| Previous changeset 1:561c9a746a81 (2014-08-05) Next changeset 3:f15581b3424e (2014-08-05) |
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Commit message:
Fixed tool dependency errors |
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modified:
bigwig_to_wig.xml tool_dependencies.xml |
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| diff -r 561c9a746a81 -r bce77c02cc5f bigwig_to_wig.xml --- a/bigwig_to_wig.xml Tue Aug 05 07:51:14 2014 -0400 +++ b/bigwig_to_wig.xml Tue Aug 05 09:03:05 2014 -0400 |
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| @@ -1,9 +1,9 @@ <tool id="bigwig_to_wig" name="BigWig to Wig" version="1.0.2"> <description>converter</description> - <command>bigwig_to_wig.sh -f $input -b $bin_size -l $mylab > $output </command> + <command interpreter="bash">bigwig_to_wig.sh -f $input -b $bin_size -l $mylab > $output </command> <requirements> - <requirement type="package">bigWigSummary</requirement> - <requirement type="package">bigWigInfo</requirement> + <requirement type="package" version="1.0">bigWigSummary</requirement> + <requirement type="package" version="1.0">bigWigInfo</requirement> </requirements> <inputs> <param format="bigwig" name="input" type="data" label="BigWig file to convert" /> |
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| diff -r 561c9a746a81 -r bce77c02cc5f tool_dependencies.xml --- a/tool_dependencies.xml Tue Aug 05 07:51:14 2014 -0400 +++ b/tool_dependencies.xml Tue Aug 05 09:03:05 2014 -0400 |
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| @@ -1,41 +1,35 @@ <?xml version="1.0"?> <tool_dependency> - <package name="bigWigSummary"> + <package name="bigWigSummary" version="1.0"> <install version="1.0"> - <actions_group> - <actions os="linux" architecture="x86_64"> - <action type="download_binary"><url_template>http://hgdownload.soe.ucsc.edu/admin/exe/linux.x86_64/bigWigSummary</url_template></action> - <action type="move_directory_files"> - <source_directory>.</source_directory> - <destination_directory>$INSTALL_DIR</destination_directory> - </action> - </actions> - - + <actions> + <action type="download_by_url">http://hgdownload.soe.ucsc.edu/admin/exe/linux.x86_64/bigWigSummary</action> + <action type="move_directory_files"> + <source_directory>.</source_directory> + <destination_directory>$INSTALL_DIR</destination_directory> + </action> + <action type="chmod"><file mode="755">$INSTALL_DIR/bigWigSummary</file></action> <action type="set_environment"> <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR</environment_variable> </action> - </actions_group> + </actions> </install> <readme> </readme> </package> - <package name="bigWigInfo"> + <package name="bigWigInfo" version="1.0"> <install version="1.0"> - <actions_group> - <actions os="linux" architecture="x86_64"> - <action type="download_binary"><url_template>http://hgdownload.soe.ucsc.edu/admin/exe/linux.x86_64/bigWigInfo</url_template></action> - <action type="move_directory_files"> - <source_directory>.</source_directory> - <destination_directory>$INSTALL_DIR</destination_directory> - </action> - </actions> - - + <actions> + <action type="download_by_url">http://hgdownload.soe.ucsc.edu/admin/exe/linux.x86_64/bigWigInfo</action> + <action type="move_directory_files"> + <source_directory>.</source_directory> + <destination_directory>$INSTALL_DIR</destination_directory> + </action> + <action type="chmod"><file mode="755">$INSTALL_DIR/bigWigInfo</file></action> <action type="set_environment"> <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR</environment_variable> </action> - </actions_group> + </actions> </install> <readme> </readme> |