annotate tool_dependencies.xml @ 16:14f378e35191 draft default tip

Uploaded
author modencode-dcc
date Fri, 25 Jan 2013 11:49:55 -0500
parents 27b3fbd033d4
children
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
rev   line source
8
fff96b974166 Uploaded
modencode-dcc
parents:
diff changeset
1 <?xml version="1.0"?>
fff96b974166 Uploaded
modencode-dcc
parents:
diff changeset
2 <tool_dependency>
fff96b974166 Uploaded
modencode-dcc
parents:
diff changeset
3 <package name="macs2" version="2.0.10.2">
16
14f378e35191 Uploaded
modencode-dcc
parents: 15
diff changeset
4 <install version="1.0">
14f378e35191 Uploaded
modencode-dcc
parents: 15
diff changeset
5 <!--<actions>
14f378e35191 Uploaded
modencode-dcc
parents: 15
diff changeset
6 <action type="download_by_url">http://data.modencode.org/modENCODE_Galaxy/tarballs/Python-2.7.3.tar.bz2</action>
14f378e35191 Uploaded
modencode-dcc
parents: 15
diff changeset
7 <action type="shell_command">./configure</action>
14f378e35191 Uploaded
modencode-dcc
parents: 15
diff changeset
8 <action type="shell_command">make -j</action>
14f378e35191 Uploaded
modencode-dcc
parents: 15
diff changeset
9 <action type="shell_command">sudo -n make install</action>
14f378e35191 Uploaded
modencode-dcc
parents: 15
diff changeset
10 <action type="shell_command">sudo -n chmod ag+w /usr/local/lib/python2.7/site-packages</action>
14f378e35191 Uploaded
modencode-dcc
parents: 15
diff changeset
11 <action type="shell_command">sudo -n chmod ag+wx /usr/local/bin</action>
14f378e35191 Uploaded
modencode-dcc
parents: 15
diff changeset
12 </actions>-->
8
fff96b974166 Uploaded
modencode-dcc
parents:
diff changeset
13 <actions>
16
14f378e35191 Uploaded
modencode-dcc
parents: 15
diff changeset
14 <action type="download_by_url">http://data.modencode.org/modENCODE_Galaxy/tarballs/macs2pkg.tar</action>
8
fff96b974166 Uploaded
modencode-dcc
parents:
diff changeset
15 <action type="move_directory_files">
fff96b974166 Uploaded
modencode-dcc
parents:
diff changeset
16 <source_directory>bin</source_directory>
fff96b974166 Uploaded
modencode-dcc
parents:
diff changeset
17 <destination_directory>$INSTALL_DIR/bin</destination_directory>
fff96b974166 Uploaded
modencode-dcc
parents:
diff changeset
18 </action>
fff96b974166 Uploaded
modencode-dcc
parents:
diff changeset
19 <action type="move_directory_files">
fff96b974166 Uploaded
modencode-dcc
parents:
diff changeset
20 <source_directory>lib</source_directory>
fff96b974166 Uploaded
modencode-dcc
parents:
diff changeset
21 <destination_directory>$INSTALL_DIR/lib</destination_directory>
fff96b974166 Uploaded
modencode-dcc
parents:
diff changeset
22 </action>
fff96b974166 Uploaded
modencode-dcc
parents:
diff changeset
23 <action type="set_environment">
fff96b974166 Uploaded
modencode-dcc
parents:
diff changeset
24 <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR/bin</environment_variable>
fff96b974166 Uploaded
modencode-dcc
parents:
diff changeset
25 <environment_variable name="PYTHONPATH" action="prepend_to">$INSTALL_DIR/lib/python2.7/site-packages</environment_variable>
fff96b974166 Uploaded
modencode-dcc
parents:
diff changeset
26 </action>
fff96b974166 Uploaded
modencode-dcc
parents:
diff changeset
27 </actions>
fff96b974166 Uploaded
modencode-dcc
parents:
diff changeset
28 </install>
fff96b974166 Uploaded
modencode-dcc
parents:
diff changeset
29 <readme>Macs2 depends on having python2.7 installed on all nodes of the work cluster</readme>
fff96b974166 Uploaded
modencode-dcc
parents:
diff changeset
30 </package>
fff96b974166 Uploaded
modencode-dcc
parents:
diff changeset
31 </tool_dependency>
16
14f378e35191 Uploaded
modencode-dcc
parents: 15
diff changeset
32
14f378e35191 Uploaded
modencode-dcc
parents: 15
diff changeset
33 <!--<action type="download_by_url">http://data.modencode.org/modENCODE_Galaxy/tarballs/numpy.tar</action>
14f378e35191 Uploaded
modencode-dcc
parents: 15
diff changeset
34 <action type="shell_command">sudo -n python setup.py build</action>
14f378e35191 Uploaded
modencode-dcc
parents: 15
diff changeset
35 <action type="shell_command">sudo -n python setup.py install</action>-->
14f378e35191 Uploaded
modencode-dcc
parents: 15
diff changeset
36