# HG changeset patch
# User rnateam
# Date 1390475410 18000
# Node ID bfaa2f0d9515eafe5acf0e779cbd44edbe6404bf
# Parent  2f9d4b518b034e91dd25becc3bc34039790081ff
Uploaded

diff -r 2f9d4b518b03 -r bfaa2f0d9515 blockbuster.xml
--- a/blockbuster.xml	Thu Oct 17 04:33:30 2013 -0400
+++ b/blockbuster.xml	Thu Jan 23 06:10:10 2014 -0500
@@ -17,16 +17,16 @@
             > $output
     </command>
     <inputs>
-        <param name="input" type="data" format="fasta" label="Fasta file of sequeces" help="-input" />
-        <param name="distance" type="integer" value="30" size="5" label="minimum distance between two clusters" help="-distance" />
-        <param name="minClusterHeight" type="float" value="10" size="5" label="minimum height (readno) of a cluster" help="-minClusterHeight" />
-        <param name="minBlockHeight" type="float" value="2" size="5" label="minimum height (readno) of a block" help="-minBlockHeight" />
-        <param name="scale" type="float" value="0.4" size="5" label="scale stddev for a single read" help="-scale" />
-        <param name="merge" type="integer" value="0" size="5" label="merge reads with almost similar means" help="-merge" />
-        <param name="tagFilter" type="integer" value="0" size="5" label="skip tags with expression smaller than this value" help="-tagFilter" />
-        <param name="print" type="select" label="Type of output" help="-print" >
-            <option value="1" selected="True">blocks</option>
-            <option value="2">reads</option>
+        <param name="input" type="data" format="bed" label="BED file containing read expressions"/>
+        <param name="distance" type="integer" value="40" size="5" label="minimum distance between two clusters"/>
+        <param name="minClusterHeight" type="float" value="50" size="5" label="minimum height (readno) of a cluster"/>
+        <param name="minBlockHeight" type="float" value="1" size="5" label="minimum height (readno) of a block"/>
+        <param name="scale" type="float" value="0.5" size="5" label="scale stddev for a single read"/>
+        <param name="merge" type="integer" value="0" size="5" label="merge reads with almost similar means"/>
+        <param name="tagFilter" type="integer" value="0" size="5" label="skip tags with expression smaller than this value"/>
+        <param name="print" type="select" label="Type of output" >
+            <option value="1">blocks</option>
+            <option value="2" selected="True">reads</option>
         </param>
     </inputs>
 
@@ -49,7 +49,6 @@
 
 **References**
 
-7. Reference
 
 If you use this program in your work you might want to cite: