Mercurial > repos > rnateam > blockclust
comparison tool_dependencies.xml @ 14:0fbc8cdc1cd0 draft
Uploaded
| author | rnateam |
|---|---|
| date | Wed, 22 Jan 2014 11:20:03 -0500 |
| parents | 69a7a16f26e4 |
| children | 6ee2478c4fdc |
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| 13:bcb191e42032 | 14:0fbc8cdc1cd0 |
|---|---|
| 2 <tool_dependency> | 2 <tool_dependency> |
| 3 <package name="samtools" version="0.1.19"> | 3 <package name="samtools" version="0.1.19"> |
| 4 <repository changeset_revision="54195f1d4b0f" name="package_samtools_0_1_19" owner="iuc" toolshed="http://testtoolshed.g2.bx.psu.edu" /> | 4 <repository changeset_revision="54195f1d4b0f" name="package_samtools_0_1_19" owner="iuc" toolshed="http://testtoolshed.g2.bx.psu.edu" /> |
| 5 </package> | 5 </package> |
| 6 <package name="R_3_0_1" version="3.0.1"> | 6 <package name="R_3_0_1" version="3.0.1"> |
| 7 <repository changeset_revision="e16e08f41ed7" name="package_r_3_0_1" owner="iuc" toolshed="http://testtoolshed.g2.bx.psu.edu" /> | 7 <repository changeset_revision="1d5b86c2e93d" name="package_r_3_0_1" owner="iuc" toolshed="http://testtoolshed.g2.bx.psu.edu" /> |
| 8 </package> | |
| 9 <package name="eden" version="1.1"> | |
| 10 <repository changeset_revision="25d3b2b5b677" name="package_eden_1_1" owner="bgruening" toolshed="http://testtoolshed.g2.bx.psu.edu" /> | |
| 11 </package> | |
| 12 <package name="mcl" version="12.135 "> | |
| 13 <repository changeset_revision="7003196be1b1" name="package_mcl_12_135" owner="iuc" toolshed="http://testtoolshed.g2.bx.psu.edu" /> | |
| 8 </package> | 14 </package> |
| 9 <package name="blockclust_rlibs" version="1.0"> | 15 <package name="blockclust_rlibs" version="1.0"> |
| 10 <install version="1.0"> | 16 <install version="1.0"> |
| 11 <actions> | 17 <actions> |
| 12 <action type="setup_r_environment"> | 18 <action type="setup_r_environment"> |
| 70 <action type="shell_command">tar xfvz mm10.tar.gz -C $INSTALL_DIR/data/annotations/</action> | 76 <action type="shell_command">tar xfvz mm10.tar.gz -C $INSTALL_DIR/data/annotations/</action> |
| 71 <action type="download_file">https://github.com/bgruening/download_store/raw/master/blockclust/blockclust-data-1.0/annotations/panTro4.tar.gz</action> | 77 <action type="download_file">https://github.com/bgruening/download_store/raw/master/blockclust/blockclust-data-1.0/annotations/panTro4.tar.gz</action> |
| 72 <action type="shell_command">tar xfvz panTro4.tar.gz -C $INSTALL_DIR/data/annotations/</action> | 78 <action type="shell_command">tar xfvz panTro4.tar.gz -C $INSTALL_DIR/data/annotations/</action> |
| 73 <action type="download_file">https://github.com/bgruening/download_store/raw/master/blockclust/blockclust-data-1.0/annotations/rheMac3.tar.gz</action> | 79 <action type="download_file">https://github.com/bgruening/download_store/raw/master/blockclust/blockclust-data-1.0/annotations/rheMac3.tar.gz</action> |
| 74 <action type="shell_command">tar xfvz rheMac3.tar.gz -C $INSTALL_DIR/data/annotations/</action> | 80 <action type="shell_command">tar xfvz rheMac3.tar.gz -C $INSTALL_DIR/data/annotations/</action> |
| 81 <action type="download_file">https://github.com/bgruening/download_store/raw/master/blockclust/blockclust-data-1.0/annotations/xenTro3.tar.gz</action> | |
| 82 <action type="shell_command">tar xfvz xenTro3.tar.gz -C $INSTALL_DIR/data/annotations/</action> | |
| 83 <action type="download_file">https://github.com/bgruening/download_store/raw/master/blockclust/blockclust-data-1.0/annotations/celWS235.tar.gz</action> | |
| 84 <action type="shell_command">tar xfvz celWS235.tar.gz -C $INSTALL_DIR/data/annotations/</action> | |
| 85 <action type="download_file">https://github.com/bgruening/download_store/raw/master/blockclust/blockclust-data-1.0/annotations/tair10.tar.gz</action> | |
| 86 <action type="shell_command">tar xfvz tair10.tar.gz -C $INSTALL_DIR/data/annotations/</action> | |
| 75 <action type="download_file">https://github.com/bgruening/download_store/raw/master/blockclust/blockclust-data-1.0/models.tar.gz</action> | 87 <action type="download_file">https://github.com/bgruening/download_store/raw/master/blockclust/blockclust-data-1.0/models.tar.gz</action> |
| 76 <action type="shell_command">tar xfvz models.tar.gz -C $INSTALL_DIR/data/</action> | 88 <action type="shell_command">tar xfvz models.tar.gz -C $INSTALL_DIR/data/</action> |
| 77 <action type="set_environment"> | 89 <action type="set_environment"> |
| 78 <environment_variable action="prepend_to" name="PATH">$INSTALL_DIR/bin</environment_variable> | 90 <environment_variable action="prepend_to" name="PATH">$INSTALL_DIR/bin</environment_variable> |
| 79 <environment_variable action="set_to" name="BLOCKCLUST_DATA_PATH">$INSTALL_DIR/data</environment_variable> | 91 <environment_variable action="set_to" name="BLOCKCLUST_DATA_PATH">$INSTALL_DIR/data</environment_variable> |