Mercurial > repos > big-tiandm > mirplant2

comparison tool_dependencies.xml @ 42:3b9a6381e6bf draft

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Uploaded
author big-tiandm
date Tue, 28 Oct 2014 01:35:17 -0400
parents 10df3c84d54a
children 0c4e11018934
comparison
equal deleted inserted replaced
41:58b9d9a0d832 42:3b9a6381e6bf
1 <?xml version="1.0"?> 1 <?xml version="1.0"?>
2 <tool_dependency> 2 <tool_dependency>
3 <package name="fastx_toolkit" version="0.0.13"> 3 <package name="fastx_toolkit" version="0.0.13">
4 <repository changeset_revision="ec66ae4c269b" name="package_fastx_toolkit_0_0_13" owner="devteam" toolshed="http://toolshed.g2.bx.psu.edu" /> 4 <repository changeset_revision="ec66ae4c269b" name="package_fastx_toolkit_0_0_13" owner="devteam" toolshed="https://toolshed.g2.bx.psu.edu" />
5 </package> 5 </package>
6 <package name="bowtie" version="0.12.7"> 6 <package name="bowtie" version="0.12.7">
7 <repository changeset_revision="9f9f38617a98" name="package_bowtie_0_12_7" owner="devteam" toolshed="http://toolshed.g2.bx.psu.edu" /> 7 <repository changeset_revision="9f9f38617a98" name="package_bowtie_0_12_7" owner="devteam" toolshed="https://toolshed.g2.bx.psu.edu" />
8 </package> 8 </package>
9 <set_environment version="1.0"> 9 <set_environment version="1.0">
10 <environment_variable action="set_to" name="SCRIPT_PATH">$REPOSITORY_INSTALL_DIR</environment_variable> 10 <environment_variable action="set_to" name="SCRIPT_PATH">$REPOSITORY_INSTALL_DIR</environment_variable>
11 </set_environment> 11 </set_environment>
12 <package name="R" version="2.11.0"> 12 <package name="R" version="2.11.0">
13 <repository changeset_revision="8d0a55bf7aaf" name="package_r_2_11_0" owner="devteam" toolshed="http://toolshed.g2.bx.psu.edu" /> 13 <repository changeset_revision="8d0a55bf7aaf" name="package_r_2_11_0" owner="devteam" toolshed="http://toolshed.g2.bx.psu.edu" />
14 </package> 14 </package>
15 <package name="ViennaRNA" version="2.1.7"> 15
16 <!--install version="1.0"> 16 <package name="X11" version="1.5.0">
17 <repositoty name="package_libx11_1_5_0" owner="devteam" />
18 </package>
19
20 <package name="ViennaRNA" version="2.1.8">
21 <install version="1.0">
17 <actions> 22 <actions>
18 <action type="download_by_url">http://www.tbi.univie.ac.at/RNA/packages/source/ViennaRNA-2.1.7.tar.gz</action> 23 <action type="download_by_url">http://www.tbi.univie.ac.at/RNA/packages/source/ViennaRNA-2.1.8.tar.gz</action>
19 <action type="shell_command">./configure</action> 24 <action type="shell_command">./configure --prefix=$INSTALL_DIR </action>
20 <action type="shell_command">make</action> 25 <action type="shell_command">make</action>
21 <action type="shell_command">make install</action> 26 <action type="shell_command">make install</action>
22 <action type="set_environment"> 27 <action type="set_environment">
23 <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR/bin</environment_variable> 28 <environment_variable action="prepend_to" name="PATH">$INSTALL_DIR/bin</environment_variable>
24 </action> 29 </action>
25 </actions> 30 </actions>
26 </install--> 31 </install>
27 </package> 32 </package>
28 </tool_dependency> 33 </tool_dependency>