Mercurial > repos > ulfschaefer > package_python_2_7_pyvcf_0_6_8dev

changeset 0:026ed16cc40c draft default tip

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author ulfschaefer
date Tue, 19 Apr 2016 09:23:30 -0400
parents
children
files tool_dependencies.xml
diffstat 1 files changed, 35 insertions(+), 0 deletions(-) [+]
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--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/tool_dependencies.xml	Tue Apr 19 09:23:30 2016 -0400
@@ -0,0 +1,35 @@
+<?xml version='1.0' encoding='utf-8'?>
+<tool_dependency>
+    <package name="python" version="2.7.10">
+        <repository changeset_revision="a28e3c30828d" name="package_python_2_7_10" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" />
+    </package>
+    <package name="pyvcf" version="0.6.8dev">
+        <install version="1.0">
+            <actions>
+                <action type="download_by_url">https://github.com/jamescasbon/PyVCF/archive/0eb779559e74faa14fae609c8864874ab8321c7e.tar.gz</action>
+                <action type="set_environment_for_install">
+                    <repository changeset_revision="a28e3c30828d" name="package_python_2_7_10" owner="iuc" toolshed="https://testtoolshed.g2.bx.psu.edu">
+                        <package name="python" version="2.7.10" />
+                    </repository>
+                </action>
+                <action type="make_directory">$INSTALL_DIR/lib/python</action>
+                <action type="make_directory">$INSTALL_DIR/lib/python/bin</action>
+                <action type="shell_command">
+                    export PYTHONPATH=$PYTHONPATH:$INSTALL_DIR/lib/python &amp;&amp;
+                    python setup.py install --install-lib $INSTALL_DIR/lib/python --install-scripts $INSTALL_DIR/lib/python/bin
+                </action>
+                <action type="set_environment">
+                    <environment_variable action="append_to" name="PYTHONPATH">$INSTALL_DIR/lib/python</environment_variable>
+                    <environment_variable action="append_to" name="PATH">$INSTALL_DIR/lib/python/bin</environment_variable>
+                    <environment_variable action="set_to" name="PYTHONPATH_PYVCF">$INSTALL_DIR/lib/python</environment_variable>
+                </action>
+            </actions>
+        </install>
+            <readme>
+            This Galaxy Tool shed package installs a defined commit
+            (0eb779559e74faa14fae609c8864874ab8321c7e) of the 0.6.8dev version of PyVCF for use with python 2.7.10.
+
+            The corresponding PYTHONPATH is accessible via PYTHONPATH_PYVCF
+        </readme>
+    </package>
+</tool_dependency>