Mercurial > repos > iuc > package_stacks_1_40
comparison tool_dependencies.xml @ 3:51d4ab2c4dcf draft default tip
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_stacks_1_40 commit e1c1550e0bd61c88ffead2b1c4f6ab7393052393
| author | iuc |
|---|---|
| date | Sat, 25 Jun 2016 17:24:08 -0400 |
| parents | 95cffefc0dfe |
| children |
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| 2:95cffefc0dfe | 3:51d4ab2c4dcf |
|---|---|
| 1 <?xml version="1.0"?> | 1 <?xml version="1.0"?> |
| 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="96aab723499f" name="package_samtools_0_1_19" owner="iuc" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" /> | 4 <repository changeset_revision="c9bd782f5342" name="package_samtools_0_1_19" owner="iuc" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" /> |
| 5 </package> | 5 </package> |
| 6 <package name="stacks" version="1.40"> | 6 <package name="stacks" version="1.40"> |
| 7 <install version="1.0"> | 7 <install version="1.0"> |
| 8 <actions> | 8 <actions> |
| 9 <action sha256sum="bf2304ba4ec44991db327ea77eb0f8c58de6d665162abf72470f5cd9dfb71493" type="download_by_url">https://depot.galaxyproject.org/software/stacks/stacks_1.40_src_all.tar.gz</action> | 9 <action sha256sum="bf2304ba4ec44991db327ea77eb0f8c58de6d665162abf72470f5cd9dfb71493" type="download_by_url">https://depot.galaxyproject.org/software/stacks/stacks_1.40_src_all.tar.gz</action> |
| 10 | 10 |
| 11 <action type="set_environment_for_install"> | 11 <action type="set_environment_for_install"> |
| 12 <repository changeset_revision="96aab723499f" name="package_samtools_0_1_19" owner="iuc" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu"> | 12 <repository changeset_revision="c9bd782f5342" name="package_samtools_0_1_19" owner="iuc" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu"> |
| 13 <package name="samtools" version="0.1.19" /> | 13 <package name="samtools" version="0.1.19" /> |
| 14 </repository> | 14 </repository> |
| 15 </action> | 15 </action> |
| 16 | 16 |
| 17 <action type="shell_command">./configure --prefix=$INSTALL_DIR --enable-bam --with-bam-include-path=${BAM_ROOT}/include/bam --with-bam-lib-path=${BAM_LIB_PATH}</action> | 17 <action type="shell_command">./configure --prefix=$INSTALL_DIR --enable-bam --with-bam-include-path=${BAM_INCLUDE} --with-bam-lib-path=${BAM_LIB_PATH}</action> |
| 18 <action type="shell_command">make</action> | 18 <action type="shell_command">make</action> |
| 19 <action type="shell_command">make install</action> | 19 <action type="shell_command">make install</action> |
| 20 <!-- create env.sh --> | 20 <!-- create env.sh --> |
| 21 <action type="set_environment"> | 21 <action type="set_environment"> |
| 22 <environment_variable action="prepend_to" name="PATH">$INSTALL_DIR/bin/</environment_variable> | 22 <environment_variable action="prepend_to" name="PATH">$INSTALL_DIR/bin/</environment_variable> |