comparison GALAXY_FILES/tools/EMBER/Make_Logo.xml @ 3:037c3edda16e

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3:037c3edda16e

<tool id="make_logo" name="Make Logo" version="1.3.1">
  <description>Post-processing analysis: makes a visual representation of the EMBER expression pattern</description>
  <command interpreter="perl">Make_Logo_Galaxy.pl -m $model -c $compslist -o $output</command>
  <inputs>
    <param format="txt" name="model" type="data" label="Model file"/>
    <param format="txt" name="compslist" type="data" label="Comparison list"/>
  </inputs>
  <outputs>
    <data format="eps" name="output"/>
  </outputs>

  <tests>
    <test>
      <param name="model" value="EMBER/patterns-1.model"/>
      <param name="compslist" value="EMBER/comparisons_list.txt"/>
      <output name="output">
        <assert_contents>
          <has_text text="%%Title:" />
        </assert_contents>
      </output>
    </test>
  </tests>

  <help>

This tool makes an eps file representing the expression pattern from EMBER.

-----

Description of inputs:

*Model file*: the .model output EMBER (first line is "comparison/class; avg...")

*Comparison list*: the same comparison list input to PreProcess Expression Data (used to make plot labels).

NOTE: if you are running a local installation of Galaxy, you must have gnuplot installed to run Make Logo. Gnuplot is free and can be downloaded at http://www.gnuplot.info/. After downloading the package, follow the instructions in the INSTALL file.

  </help>

</tool>