# HG changeset patch
# User bgruening
# Date 1442571427 14400
# Node ID a4bbac56f046bbc957d0e05ae7cd0d4974372428
# Parent  0eb2441d1fcf0b3ae254a8b1a12a6b44b57daa45
planemo upload for repository https://github.com/fidelram/deepTools/tree/master/galaxy/wrapper/ commit f720d773e34ad90d14d7cae77c1a0bb5d126102c-dirty

diff -r 0eb2441d1fcf -r a4bbac56f046 deepTools_macros.xml
--- a/deepTools_macros.xml	Sun May 31 08:35:35 2015 -0400
+++ b/deepTools_macros.xml	Fri Sep 18 06:17:07 2015 -0400
@@ -192,14 +192,9 @@
     </xml>
 
     <xml name="multiple_input_bams">
-        <repeat name="input_files" title="BAM files" min="2">
-            <param name="bamfile" type="data" format="bam" 
-                label="Bam file" 
-                help="The BAM file must be sorted."/>
-            <param name="label" type="text" size="30" optional="true" value=""
-                label="Label"
-                help="Label to use in the output. If not given the dataset name will be used instead."/>
-        </repeat>
+        <param name="bamfiles" type="data" format="bam"
+            label="Bam file" multiple="true"
+            help="The BAM file must be sorted."/>
     </xml>
 
     <xml name="multiple_input_bigwigs">
@@ -224,20 +219,15 @@
         #set $temp_dir = os.path.abspath(tempfile.mkdtemp())
         #set files=[]
         #set labels=[]
-        #for $i in $input_files:
+        #for $i in $bamfiles:
             #set $temp_input_handle = tempfile.NamedTemporaryFile( dir=$temp_dir )
             #set $temp_input_path = $temp_input_handle.name
             #silent $temp_input_handle.close()
-            #silent os.system("ln -s %s %s.bam" % (str($i.bamfile), $temp_input_path))
-            #silent os.system("ln -s %s %s.bam.bai" % (str($i.bamfile.metadata.bam_index), $temp_input_path))
+            #silent os.system("ln -s %s %s.bam" % (str($i), $temp_input_path))
+            #silent os.system("ln -s %s %s.bam.bai" % (str($i.metadata.bam_index), $temp_input_path))
             #silent $files.append('%s.bam' % $temp_input_path)
 
-            ##set $files += [str($i.bamfile)]
-            #if str($i.label.value) != "":
-                #set $labels += ["\"%s\"" % ($i.label.value)]
-            #else
-                #set $labels += ["\"%s\"" % ($i.bamfile.name)]
-            #end if
+            #silent $labels.append("\"%s\"" % ($i.name))
         #end for
     </token>
 
diff -r 0eb2441d1fcf -r a4bbac56f046 tool_dependencies.xml
--- a/tool_dependencies.xml	Sun May 31 08:35:35 2015 -0400
+++ b/tool_dependencies.xml	Fri Sep 18 06:17:07 2015 -0400
@@ -1,9 +1,9 @@
 <?xml version="1.0"?>
 <tool_dependency>
     <package name="python" version="2.7">
-        <repository changeset_revision="fb14ceede7bc" name="package_python_2_7" owner="iuc" toolshed="https://testtoolshed.g2.bx.psu.edu" />
+        <repository changeset_revision="94e61bd56e40" name="package_python_2_7" owner="iuc" toolshed="https://testtoolshed.g2.bx.psu.edu" />
     </package>
     <package name="deepTools" version="1.5.10">
-        <repository changeset_revision="c4cdf0686bce" name="package_python_2_7_deeptools_1_5_10" owner="iuc" toolshed="https://testtoolshed.g2.bx.psu.edu" />
+        <repository changeset_revision="093b1359d8d2" name="package_python_2_7_deeptools_1_5_10" owner="iuc" toolshed="https://testtoolshed.g2.bx.psu.edu" />
     </package>
 </tool_dependency>