Mercurial > repos > rmarenco > hubarchivecreator
view tool_dependencies.xml @ 1:fb5e60d4d18a draft
planemo upload for repository https://github.com/goeckslab/hub-archive-creator commit 64cfc08088d11f6818c1b4e5514ef9e67969eaff-dirty
author | rmarenco |
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date | Wed, 13 Jul 2016 13:36:37 -0400 |
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children | df9e12da0d13 |
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<?xml version="1.0"?> <tool_dependency> <!-- UCSC Tools in --> <!-- Useful for HAC are: - twoBitInfo - sort - bedToBigBed - gff3ToGenePred - gtfToGenePred - genePredToBed - faToTwoBit - samtools --> <package name="ucsc_tools" version="312"> <repository changeset_revision="2d6bafd63401" name="package_ucsc_tools_312" owner="iuc" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" /> </package> <package name="samtools" version="1.2"> <repository changeset_revision="f6ae3ba3f3c1" name="package_samtools_1_2" owner="iuc" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" /> </package> <!-- TODO: Tools to install --> <!-- twoBitInfo / bedToBigBed / faToTwoBit --> <!-- Package gff3ToGenePred --> <package name="gff3ToGenePred" version="0.0.1"> <install version="1.0"> <actions> <action target_directory="bin" type="download_binary"> <url_template os="darwin"> http://hgdownload.cse.ucsc.edu/admin/exe/macOSX.${architecture}/gff3ToGenePred </url_template> <url_template os="linux"> http://hgdownload.cse.ucsc.edu/admin/exe/linux.${architecture}/gff3ToGenePred </url_template> </action> <action type="chmod"> <file mode="750">$INSTALL_DIR/bin/gff3ToGenePred</file> </action> <action type="set_environment"> <environment_variable action="prepend_to" name="PATH">$INSTALL_DIR/bin</environment_variable> </action> </actions> </install> <readme>The tools downloaded by this dependency definition are free for academic use.</readme> </package> <!-- Package gtfToGenePred --> <package name="gtfToGenePred" version="0.0.1"> <install version="1.0"> <actions> <action target_directory="bin" type="download_binary"> <url_template os="darwin"> http://hgdownload.cse.ucsc.edu/admin/exe/macOSX.${architecture}/gtfToGenePred </url_template> <url_template os="linux"> http://hgdownload.cse.ucsc.edu/admin/exe/linux.${architecture}/gtfToGenePred </url_template> </action> <action type="chmod"> <file mode="750">$INSTALL_DIR/bin/gtfToGenePred</file> </action> <action type="set_environment"> <environment_variable action="prepend_to" name="PATH">$INSTALL_DIR/bin</environment_variable> </action> </actions> </install> <readme>The tools downloaded by this dependency definition are free for academic use.</readme> </package> <!-- Package genePredToBed --> <package name="genePredToBed" version="0.0.1"> <install version="1.0"> <actions> <action target_directory="bin" type="download_binary"> <url_template os="darwin"> http://hgdownload.cse.ucsc.edu/admin/exe/macOSX.${architecture}/genePredToBed </url_template> <url_template os="linux"> http://hgdownload.cse.ucsc.edu/admin/exe/linux.${architecture}/genePredToBed </url_template> </action> <action type="chmod"> <file mode="750">$INSTALL_DIR/bin/genePredToBed</file> </action> <action type="set_environment"> <environment_variable action="prepend_to" name="PATH">$INSTALL_DIR/bin</environment_variable> </action> </actions> </install> <readme>The tools downloaded by this dependency definition are free for academic use.</readme> </package> </tool_dependency>