--- a/metaintv.xml	Sat Mar 10 08:17:36 2012 -0500
+++ /dev/null	Thu Jan 01 00:00:00 1970 +0000
@@ -1,36 +0,0 @@
-<tool id="metaintv" name="binned-average">
-  <description>from bigwig</description>
-  <command interpreter="python">binnedAverage.py $bwfile $intvfile $nbin $outfile $outplot </command>
-  <inputs>
-      <param name="intvfile" format="bed" type="data" label="BED file (require strand in column 6)"/>
-      <param name="bwfile" format="bigwig" type="data" label="BigWig file"/> 
-      <param name="nbin" type="integer" value="20" label="number of bins"/>
-                
-  </inputs>
-  <outputs>
-    <data format="tabular" name="outfile" label="${tool.name} on ${on_string}[data]"/>
-        <data format="pdf" name="outplot" label="${tool.name} on ${on_string}[plot]"/>
-  </outputs>
-  <help>
-
-.. class:: infomark
-
-Each interval is binned and the average base-resolution score/coverage/density in the bigwig file is added as new columns appended at the end of the original file .
-
-**Example**
-
-If your original data has the following format:
-
-+-----+-----+---+------+
-|chrom|start|end|other2|
-+-----+-----+---+------+
-
-and you choose to divide each interval into 3 bins and return the mean scores of each bin, your output will look like this:
-
-+-----+-----+---+------+-----+-----+-----+
-|chrom|start|end|other2|mean1|mean2|mean3|
-+-----+-----+---+------+-----+-----+-----+
-
-
-</help>
-</tool>