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John Chilton
b56bd85b6a
Repeatedly one wants to do things like create symbolic links and then call a helper script - the 'interpreter' tag doesn't allow shell commands before calling a helper script so they could not be used in this fashion. The previous pattern for doing this was then to use the ToolShed only 'set_environment' requirement tag. These were onerous to setup and the resulting tools were no longer portable to non-ToolShed installed contexts - I believe this variant is more robust and elegant. More information https://trello.com/c/0pgF5PBQ and here https://trello.com/c/XK5SqE1i.
This directory contains tools only useful for testing and demonstrating aspects of the tool syntax. Run the test driver script 'run_tests.sh' with the '-framework' as first argument to run through these tests. Pass in an '-id' along with one of these tool ids to test a single tool. Some API tests use these tools to test various features of the API, tool, and workflow subsystems. Pass the arugment '-with_framework_test_tools' to 'run_tests.sh' in addition to '-api' to ensure these tools get loaded during the testing process. Finally, to play around witht these tools interactively - simply replace the 'galaxy.ini' option 'tool_config_file' with: tool_config_file = test/functional/tools/samples_tool_conf.xml