Mercurial > repos > ulfschaefer > package_python_2_7_biopython_1_66

changeset 1:6f8b786e347b draft

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Deleted selected files
author ulfschaefer
date Wed, 16 Dec 2015 07:18:54 -0500
parents 5d5355863287
children c722591ee0aa
files tool_dependencies.xml
diffstat 1 files changed, 0 insertions(+), 45 deletions(-) [+]
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line diff
--- a/tool_dependencies.xml	Tue Dec 15 11:08:33 2015 -0500
+++ /dev/null	Thu Jan 01 00:00:00 1970 +0000
@@ -1,45 +0,0 @@
-<?xml version="1.0"?>
-<tool_dependency>
-    <package name="python" version="2.7.10">
-        <repository changeset_revision="0339c4a9b87b" name="package_python_2_7_10" owner="iuc" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" />
-    </package>
-	<package name="numpy" version="1.9">
-        <repository changeset_revision="794f5cf3bb5d" name="package_python_2_7_numpy_1_9" owner="iuc" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" />
-    </package>
-    <package name="biopython" version="1.66">
-        <readme>
-This Galaxy Tool Shed package installs Biopython from source, having
-first installed NumPy which is a build time depencency. This requires
-and assumes a standard C compiler is already installed, along with
-the Python header files.
-
-Development of this dependency definition is being done here on GitHub:
-https://github.com/biopython/galaxy_packages
-
-The PYTHONPATH for biopython can be accessed through PYTHONPATH_BIOPYTHON.
-        </readme>
-        <install version="1.0">
-            <actions>
-                <action type="download_by_url">https://pypi.python.org/packages/source/b/biopython/biopython-1.66.tar.gz</action>
-                <action type="set_environment_for_install">
-                    <repository changeset_revision="794f5cf3bb5d" name="package_python_2_7_numpy_1_9" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu">
-                        <package name="numpy" version="1.9" />
-                    </repository>
-                </action>
-                <action type="make_directory">$INSTALL_DIR/lib/python</action>
-                <action type="shell_command">
-                    export PYTHONPATH=$PYTHONPATH:$INSTALL_DIR/lib/python &amp;&amp;
-                    export PATH=$PATH:$PATH_NUMPY &amp;&amp;
-                    export PYTHONPATH=$PYTHONPATH:$PYTHONPATH_NUMPY &amp;&amp;
-                    python setup.py install --install-lib $INSTALL_DIR/lib/python
-                </action>
-                <action type="set_environment">
-                    <environment_variable action="append_to" name="PYTHONPATH">$INSTALL_DIR/lib/python</environment_variable>
-                    <environment_variable action="append_to" name="PYTHONPATH">$ENV[PYTHONPATH_NUMPY]</environment_variable>
-                    <environment_variable action="prepend_to" name="PATH">$ENV[PATH_NUMPY]</environment_variable>
-                    <environment_variable action="set_to" name="PYTHONPATH_BIOPYTHON">$INSTALL_DIR/lib/python</environment_variable>
-                </action>
-            </actions>
-        </install>
-    </package>
-</tool_dependency>