Mercurial > repos > big-tiandm > sirna_plant
comparison tool_dependencies.xml @ 33:09fefe8db1d0 draft default tip
Uploaded
| author | big-tiandm |
|---|---|
| date | Sat, 15 Nov 2014 01:33:45 -0500 |
| parents | 9492b7987604 |
| children |
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| 32:399d8dbdedd6 | 33:09fefe8db1d0 |
|---|---|
| 7 <repository changeset_revision="9f9f38617a98" name="package_bowtie_0_12_7" owner="devteam" toolshed="https://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 | |
| 12 <package name="R" version="3.0.1"> | 13 <package name="R" version="3.0.1"> |
| 13 <repository changeset_revision="c5ff6dd33c79" name="package_r_3_0_1" owner="iuc" toolshed="http://toolshed.g2.bx.psu.edu" /> | 14 <repository changeset_revision="c5ff6dd33c79" name="package_r_3_0_1" owner="iuc" toolshed="http://toolshed.g2.bx.psu.edu" prior_installation_required="True"/> |
| 14 </package> | |
| 15 | 15 |
| 16 <package name="degseq" version="1.20.0"> | |
| 17 <install version="1.0"> | 16 <install version="1.0"> |
| 18 <actions> | 17 <actions> |
| 19 <action type="set_environment_for_install"> | 18 <action type="set_environment_for_install"> |
| 20 <repository changeset_revision="c5ff6dd33c79" name="package_r_3_0_1" owner="iuc" toolshed="http://toolshed.g2.bx.psu.edu"> | 19 <repository changeset_revision="c5ff6dd33c79" name="package_r_3_0_1" owner="iuc" toolshed="http://toolshed.g2.bx.psu.edu" prior_installation_required="True"> |
| 21 <package name="R" version="3.0.1" /> | 20 <package name="R" version="3.0.1" /> |
| 22 </repository> | 21 </repository> |
| 23 </action> | 22 </action> |
| 24 <action type="shell_command">R CMD BATCH $REPOSITORY_INSTALL_DIR/install_DEG.R </action> | 23 <action type="shell_command">R CMD BATCH $REPOSITORY_INSTALL_DIR/install_DEG.R </action> |
| 25 </actions> | 24 <action type="shell_command">echo "export PATH=$PATH" > $INSTALL_DIR/env.sh </action> |
| 25 <action type="shell_command">chmod 755 $INSTALL_DIR/env.sh </action> | |
| 26 | |
| 27 </actions> | |
| 26 </install> | 28 </install> |
| 27 </package> | 29 </package> |
| 28 | 30 |
| 29 <package name="threads" version="1.96"> | 31 <package name="threads" version="1.96"> |
| 30 <install version="1.0"> | 32 <install version="1.0"> |