Mercurial > repos > biopython > package_biopython_1_63

annotate tool_dependencies.xml @ 2:ec55b787a0e1 draft default tip

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
Adding SHA256 checksum
author peterjc
date Wed, 19 Oct 2016 10:18:10 -0400
parents b2c685b0fbac
children
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
rev   line source
0
a5c49b83e983 Uploaded initial version, based on setup used for Biopython 1.61 and 1.62
biopython
parents:
diff changeset
1 <?xml version="1.0"?>
a5c49b83e983 Uploaded initial version, based on setup used for Biopython 1.61 and 1.62
biopython
parents:
diff changeset
2 <tool_dependency>
a5c49b83e983 Uploaded initial version, based on setup used for Biopython 1.61 and 1.62
biopython
parents:
diff changeset
3 <package name="numpy" version="1.7.1">
1
b2c685b0fbac Updating meta-data via planemo shed_update
biopython
parents: 0
diff changeset
4 <repository changeset_revision="300877695495" name="package_numpy_1_7" owner="iuc" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" />
0
a5c49b83e983 Uploaded initial version, based on setup used for Biopython 1.61 and 1.62
biopython
parents:
diff changeset
5 </package>
a5c49b83e983 Uploaded initial version, based on setup used for Biopython 1.61 and 1.62
biopython
parents:
diff changeset
6 <package name="biopython" version="1.63">
a5c49b83e983 Uploaded initial version, based on setup used for Biopython 1.61 and 1.62
biopython
parents:
diff changeset
7 <readme>
a5c49b83e983 Uploaded initial version, based on setup used for Biopython 1.61 and 1.62
biopython
parents:
diff changeset
8 This Galaxy Tool Shed package installs Biopython from source, having
a5c49b83e983 Uploaded initial version, based on setup used for Biopython 1.61 and 1.62
biopython
parents:
diff changeset
9 first installed NumPy which is a build time depencency. This requires
a5c49b83e983 Uploaded initial version, based on setup used for Biopython 1.61 and 1.62
biopython
parents:
diff changeset
10 and assumes a standard C compiler is already installed, along with
a5c49b83e983 Uploaded initial version, based on setup used for Biopython 1.61 and 1.62
biopython
parents:
diff changeset
11 the Python header files.
a5c49b83e983 Uploaded initial version, based on setup used for Biopython 1.61 and 1.62
biopython
parents:
diff changeset
12
a5c49b83e983 Uploaded initial version, based on setup used for Biopython 1.61 and 1.62
biopython
parents:
diff changeset
13 Development of this dependency definition is being done here on GitHub:
a5c49b83e983 Uploaded initial version, based on setup used for Biopython 1.61 and 1.62
biopython
parents:
diff changeset
14 https://github.com/biopython/galaxy_packages
a5c49b83e983 Uploaded initial version, based on setup used for Biopython 1.61 and 1.62
biopython
parents:
diff changeset
15
a5c49b83e983 Uploaded initial version, based on setup used for Biopython 1.61 and 1.62
biopython
parents:
