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https://github.com/galaxyproject/galaxy.git
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John Chilton
85ef86ab2e
- Implement a wrapper script for launching a docker-galaxy-stable setup a many ways for this task including:
- Configure container's Galaxy with outer Galaxy's lib and test directory.
- Collect log files.
- Log a statement for interacting with the container easily while the test is running.
- Disable unneeded services.
- Implement a fan-in-fan-out style workflow for performance testing.
- Add an option to test performance of scheduling workflows without actually running jobs.
- Sample tool for creating large collections easily at beginning of tests (much faster than uploads).
- Sample tool for splitting a file into a collection for fan in and out workflow test.
- Assume Python 2.7 in scripts to simplify things.
- Add documentation.
34 lines
952 B
XML
34 lines
952 B
XML
<tool id="split" name="split" version="0.1.0">
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<command detect_errors="exit_code">
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bash $script
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</command>
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<configfiles>
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<configfile name="script">
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mkdir outputs;
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cd outputs;
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i=1;
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while read -r line || [[ -n "\$line" ]]; do
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printf "\$line\n" > \$i ;
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i=\$[\$i +1];
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done < "$input1";
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</configfile>
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</configfiles>
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<inputs>
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<param name="input1" type="data" format="txt" label="Input Text" />
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</inputs>
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<outputs>
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<collection name="output" type="list" label="lines">
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<discover_datasets pattern="__name__" directory="outputs" />
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</collection>
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</outputs>
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<tests>
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<test>
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<param name="input1" value="simple_lines_both.txt" />
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<output_collection name="output" type="list">
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<element name="1" file="simple_line.txt" />
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<element name="2" file="simple_line_alternative.txt" />
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</output_collection>
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</test>
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</tests>
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</tool>
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