diff macs2_filterdup.xml @ 1:d202e3d663bb draft

Uploaded

--- a/macs2_filterdup.xml	Thu Jan 16 13:31:17 2014 -0500
+++ b/macs2_filterdup.xml	Thu Jan 16 15:44:43 2014 -0500
@@ -1,11 +1,10 @@
 <tool id="macs2_filterdup" name="Remove duplicate reads" version="2.0.10.0">
     <description>at the same position</description>
-    <requirements>
-        <requirement type="python-module">macs2</requirement>
-        <requirement type="python-module">numpy</requirement>
-        <requirement type="package" version="2.0.10.2">macs2</requirement>
-        <requirement type="package" version="1.7.1">numpy</requirement>
-    </requirements>
+    <expand macro="requirements" />
+    <expand macro="version_command" />
+    <macros>
+        <import>macs2_macros.xml</import>
+    </macros>
     <command>
         macs2 filterdup
             -t $infile
@@ -26,7 +25,7 @@
         <!--may need to add a few more formats at later time-->
         <param name="infile" type="data" format="sam,bam,bed" label="Sequencing alignment file" />
         <param name="gsize" type="float" label="Effective genome size" value="2.7e+9" help="Human: 3.3e+9, Mouse: 3.0e+9, Fly: 1.9e+8, Worm: 1.3e+8 (--gsize)" />
-        <param name="tsize" type="float" label="Tag size" value="-1.0" help="This will overide the auto detected tag size. DEFAULT: Not set (-1.0)  (--tsize)" />
+        <expand macro="tag_size" />
         <param name="pvalue" type="float" label="Pvalue cutoff for binomial distribution test" value="1e-5" help="default: 1e-5 (--pvalue)" />
 
         <conditional name="keep_dup_options">