Mercurial > repos > big-tiandm > degseq

comparison tool_dependencies.xml @ 14:e10ada1be34d draft

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author big-tiandm
date Fri, 14 Nov 2014 23:01:13 -0500
parents 96961ac4f745
children 1f49db503877
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13:96961ac4f745 14:e10ada1be34d
3 <set_environment version="1.0"> 3 <set_environment version="1.0">
4 <environment_variable action="set_to" name="SCRIPT_PATH">$REPOSITORY_INSTALL_DIR</environment_variable> 4 <environment_variable action="set_to" name="SCRIPT_PATH">$REPOSITORY_INSTALL_DIR</environment_variable>
5 </set_environment> 5 </set_environment>
6 6
7 <package name="R" version="3.0.1"> 7 <package name="R" version="3.0.1">
8 <repository changeset_revision="c5ff6dd33c79" name="package_r_3_0_1" owner="iuc" toolshed="http://toolshed.g2.bx.psu.edu" /> 8 <repository changeset_revision="c5ff6dd33c79" name="package_r_3_0_1" owner="iuc" toolshed="http://toolshed.g2.bx.psu.edu" prior_installation_required="True"/>
9 </package> 9 </package>
10 10
11 <package name="degseq" version="1.20.0"> 11 <package name="degseq" version="1.20.0">
12 <install version="1.0"> 12 <install version="1.0">
13 <actions> 13 <actions>
14 <action type="set_environment_for_install"> 14 <action type="set_environment_for_install">
15 <repository changeset_revision="c5ff6dd33c79" name="package_r_3_0_1" owner="iuc" toolshed="http://toolshed.g2.bx.psu.edu"> 15 <repository changeset_revision="c5ff6dd33c79" name="package_r_3_0_1" owner="iuc" toolshed="http://toolshed.g2.bx.psu.edu" prior_installation_required="True">
16 <package name="R" version="3.0.1" /> 16 <package name="R" version="3.0.1" />
17 </repository> 17 </repository>
18 </action> 18 </action>
19 <action type="shell_command">R CMD BATCH $REPOSITORY_INSTALL_DIR/install_DEG.R </action> 19 <action type="shell_command">R CMD BATCH $REPOSITORY_INSTALL_DIR/install_DEG.R </action>
20
21 <action type="shell_command">RPATH=`which R` </action>
22
23 <action type="set_environment">
24 <environment_variable name="PATH" action="prepend_to">$RPATH</environment_variable>
25 </action>
26
20 </actions> 27 </actions>
21 </install> 28 </install>
22 29
23 30
24 </package> 31 </package>