Mercurial > repos > iuc > package_stacks_1_40

comparison tool_dependencies.xml @ 3:51d4ab2c4dcf draft default tip

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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>