htseq_count: tool_dependencies.xml annotate

annotate tool_dependencies.xml @ 15:3ffe4e2572a7

Merge multiple heads.

author	Dave Bouvier <dave@bx.psu.edu>
date	Mon, 27 Jan 2014 14:12:46 -0500
parents	265ca0f35789
children	227f9d3f0e32

rev	line source
0 3fdeebd7e710 Initial commit lparsons parents: diff changeset	1 <?xml version="1.0"?>
3fdeebd7e710 Initial commit lparsons parents: diff changeset	2 <tool_dependency>
13 30bb8acb77a4 Updated to v0.5.4p5, use repository dependencies. lparsons parents: 12 diff changeset	3
30bb8acb77a4 Updated to v0.5.4p5, use repository dependencies. lparsons parents: 12 diff changeset	4 <package name="numpy" version="1.7.1">
30bb8acb77a4 Updated to v0.5.4p5, use repository dependencies. lparsons parents: 12 diff changeset	5 <repository changeset_revision="028df1ddd7a2" name="package_numpy_1_7" owner="iuc" toolshed="http://toolshed.g2.bx.psu.edu" />
30bb8acb77a4 Updated to v0.5.4p5, use repository dependencies. lparsons parents: 12 diff changeset	6 </package>
30bb8acb77a4 Updated to v0.5.4p5, use repository dependencies. lparsons parents: 12 diff changeset	7
30bb8acb77a4 Updated to v0.5.4p5, use repository dependencies. lparsons parents: 12 diff changeset	8 <package name="samtools" version="0.1.19">
30bb8acb77a4 Updated to v0.5.4p5, use repository dependencies. lparsons parents: 12 diff changeset	9 <repository changeset_revision="00e17a794a2e" name="package_samtools_0_1_19" owner="iuc" toolshed="http://toolshed.g2.bx.psu.edu" />
30bb8acb77a4 Updated to v0.5.4p5, use repository dependencies. lparsons parents: 12 diff changeset	10 </package>
30bb8acb77a4 Updated to v0.5.4p5, use repository dependencies. lparsons parents: 12 diff changeset	11
30bb8acb77a4 Updated to v0.5.4p5, use repository dependencies. lparsons parents: 12 diff changeset	12 <package name="picard" version="1.56.0">
30bb8acb77a4 Updated to v0.5.4p5, use repository dependencies. lparsons parents: 12 diff changeset	13 <repository changeset_revision="61e41d21cb6f" name="package_picard_1_56_0" owner="devteam" toolshed="http://toolshed.g2.bx.psu.edu" />
30bb8acb77a4 Updated to v0.5.4p5, use repository dependencies. lparsons parents: 12 diff changeset	14 </package>
30bb8acb77a4 Updated to v0.5.4p5, use repository dependencies. lparsons parents: 12 diff changeset	15
30bb8acb77a4 Updated to v0.5.4p5, use repository dependencies. lparsons parents: 12 diff changeset	16 <package name="htseq" version="0.5.4p5">
0 3fdeebd7e710 Initial commit lparsons parents: diff changeset	17 <install version="1.0">
3fdeebd7e710 Initial commit lparsons parents: diff changeset	18 <actions>
13 30bb8acb77a4 Updated to v0.5.4p5, use repository dependencies. lparsons parents: 12 diff changeset	19 <action type="download_by_url">https://pypi.python.org/packages/source/H/HTSeq/HTSeq-0.5.4p5.tar.gz</action>
30bb8acb77a4 Updated to v0.5.4p5, use repository dependencies. lparsons parents: 12 diff changeset	20 <!-- populate the environment variables from the dependend repos -->
30bb8acb77a4 Updated to v0.5.4p5, use repository dependencies. lparsons parents: 12 diff changeset	21 <action type="set_environment_for_install">
30bb8acb77a4 Updated to v0.5.4p5, use repository dependencies. lparsons parents: 12 diff changeset	22 <repository changeset_revision="028df1ddd7a2" name="package_numpy_1_7" owner="iuc" toolshed="http://toolshed.g2.bx.psu.edu">
30bb8acb77a4 Updated to v0.5.4p5, use repository dependencies. lparsons parents: 12 diff changeset	23 <package name="numpy" version="1.7.1" />
30bb8acb77a4 Updated to v0.5.4p5, use repository dependencies. lparsons parents: 12 diff changeset	24 </repository>
0 3fdeebd7e710 Initial commit lparsons parents: diff changeset	25 </action>
12 62a1de8c8aae Updated HTSEQ package to version 0.5.4p1, attempted to fix galaxy install where lib64 directory does not exist lparsons parents: 10 diff changeset	26 <action type="make_directory">$INSTALL_DIR/lib/python</action> <!-- Not sure why these must be made apriori, but install fails otherwise -->
62a1de8c8aae Updated HTSEQ package to version 0.5.4p1, attempted to fix galaxy install where lib64 directory does not exist lparsons parents: 10 diff changeset	27 <action type="make_directory">$INSTALL_DIR/lib64/python</action> <!-- Not sure why these must be made apriori, but install fails otherwise -->
62a1de8c8aae Updated HTSEQ package to version 0.5.4p1, attempted to fix galaxy install where lib64 directory does not exist lparsons parents: 10 diff changeset	28 <action type="shell_command">export PYTHONPATH=$PYTHONPATH:$INSTALL_DIR/lib/python:$INSTALL_DIR/lib64/python && python setup.py install --home $INSTALL_DIR --install-scripts $INSTALL_DIR/bin</action>
0 3fdeebd7e710 Initial commit lparsons parents: diff changeset	29 <action type="set_environment">
13 30bb8acb77a4 Updated to v0.5.4p5, use repository dependencies. lparsons parents: 12 diff changeset	30 <environment_variable action="append_to" name="PYTHONPATH">$INSTALL_DIR/lib/python:$INSTALL_DIR/lib64/python</environment_variable>
30bb8acb77a4 Updated to v0.5.4p5, use repository dependencies. lparsons parents: 12 diff changeset	31 <environment_variable action="prepend_to" name="PATH">$INSTALL_DIR/bin</environment_variable>
0 3fdeebd7e710 Initial commit lparsons parents: diff changeset	32 </action>
3fdeebd7e710 Initial commit lparsons parents: diff changeset	33 </actions>
3fdeebd7e710 Initial commit lparsons parents: diff changeset	34 </install>
3fdeebd7e710 Initial commit lparsons parents: diff changeset	35 <readme>
3fdeebd7e710 Initial commit lparsons parents: diff changeset	36 Installation of HTSeq requires Python 2.5+ (does not yet work with Python 3), and the Nympy Python package.
3fdeebd7e710 Initial commit lparsons parents: diff changeset	37 </readme>
3fdeebd7e710 Initial commit lparsons parents: diff changeset	38 </package>
12 62a1de8c8aae Updated HTSEQ package to version 0.5.4p1, attempted to fix galaxy install where lib64 directory does not exist lparsons parents: 10 diff changeset	39
0 3fdeebd7e710 Initial commit lparsons parents: diff changeset	40 </tool_dependency>

Mercurial > repos > lparsons > htseq_count

annotate tool_dependencies.xml @ 15:3ffe4e2572a7