# HG changeset patch
# User fubar
# Date 1370571256 14400
# Node ID 76297e1ef552491c0e0d43224f4c5bd9dddf41b3
# Parent  71f4b3d0e6814251512102c6837828c1a5a805ab
almost right - testing adding requirements

diff -r 71f4b3d0e681 -r 76297e1ef552 htseq_bams_to_count_matrix/htseqsams2mx.xml
--- a/htseq_bams_to_count_matrix/htseqsams2mx.xml	Thu Jun 06 21:48:09 2013 -0400
+++ b/htseq_bams_to_count_matrix/htseqsams2mx.xml	Thu Jun 06 22:14:16 2013 -0400
@@ -1,10 +1,10 @@
 <tool id="htseqsams2mx" name="Multiple SAMs to count matrix" version="0.2">
     <description>for DGE</description>
     <requirements>
-      <requirement type="package" version="0.5.4p3">package_htseq_0_5_4</requirement>
-      <!--      <requirement type="package" version="2.4.11">freetype</requirement>
-      <requirement type="package" version="1.7.1">package_numpy_1_7</requirement>
-      <requirement type="package" version="1.2.1">matplotlib</requirement> -->
+      <requirement type="package" version="0.5.4p3">htseq</requirement>
+      <requirement type="package" version="2.4.11">freetype</requirement>
+      <requirement type="package" version="1.7.1">numpy</requirement>
+      <requirement type="package" version="1.2.1">matplotlib</requirement> 
     </requirements>
     <command interpreter="python">
     htseqsams2mx.py -g "$gfffile" -o "$outfile" -m "$model" --id_attribute "$id_attr" --feature_type "$feature_type"
diff -r 71f4b3d0e681 -r 76297e1ef552 htseq_bams_to_count_matrix/tool_dependencies.xml
--- a/htseq_bams_to_count_matrix/tool_dependencies.xml	Thu Jun 06 21:48:09 2013 -0400
+++ b/htseq_bams_to_count_matrix/tool_dependencies.xml	Thu Jun 06 22:14:16 2013 -0400
@@ -11,7 +11,6 @@
             <actions>
                 <!-- first action is always downloading -->
                 <action type="download_by_url">http://downloads.sourceforge.net/project/matplotlib/matplotlib/matplotlib-1.2.1/matplotlib-1.2.1.tar.gz</action>
-
                 <!-- populate the environment variables from the dependend repos -->
                 <action type="set_environment_for_install">
                         <package name="numpy" toolshed="http://testtoolshed.g2.bx.psu.edu" version="1.7.1">
@@ -37,7 +36,7 @@
         </install>
         <readme>Compiling matplotlib requires a C compiler (typically gcc) and libpng.</readme>
     </package>
-    <package name="package_htseq_0_5_4" version="0.5.4p3">
+    <package name="htseq" version="0.5.4p3">
         <install version="1.0">
             <actions>
                 <action type="download_by_url">https://pypi.python.org/packages/source/H/HTSeq/HTSeq-0.5.4p3.tar.gz</action>