# HG changeset patch
# User bgruening
# Date 1485251540 18000
# Node ID c1ff5c44607357c22ac8c9def59075d21d3ae788
# Parent  7b38fcd4ff9e4b5715150b6d091bbd86b10d62be
planemo upload for repository https://github.com/fidelram/deepTools/tree/master/galaxy/wrapper/ commit 999ec5d9b5882702497d8117a7d26536a67e19ca

diff -r 7b38fcd4ff9e -r c1ff5c446073 deepTools_macros.xml
--- a/deepTools_macros.xml	Mon Dec 05 08:07:07 2016 -0500
+++ b/deepTools_macros.xml	Tue Jan 24 04:52:20 2017 -0500
@@ -98,11 +98,11 @@
     </xml>
 
     <token name="@THREADS@">--numberOfProcessors "\${GALAXY_SLOTS:-4}"</token>
-    <token name="@WRAPPER_VERSION@">2.4.1</token>
+    <token name="@WRAPPER_VERSION@">2.4.2</token>
     <xml name="requirements">
         <requirements>
             <requirement type="package" version="2.7.10">python</requirement>
-            <requirement type="package" version="2.4.1">deeptools</requirement>
+            <requirement type="package" version="2.4.2">deeptools</requirement>
             <yield />
         </requirements>
         <expand macro="stdio" />
@@ -299,7 +299,7 @@
         <param argument="--sortRegions" type="select" label="Sort regions"
             help="Whether the heatmap should present the regions sorted. The default is to sort in descending order based on the mean value per region.">
             <option value="no">no ordering</option>
-            <option value="descend">descending order</option>
+            <option value="descend" selected="true">descending order</option>
             <option value="ascend">ascending order</option>
         </param>
     </xml>
@@ -450,10 +450,10 @@
             #end for
         #else:
             #for $counter, $f in enumerate($multibam_conditional.multibam_repeats):
-                ln -s "${f.bamfile}" "./${counter}.bam" &&
-                ln -s "${f.bamfile.metadata.bam_index}" "./${counter}.bam.bai" &&
+                ln -s "${f.bamfiles}" "./${counter}.bam" &&
+                ln -s "${f.bamfiles.metadata.bam_index}" "./${counter}.bam.bai" &&
                 #silent $files.append('%s.bam' % $counter)
-                #silent $labels.append("'%s'" % ($f.bamfile.display_name))
+                #silent $labels.append("'%s'" % ($f.bamfiles.display_name))
             #end for
         #end if
 ]]>
@@ -471,9 +471,9 @@
             #end for
         #else:
             #for $counter, $f in enumerate($multibigwig_conditional.multibigwig_repeats):
-                ln -s "${f.bigwig}" "${counter}.bw" &&
+                ln -s "${f.bigwigfiles}" "${counter}.bw" &&
                 #silent $files.append('%s.bw' % $counter)
-                #silent $labels.append("'%s'" % ($f.bigwig.display_name))
+                #silent $labels.append("'%s'" % ($f.bigwigfiles.display_name))
             #end for
         #end if
 ]]>
diff -r 7b38fcd4ff9e -r c1ff5c446073 plotHeatmap.xml
--- a/plotHeatmap.xml	Mon Dec 05 08:07:07 2016 -0500
+++ b/plotHeatmap.xml	Tue Jan 24 04:52:20 2017 -0500
@@ -193,7 +193,7 @@
                     label="Labels for the regions plotted in the heatmap"
                     help="If more than one region is being plotted a list of labels separated by space is required.
                           If a label itself contains a space, then quotes are needed.
-                          For example, label_1, &quot;label 2&quot;" />
+                          For example, label_1 &quot;label 2&quot;" />
 
                 <expand macro="plotTitle" />
                 <param argument="--perGroup" type="boolean" truevalue="--perGroup" falsevalue=""
diff -r 7b38fcd4ff9e -r c1ff5c446073 repository_dependencies.xml
--- a/repository_dependencies.xml	Mon Dec 05 08:07:07 2016 -0500
+++ b/repository_dependencies.xml	Tue Jan 24 04:52:20 2017 -0500
@@ -1,4 +1,4 @@
 <?xml version="1.0"?>
 <repositories>
-    <repository changeset_revision="74b09c8e5f6e" name="data_manager_twobit_builder" owner="devteam" toolshed="https://toolshed.g2.bx.psu.edu" />
+    <repository changeset_revision="df883cc67fbd" name="data_manager_twobit_builder" owner="devteam" toolshed="https://toolshed.g2.bx.psu.edu" />
 </repositories>
diff -r 7b38fcd4ff9e -r c1ff5c446073 tool_dependencies.xml
--- a/tool_dependencies.xml	Mon Dec 05 08:07:07 2016 -0500
+++ b/tool_dependencies.xml	Tue Jan 24 04:52:20 2017 -0500
@@ -3,7 +3,7 @@
     <package name="python" version="2.7.10">
         <repository changeset_revision="0339c4a9b87b" name="package_python_2_7_10" owner="iuc" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" />
     </package>
-    <package name="deeptools" version="2.4.1">
-        <repository changeset_revision="e9855a43ac53" name="package_python_2_7_deeptools_2_4_1" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu" />
+    <package name="deeptools" version="2.4.2">
+        <repository changeset_revision="efc55c226f11" name="package_python_2_7_deeptools_2_4_2" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu" />
     </package>
 </tool_dependency>