comparison rgweblogo/tool_dependencies.xml @ 3:fad187cb76fe draft

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author fubar
date Thu, 05 Dec 2013 00:56:04 -0500
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2:ef1f89257fdb 3:fad187cb76fe
1 <?xml version="1.0"?>
2 <tool_dependency>
3 <package name="numpy" version="1.7.1">
4 <repository changeset_revision="796c0081adad" name="package_numpy_1_7" owner="iuc" prior_installation_required="True" toolshed="http://toolshed.g2.bx.psu.edu" />
5 </package>
6 <package name="ghostscript" version="9.07">
7 <repository changeset_revision="516712b2f0cb" name="package_ghostscript_9_07" owner="iuc" prior_installation_required="True" toolshed="http://toolshed.g2.bx.psu.edu" />
8 </package>
9
10 <package name="package_weblogo" version="3.3">
11 <install version="1.0">
12 <actions>
13 <!-- populate the environment variables from the dependend repos -->
14 <action type="download_by_url">http://weblogo.googlecode.com/files/weblogo-3.3.tar.gz</action>
15
16 <action type="set_environment_for_install">
17 <repository changeset_revision="516712b2f0cb" name="package_ghostscript_9_07" owner="iuc" toolshed="http://toolshed.g2.bx.psu.edu/">
18 <package name="ghostscript" version="9.07" />
19 </repository>
20 <repository changeset_revision="796c0081adad" name="package_numpy_1_7" owner="iuc" toolshed="http://toolshed.g2.bx.psu.edu/">
21 <package name="numpy" version="1.7.1" />
22 </repository>
23 </action>
24 <!-- install weblogo -->
25 <action type="make_directory">$INSTALL_DIR/lib/python</action>
26 <action type="shell_command">export PYTHONPATH=$INSTALL_DIR/lib/python:$PYTHONPATH_NUMPY:$PYTHONPATH &amp;&amp;
27 python setup.py install --home $INSTALL_DIR --install-scripts $INSTALL_DIR/bin</action>
28 <action type="set_environment">
29 <environment_variable action="append_to" name="PYTHONPATH">$INSTALL_DIR/lib/python</environment_variable>
30 <environment_variable action="append_to" name="PYTHONPATH">$ENV[PYTHONPATH_NUMPY]</environment_variable>
31 <environment_variable action="prepend_to" name="PATH">$ENV[PATH_NUMPY]</environment_variable>
32 <environment_variable action="prepend_to" name="PATH">$INSTALL_DIR/bin</environment_variable>
33 <environment_variable action="set_to" name="WEBLOGO_PATH">$INSTALL_DIR/bin/weblogo</environment_variable>
34 </action>
35 </actions>
36 </install>
37 <readme>
38 weblogo3 is a python version of the old weblogo2.8 or so. Requires numpy and ghostscript so these are installed if not already on your system - if that happens, please be patient
39 while numpy compiles - especially if the ATLAS libraries are being installed - which is not at present.
40 </readme>
41 </package>
42 </tool_dependency>