view mothur/tools/mothur/TreeVector.xml @ 13:4f797d3eee3a

Change default processor counts to 8, mothur_wrapper.py can overide processors allocated with ENVIRONMENT variable MOTHUR_MAX_PROCESSORS

<tool id="tree_vector" name="TreeVector" version="1.0">
 <description>Draw a Phylogenic Tree</description>
 <command interpreter="python">TreeVector.py
  --jarBin='${GALAXY_DATA_INDEX_DIR}/shared/jars'
  --jarFile='TreeVector.jar'
  --jvmArgs='-Xmx250m'
  --input=$tree
  --svg=$output
  --shape=$shape
  --length=$length
 </command>
 <inputs>
  <param name="tree" type="data" format="tre" label="A Phylogenetic Tree in Newick format"/>
  <param name="shape" type="select" label="Branch Shape">
   <option value="square">Square branches</option>
   <option value="triangle">Triangle branches</option>
  </param>  
  <param name="length" type="select" label="Branch Length">
   <option value="phylo" selected="true">Use Newick branch lengths</option>
   <option value="clad">Line up labels</option>
   <option value="simpleclad">Branch lengths all same length</option>
  </param>  
 </inputs>
 <outputs>
    <data format="svg" name="output"> </data>
 </outputs>
 <tests>
 </tests>
 <help>

TreeVector_ is a utility to create and integrate phylogenetic trees as Scalable Vector Graphics (SVG) files.

TreeVector_ was written by Ralph_Pethica_, Department_of_Computer_Science_, University_of_Bristol_

.. _TreeVector: http://supfam.cs.bris.ac.uk/TreeVector/about.html
.. _Ralph_Pethica: http://www.cs.bris.ac.uk/home/pethica/
.. _Department_of_Computer_Science: http://www.cs.bris.ac.uk/
.. _University_of_Bristol: http://www.bris.ac.uk/

 </help>
</tool>