Mercurial > repos > mir-bioinf > heatmap_colormanipulation

changeset 1:746b5af0a9a2 draft

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Updated files to fix dependency file
author mir-bioinf
date Mon, 20 Apr 2015 15:55:30 -0400
parents 3797463c65f8
children aa592c2c26cb
files heatmap_colormanipulation/heatmap_extra_v2beta_2.xml heatmap_colormanipulation/tool_dependencies.xml
diffstat 2 files changed, 10 insertions(+), 6 deletions(-) [+]
line wrap: on
line diff
--- a/heatmap_colormanipulation/heatmap_extra_v2beta_2.xml	Mon Apr 20 15:26:53 2015 -0400
+++ b/heatmap_colormanipulation/heatmap_extra_v2beta_2.xml	Mon Apr 20 15:55:30 2015 -0400
@@ -1,5 +1,9 @@
 <tool id="heatmap_extra_v2_2" name="Heatmap with extra color options" version="1.0.1">
   <description>based on R's heatmap.2 function.</description>
+  <requirements>
+	<requirement type="package" version="3.0.0">R</requirement>
+	<requirement type="package" version="2.12.1">gplots</requirement>
+  <requirements>
   <command>R --quiet --slave --file=heatmap_extra_v2beta_VERSION.R --args $input $rowvar.rowcorr $rowvar.rowlink $colvar.colcorr $colvar.collink $var_cols $scale $na_remove $header $rowheader $grad_style $col_min $col_max $out_file1 $main@$xlab@$ylab@ ZZZZ_END $ColorManip_outer.ColorManip
 	#if $ColorManip_outer.ColorManip=="InnerClip" or $ColorManip_outer.ColorManip=="OuterClip":
 		$ColorManip_outer.clipValLow
--- a/heatmap_colormanipulation/tool_dependencies.xml	Mon Apr 20 15:26:53 2015 -0400
+++ b/heatmap_colormanipulation/tool_dependencies.xml	Mon Apr 20 15:55:30 2015 -0400
@@ -1,16 +1,16 @@
 <?xml version="1.0"?>
 <tool_dependency>
-    <package name="R" version="3.0.3">
-        <repository changeset_revision="f386d7431fe0" name="package_r_3_0_3" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu" />
+    <package name="R_3_0_1" version="3.0.1">
+        <repository changeset_revision="c5ff6dd33c79" name="package_r_3_0_1" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu" />
     </package>
-    <package name="gtools" version="3.4.1">
+    <package name="gplots" version="2.12.1">
         <install version="1.0">
             <actions>
                 <action type="setup_r_environment">
-                    <repository changeset_revision="f386d7431fe0" name="package_r_3_0_3" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu">
-                        <package name="R" version="3.0.3" />
+		    <repository changeset_revision="c5ff6dd33c79" name="package_r_3_0_1" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu">
+                        <package name="R_3_0_1" version="3.0.3" />
                     </repository>
-                    <package>https://depot.galaxyproject.org/package/noarch/gtools_3.4.1.tar.gz</package>
+                    <package>http://cran.r-project.org/src/contrib/Archive/gplots/gplots_2.12.1.tar.gz</package>
                 </action>
             </actions>
         </install>