diff changeset
16 The PYTHONPATH for biopython can be accessed through PYTHONPATH_BIOPYTHON.
a5c49b83e983 Uploaded initial version, based on setup used for Biopython 1.61 and 1.62
biopython
parents:
diff changeset
17 </readme>
a5c49b83e983 Uploaded initial version, based on setup used for Biopython 1.61 and 1.62
biopython
parents:
diff changeset
18 <install version="1.0">
a5c49b83e983 Uploaded initial version, based on setup used for Biopython 1.61 and 1.62
biopython
parents:
diff changeset
19 <actions>
2
ec55b787a0e1 Adding SHA256 checksum
peterjc
parents: 1
diff changeset
20 <action sha256sum="c3cd21e645ee1ecf1ec5cccf06da74cbadfc00b084e987c74b5a5aa25a1621b6" type="download_by_url">https://pypi.python.org/packages/source/b/biopython/biopython-1.63.tar.gz</action>
0
a5c49b83e983 Uploaded initial version, based on setup used for Biopython 1.61 and 1.62
biopython
parents:
diff changeset
21 <action type="set_environment_for_install">
1
b2c685b0fbac Updating meta-data via planemo shed_update
biopython
parents: 0
diff changeset
22 <repository changeset_revision="300877695495" name="package_numpy_1_7" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu">
0
a5c49b83e983 Uploaded initial version, based on setup used for Biopython 1.61 and 1.62
biopython
parents:
diff changeset
23 <package name="numpy" version="1.7.1" />
a5c49b83e983 Uploaded initial version, based on setup used for Biopython 1.61 and 1.62
biopython
parents:
diff changeset
24 </repository>
a5c49b83e983 Uploaded initial version, based on setup used for Biopython 1.61 and 1.62
biopython
parents:
diff changeset
25 </action>
a5c49b83e983 Uploaded initial version, based on setup used for Biopython 1.61 and 1.62
biopython
parents:
diff changeset
26 <action type="make_directory">$INSTALL_DIR/lib/python</action>
a5c49b83e983 Uploaded initial version, based on setup used for Biopython 1.61 and 1.62
biopython
parents:
diff changeset
27 <action type="shell_command">
a5c49b83e983 Uploaded initial version, based on setup used for Biopython 1.61 and 1.62
biopython
parents:
diff changeset
28 export PYTHONPATH=$PYTHONPATH:$INSTALL_DIR/lib/python &amp;&amp;
a5c49b83e983 Uploaded initial version, based on setup used for Biopython 1.61 and 1.62
biopython
parents:
diff changeset
29 export PATH=$PATH:$PATH_NUMPY &amp;&amp;
a5c49b83e983 Uploaded initial version, based on setup used for Biopython 1.61 and 1.62
biopython
parents:
diff changeset
30 export PYTHONPATH=$PYTHONPATH:$PYTHONPATH_NUMPY &amp;&amp;
a5c49b83e983 Uploaded initial version, based on setup used for Biopython 1.61 and 1.62
biopython
parents:
diff changeset
31 python setup.py install --install-lib $INSTALL_DIR/lib/python
a5c49b83e983 Uploaded initial version, based on setup used for Biopython 1.61 and 1.62
biopython
parents:
diff changeset
32 </action>
a5c49b83e983 Uploaded initial version, based on setup used for Biopython 1.61 and 1.62
biopython
parents:
diff changeset
33 <action type="set_environment">
a5c49b83e983 Uploaded initial version, based on setup used for Biopython 1.61 and 1.62
biopython
parents:
diff changeset
34 <environment_variable action="append_to" name="PYTHONPATH">$INSTALL_DIR/lib/python</environment_variable>
a5c49b83e983 Uploaded initial version, based on setup used for Biopython 1.61 and 1.62
biopython
parents:
diff changeset
35 <environment_variable action="append_to" name="PYTHONPATH">$ENV[PYTHONPATH_NUMPY]</environment_variable>
a5c49b83e983 Uploaded initial version, based on setup used for Biopython 1.61 and 1.62
biopython
parents:
diff changeset
36 <environment_variable action="prepend_to" name="PATH">$ENV[PATH_NUMPY]</environment_variable>
a5c49b83e983 Uploaded initial version, based on setup used for Biopython 1.61 and 1.62
biopython
parents:
diff changeset
37 <environment_variable action="set_to" name="PYTHONPATH_BIOPYTHON">$INSTALL_DIR/lib/python</environment_variable>
a5c49b83e983 Uploaded initial version, based on setup used for Biopython 1.61 and 1.62
biopython
parents:
diff changeset
38 </action>
a5c49b83e983 Uploaded initial version, based on setup used for Biopython 1.61 and 1.62
biopython
parents:
diff changeset
39 </actions>
a5c49b83e983 Uploaded initial version, based on setup used for Biopython 1.61 and 1.62
biopython
parents:
diff changeset
40 </install>
a5c49b83e983 Uploaded initial version, based on setup used for Biopython 1.61 and 1.62
biopython
parents:
diff changeset
41 </package>
a5c49b83e983 Uploaded initial version, based on setup used for Biopython 1.61 and 1.62
biopython
parents:
diff changeset
42 </tool_dependency>