Mercurial > repos > fubar > package_pysam_0_7_5

changeset 0:a4e35f23093f draft

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initial commit
author fubar
date Wed, 07 Aug 2013 21:44:50 -0400
parents
children f8d339d91b3a
files tool_dependencies.xml
diffstat 1 files changed, 21 insertions(+), 0 deletions(-) [+]
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--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/tool_dependencies.xml	Wed Aug 07 21:44:50 2013 -0400
@@ -0,0 +1,21 @@
+<?xml version="1.0"?>
+<tool_dependency>
+
+    <package name="pysam" version="0.7.5">
+        <install version="1.0">
+            <actions>
+                <action type="download_by_url">https://pysam.googlecode.com/files/pysam-0.7.5.tar.gz</action>
+                <action type="make_directory">$INSTALL_DIR/lib/python</action> <!-- Not sure why these must be made apriori, but install fails otherwise -->
+                <action type="make_directory">$INSTALL_DIR/lib64/python</action> <!-- Not sure why these must be made apriori, but install fails otherwise -->
+                <action type="shell_command">export PYTHONPATH=$PYTHONPATH:$INSTALL_DIR/lib/python:$INSTALL_DIR/lib64/python &amp;&amp; python setup.py install --home $INSTALL_DIR --install-scripts $INSTALL_DIR/bin</action>
+                <action type="set_environment">
+                    <environment_variable action="append_to" name="PYTHONPATH">$INSTALL_DIR/lib/python:$INSTALL_DIR/lib64/python</environment_variable>
+                    <environment_variable action="prepend_to" name="PATH">$INSTALL_DIR/bin</environment_variable>
+                </action>
+            </actions>
+        </install>
+        <readme>
+            simple pysam install test from ross for htseq
+        </readme>
+    </package>
+</tool_dependency>