Mercurial > repos > hackdna > refinery_test
diff refinery_test_2-1.xml @ 3:f725e3820fb4 draft
Add 2-1 and 2-2 tools. Code cleanup.
author | hackdna |
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date | Fri, 10 May 2013 17:07:41 -0400 |
parents | |
children | ee221004e3b4 |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/refinery_test_2-1.xml Fri May 10 17:07:41 2013 -0400 @@ -0,0 +1,49 @@ +<tool id="refinery_test_2-1" name="Refinery test tool 2-1" version="0.1"> + <description>for testing Galaxy workflow execution from Refinery</description> + + <command interpreter="python"> + refinery_test_tool.py -i $input_file1 $input_file2 -o $output_file -e $exit_code -p $p_fail -s $sleep_time $stdout $stderr + </command> + + <inputs> + <param name="input_file1" format="txt" type="data" label="Input file A"/> + <param name="input_file2" format="txt" type="data" label="Input file B"/> + <param name="sleep_time" type="integer" label="Sleep (seconds)" value="0" min="0"/> + <param name="p_fail" type="float" label="Probability of failure [0.0, 1.0]" value="0.0" min="0.0" max="1.0"/> + <param name="stdout" type="boolean" label="Write to standard out" truevalue="--stdout" falsevalue=""/> + <param name="stderr" type="boolean" label="Write to standard error" truevalue="--stderr" falsevalue=""/> + <param name="exit_code" type="integer" label="Exit code [0, 255]" value="0" min="0" max="255"/> + </inputs> + + <outputs> + <data format="txt" name="output_file" label="Output file"/> + </outputs> + + <stdio> + <exit_code range="1:" level="fatal" /> + <regex match=".+" source="stdout" level="fatal" description="Tool produced output to standard out" /> + <regex match=".+" source="stderr" level="fatal" description="Tool produced output to standard error" /> + </stdio> + + <help> + +.. class:: infomark + +**Purpose** + +To test Galaxy workflow execution and monitoring from Refinery. + +----- + +.. class:: infomark + +**Inputs and outputs** + +This wrapper will accept two text files as input and produce a single output file +with concatenated content from input files. + +*Note:* You must set the "Probability of failure" parameter to a non-zero value +for "Write to standard out", "Write to standard error" or "Exit code" to take effect. + + </help> +</tool>