comparison ScopeNetwork.xml @ 3:5af67f89f924 draft default tip

planemo upload for repository https://forge.inrae.fr/metexplore/met4j-galaxy commit e757d0398a8407d983f1ef3f900b31cafc26e170

2:75002f79706d

      <option value="gml">gml</option>
      <option selected="true" value="tab">tab</option>
      <option value="nodeList">nodeList</option>
      <option value="json">json</option>
      <option value="matrix">matrix</option>
    </param>
  </inputs>
  <outputs>
    <data format="txt" name="output"/>
  </outputs>
  <tests>
    <test>
      <param name="sbmlFilePath" value="toy_model.xml"/>
      <param name="seedsFilePath" value="seeds.txt"/>
      <param name="sideCompoundFile" value="sides.txt"/>
      <param name="format" value="gml"/>
      <output ftype="txt" name="output">
        <assert_contents>
          <has_line_matching expression=".*node.*" n="9"/>
          <has_line_matching expression=".*edge.*" n="11"/>
        </assert_contents>
      </output>
    </test>
  </tests>
  <help><![CDATA[Perform a network expansion from a set of compound seeds to create a scope network
The scope of a set of compounds (seed) refer to the maximal metabolic network that can be extended from them,where the extension process consist of adding a reaction to the network if and only if all of its substrates are either a seed or a product of a previously added reaction
@ATTRIBUTION@]]></help>
  <citations>
    <citation type="doi">10.1007/s00239-005-0027-1</citation>

3:5af67f89f924

      <option value="gml">gml</option>
      <option selected="true" value="tab">tab</option>
      <option value="nodeList">nodeList</option>
      <option value="json">json</option>
      <option value="matrix">matrix</option>
      <option value="jsonviz">jsonviz</option>
    </param>
  </inputs>
  <outputs>
    <data format="txt" name="output"/>
  </outputs>
  <tests/>
  <help><![CDATA[Perform a network expansion from a set of compound seeds to create a scope network
The scope of a set of compounds (seed) refer to the maximal metabolic network that can be extended from them,where the extension process consist of adding a reaction to the network if and only if all of its substrates are either a seed or a product of a previously added reaction
@ATTRIBUTION@]]></help>
  <citations>
    <citation type="doi">10.1007/s00239-005-0027-1</citation>