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changeset 15:9cbae8e9e3da draft

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Removed complex dependency - fastqc is just not useful anywhere else!
author fubar
date Thu, 06 Jun 2013 04:14:45 -0400
parents bab9fdc830bd
children 431f07da87b6
files fastqc/tool_dependencies.xml
diffstat 1 files changed, 13 insertions(+), 1 deletions(-) [+]
line wrap: on
line diff
--- a/fastqc/tool_dependencies.xml	Thu Jun 06 03:44:45 2013 -0400
+++ b/fastqc/tool_dependencies.xml	Thu Jun 06 04:14:45 2013 -0400
@@ -1,6 +1,18 @@
 <?xml version="1.0"?>
 <tool_dependency>
     <package name="fastqc_dist_0_10_1" version="0.10.1">
-        <repository name="fastqc_dist_0_10_1" owner="fubar" toolshed="http://testtoolshed.g2.bx.psu.edu" changeset_revision="7a4d34bbf434"/>
+        <install version="1.0">
+            <actions>
+                <action type="download_by_url">http://www.bioinformatics.babraham.ac.uk/projects/fastqc/fastqc_v0.10.1.zip</action>
+                <action type="move_directory_files">
+                    <source_directory>../FastQC</source_directory>
+                    <destination_directory>$INSTALL_DIR/fastqc_dist</destination_directory>
+                </action>                
+                <action type="shell_command">chmod ugo+x $INSTALL_DIR/fastqc_dist/fastqc</action>
+                <action type="set_environment">
+                    <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR/fastqc_dist</environment_variable>
+                </action>
+            </actions>
+        </install>
     </package>
 </tool_dependency>