Mercurial > repos > devteam > package_tophat2_2_0_9
comparison tool_dependencies.xml @ 1:976fbb88df15 draft default tip
planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/packages/package_tophat2_2_0_9 commit de7140295cce07e1bc1697e51dab4271c8d7a8a6
| author | devteam |
|---|---|
| date | Fri, 18 Dec 2015 18:47:37 -0500 |
| parents | bac5f59d20d8 |
| children |
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| 0:bac5f59d20d8 | 1:976fbb88df15 |
|---|---|
| 17 <destination_directory>$INSTALL_DIR/bin</destination_directory> | 17 <destination_directory>$INSTALL_DIR/bin</destination_directory> |
| 18 </action> | 18 </action> |
| 19 </actions> | 19 </actions> |
| 20 <actions> | 20 <actions> |
| 21 <package name="samtools" version="0.1.18"> | 21 <package name="samtools" version="0.1.18"> |
| 22 <repository changeset_revision="c0f72bdba484" name="package_samtools_0_1_18" owner="devteam" prior_installation_required="True" toolshed="http://testtoolshed.g2.bx.psu.edu" /> | 22 <repository changeset_revision="c0f72bdba484" name="package_samtools_0_1_18" owner="devteam" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" /> |
| 23 </package> | 23 </package> |
| 24 <action type="download_by_url">http://tophat.cbcb.umd.edu/downloads/tophat-2.0.9.tar.gz</action> | 24 <action type="download_by_url">http://ccb.jhu.edu/software/tophat/downloads/tophat-2.0.9.tar.gz</action> |
| 25 <action type="set_environment_for_install"> | 25 <action type="set_environment_for_install"> |
| 26 <repository changeset_revision="c0f72bdba484" name="package_samtools_0_1_18" owner="devteam" prior_installation_required="True" toolshed="http://testtoolshed.g2.bx.psu.edu" /> | 26 <repository changeset_revision="c0f72bdba484" name="package_samtools_0_1_18" owner="devteam" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" /> |
| 27 </action> | 27 </action> |
| 28 <action type="shell_command">./configure --prefix=$INSTALL_DIR --with-bam=$BAM_ROOT</action> | 28 <action type="shell_command">./configure --prefix=$INSTALL_DIR --with-bam=$BAM_ROOT</action> |
| 29 <action type="shell_command">make && make install</action> | 29 <action type="shell_command">make && make install</action> |
| 30 </actions> | 30 </actions> |
| 31 <action type="set_environment"> | 31 <action type="set_environment"> |