view galaxy-conf/LogTransform.xml @ 16:35031c567ece draft

Add sam_fa_indices.loc.sample to enable DNAProperty and FindNMer tools that require samtools indices to be installed.
author timpalpant
date Sat, 09 Jun 2012 16:06:25 -0400
parents 3e477c7e0e73
children
line wrap: on
line source

<tool id="WigLogTransform" name="Log transform" version="1.1.0">
  <description>a (Big)Wig file</description>
  <command interpreter="sh">galaxyToolRunner.sh wigmath.LogTransform -i $input -b $base -o $output</command>
  <inputs>
    <param format="bigwig,wig" name="input" type="data" label="(Big)Wig file" />
    <param name="base" type="integer" value="2" label="Logarithm base" />
  </inputs>
  <outputs>
    <data format="wig" name="output" metadata_source="input" />
  </outputs>
  <tests>
	  <test>
	    <param name="input" value="wigmath1.wig"/>
	    <param name="base" value="2"/>
	    <output name="output" file="logger1.wig"/>
	  </test>
	  <test>
	    <param name="input" value="wigmath2.wig"/>
	    <param name="base" value="3"/>
	    <output name="output" file="logger2.wig"/>
	  </test>
	  <test>
	    <param name="input" value="wigmath3.wig"/>
	    <param name="base" value="10"/>
	    <output name="output" file="logger3.wig"/>
	  </test>
	  <test>
	    <param name="input" value="wigmath1.bw"/>
	    <param name="base" value="2"/>
	    <output name="output" file="logger4.wig"/>
	  </test>
	  <test>
	    <param name="input" value="wigmath2.bw"/>
	    <param name="base" value="3"/>
	    <output name="output" file="logger5.wig"/>
	  </test>
	  <test>
	    <param name="input" value="wigmath3.bw"/>
	    <param name="base" value="10"/>
	    <output name="output" file="logger6.wig"/>
	  </test>
  </tests>
  
  <help>

.. class:: infomark

**TIP:** If your dataset does not appear in the pulldown menu, it means that it is not in Wig or BigWig format. Use "edit attributes" to set the correct format if it was not detected correctly.
    
  </help>
</tool>