/>
          <param name="input" value="data.csv"/>
      </test>
  </tests>
  <help><![CDATA[
      CHESS Analysis Pipeline (CHAP):

      To run it on command line you'll use:
      CHAP --config CONFIG

      To run it within galaxy you'll only need to upload your
      required configuration pipeline and necessary data.
  ]]></help>
  <citations>
    <expand macro="chap-citation" />
  </citations>
</tool>