# HG changeset patch
# User devteam
# Date 1444753475 14400
# Node ID 7f4aca133f733e841ea99cc17708e549822ec339
# Parent  512c6b2dba00344dbb182253d0e58ca82c71cfbf
planemo upload commit 33927a87ba2eee9bf0ecdd376a66241b17b3d734

diff -r 512c6b2dba00 -r 7f4aca133f73 macs_wrapper.xml
--- a/macs_wrapper.xml	Thu Jan 23 12:32:02 2014 -0500
+++ b/macs_wrapper.xml	Tue Oct 13 12:24:35 2015 -0400
@@ -6,7 +6,7 @@
     <requirement type="package" version="2.15.0">R</requirement>
   </requirements>
   <inputs>
-    <param name="experiment_name" type="text" value="MACS in Galaxy" size="50" label="Experiment Name"/>
+    <param name="experiment_name" type="text" value="MACS in Galaxy" label="Experiment Name"/>
     <conditional name="input_type">
       <param name="input_type_selector" type="select" label="Paired End Sequencing">
         <option value="paired_end">Paired End (requires elandmulti format)</option>
@@ -44,7 +44,7 @@
       </when>
     </conditional>
     <param name="nolambda" label="Use fixed background lambda as local lambda for every peak region" type="boolean" truevalue="--nolambda" falsevalue="" checked="False" help="up to 9X more time consuming"/>
-    <param name="lambdaset" type="text" label="3 levels of regions around the peak region to calculate the maximum lambda as local lambda" value="1000,5000,10000" size="50"/>
+    <param name="lambdaset" type="text" label="3 levels of regions around the peak region to calculate the maximum lambda as local lambda" value="1000,5000,10000"/>
     <conditional name="nomodel_type">
       <param name="nomodel_type_selector" type="select" label="Build Model">
         <option value="nomodel">Do not build the shifting model</option>
@@ -235,5 +235,8 @@
 
 If you use this tool in Galaxy, please cite Blankenberg D, et al. *In preparation.*
 
-  </help>
+    </help>
+    <citations>
+        <citation type="doi">10.1186/gb-2008-9-9-r137</citation>
+    </citations>
 </tool>
diff -r 512c6b2dba00 -r 7f4aca133f73 tool_dependencies.xml
--- a/tool_dependencies.xml	Thu Jan 23 12:32:02 2014 -0500
+++ b/tool_dependencies.xml	Tue Oct 13 12:24:35 2015 -0400
@@ -1,9 +1,9 @@
 <?xml version="1.0"?>
 <tool_dependency>
   <package name="macs" version="1.3.7.1">
-      <repository changeset_revision="3e6290791f9c" name="package_macs_1_3_7_1" owner="devteam" prior_installation_required="False" toolshed="http://testtoolshed.g2.bx.psu.edu" />
+      <repository changeset_revision="3e6290791f9c" name="package_macs_1_3_7_1" owner="devteam" toolshed="https://testtoolshed.g2.bx.psu.edu" />
     </package>
     <package name="R" version="2.15.0">
-      <repository changeset_revision="829b7c7ead83" name="package_r_2_15_0" owner="devteam" prior_installation_required="False" toolshed="http://testtoolshed.g2.bx.psu.edu" />
+      <repository changeset_revision="3a70cdc41d21" name="package_r_2_15_0" owner="devteam" toolshed="https://testtoolshed.g2.bx.psu.edu" />
     </package>
 </tool_dependency>