| Previous changeset 3:715e125409e2 (2016-12-30) Next changeset 5:1abdad49a3ec (2017-01-06) |
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Commit message:
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modified:
tool_dependencies.xml |
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| diff -r 715e125409e2 -r d3d47c77ec79 tool_dependencies.xml --- a/tool_dependencies.xml Fri Dec 30 12:44:38 2016 -0500 +++ b/tool_dependencies.xml Fri Jan 06 15:53:10 2017 -0500 |
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| @@ -1,24 +1,15 @@ -<?xml version="1.0"?> -<tool_dependency> - <package name="ngchm" version="1.2"> - <install version="1.0"> - <actions> - <action type="shell_command">cd $GALAXY_ROOT_DIR</action> - <action type="shell_command">hg clone https://insilico-bob@toolshed.g2.bx.psu.edu/repos/insilico-bob/ngchm</action> - <action type="shell_command">mkdir -p -m 777 $GALAXY_ROOT_DIR/test-data/MDAheatmap</action> - <action type="move_directory_files"> - <source_directory>./TestFiles</source_directory> - <destination_directory>$GALAXY_ROOT_DIR/test-data/MDAheatmap</destination_directory> - </action> - <action type="shell_command">mkdir -p -m 777 $GALAXY_ROOT_DIR/config/plugins/visualizations/MDAheatmap/</action> - <action type="move_directory_files"> - <source_directory>./MDAheatmap/</source_directory> - <destination_directory>$GALAXY_ROOT_DIR/config/plugins/visualizations/MDAheatmap/</destination_directory> - </action> - <action type="shell_command">cd $GALAXY_ROOT_DIR/config/plugins/visualizations/MDAheatmap/templates</action> - <action type="shell_command">make</action> - </actions> - </install> - <readme>Completed adding MDAnderson ngchm tool to Galaxy</readme> - </package> +<tool_dependency > +<!-- https://wiki.galaxyproject.org/ToolDependenciesTagSets --> + <actions> + <action type="shell_command">echo 'starting tool dependency script'</action> + <action type="change_directory">/shed_tools/toolshed.g2.bx.psu.edu/repos/insilico-bob/ngchm_dependencies/*/ngchm_dependencies/</action> + <action type="chmod"><file mode="755">./MDAHeatmap/*</file></action> +<!--##### Place MDA software in Tools and Visualization directories ##### --> + <action type="shell_command">echo 'Place MD Anderson test input and output files in ~/test-data directory'</action> + <action type="shell_command">mkdir $GALAXY_ROOT/config/plugins/visualizations/mda_heatmap_viz/</action> + <action type="move_directory_files"><source_directory>./MDAHeatmap/</source_directory><destination_directory>$GALAXY_ROOT/config/plugins/visualizations/mda_heatmap_viz/</destination_directory></action> +<!-- ##### Place MD Anderson test input and output files in ~/test-data directory ##### --> + <action type="shell_command">echo 'Place MD Anderson software in test data directories'</action> + <action type="move_directory_files"><source_directory>./TestFiles/</source_directory><destination_directory>$GALAXY_ROOT/test-data/</destination_directory></action> + </actions> </tool_dependency> |