Mercurial > repos > iuc > package_ucsc_tools_0_1
diff tool_dependencies.xml @ 1:33936a7edbc8 draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_ucsc_tools_0_1 commit 17a55c401801eebf3bf15d97ac13d1fd0e4bca37-dirty
| author | galaxyp |
|---|---|
| date | Thu, 04 Jun 2015 12:35:39 -0400 |
| parents | 7b7e399cb7e1 |
| children | 824948982abd |
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--- a/tool_dependencies.xml Mon Apr 06 17:58:22 2015 -0400 +++ b/tool_dependencies.xml Thu Jun 04 12:35:39 2015 -0400 @@ -5,40 +5,28 @@ --> <package name="ucsc_tools" version="0.1"> <install version="1.0"> - <actions> - <action type="download_binary"> - <url_template os="linux" architecture="x86_64">http://hgdownload.cse.ucsc.edu/admin/exe/linux.x86_64/bedGraphToBigWig</url_template> - <url_template os="darwin" architecture="i686">http://hgdownload.cse.ucsc.edu/admin/exe/macOSX.i386/bedGraphToBigWig</url_template> - <url_template os="darwin" architecture="i386">http://hgdownload.cse.ucsc.edu/admin/exe/macOSX.i386/bedGraphToBigWig</url_template> - <url_template os="darwin" architecture="x86_64">http://hgdownload.cse.ucsc.edu/admin/exe/macOSX.x86_64/bedGraphToBigWig</url_template> - </action> - <action type="chmod"> - <file mode="755">$INSTALL_DIR/bedGraphToBigWig</file> - </action> - <action type="download_binary"> - <url_template os="linux" architecture="x86_64">http://hgdownload.cse.ucsc.edu/admin/exe/linux.x86_64/bigWigInfo</url_template> - <url_template os="darwin" architecture="i686">http://hgdownload.cse.ucsc.edu/admin/exe/macOSX.i386/bigWigInfo</url_template> - <url_template os="darwin" architecture="i386">http://hgdownload.cse.ucsc.edu/admin/exe/macOSX.i386/bigWigInfo</url_template> - <url_template os="darwin" architecture="x86_64">http://hgdownload.cse.ucsc.edu/admin/exe/macOSX.x86_64/bigWigInfo</url_template> - </action> - <action type="chmod"> - <file mode="755">$INSTALL_DIR/bigWigInfo</file> - </action> - <action type="download_binary"> - <url_template os="linux" architecture="x86_64">http://hgdownload.cse.ucsc.edu/admin/exe/linux.x86_64/bigWigToBedGraph</url_template> - <url_template os="darwin" architecture="i686">http://hgdownload.cse.ucsc.edu/admin/exe/macOSX.i386/bigWigToBedGraph</url_template> - <url_template os="darwin" architecture="i386">http://hgdownload.cse.ucsc.edu/admin/exe/macOSX.i386/bigWigToBedGraph</url_template> - <url_template os="darwin" architecture="x86_64">http://hgdownload.cse.ucsc.edu/admin/exe/macOSX.x86_64/bigWigToBedGraph</url_template> - </action> - <action type="chmod"> - <file mode="755">$INSTALL_DIR/bigWigToBedGraph</file> - </action> + <actions_group> + <actions architecture="x86_64" os="linux"> + <action type="download_by_url">https://depot.galaxyproject.org/package/linux/x86_64/ucsc/ucsc-312-Linux-x86_64.tar.gz</action> + <action type="move_directory_files"> + <source_directory>.</source_directory> + <destination_directory>$INSTALL_DIR</destination_directory> + </action> + </actions> + <!--actions architecture="x86_64" os="darwin"> + <action type="download_by_url"></action> + <action type="move_directory_files"> + <source_directory>.</source_directory> + <destination_directory>$INSTALL_DIR/bin</destination_directory> + </action> + </actions--> <action type="set_environment"> - <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR</environment_variable> + <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR/bin</environment_variable> + <environment_variable name="LD_LIBRARY_PATH" action="prepend_to">$INSTALL_DIR/lib</environment_variable> <environment_variable name="UCSC_TOOLS_ROOT_PATH" action="set_to">$INSTALL_DIR</environment_variable> </action> - </actions> + </actions_group> </install> - <readme>The tools downloaded by this dependency definition are free for academic use. TODO: UCSC tools are only available with their latest version. That is not good for reproducibility.</readme> + <readme>The tools downloaded by this dependency definition are free for academic use.</readme> </package> </tool_dependency>