Mercurial > repos > hackdna > refinery_test
comparison refinery_test_2-6.xml @ 4:ccf0e1ca6fe9 draft
Add 2-6 test tool.
author | hackdna |
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date | Mon, 13 May 2013 14:49:03 -0400 |
parents | |
children | ee221004e3b4 |
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3:f725e3820fb4 | 4:ccf0e1ca6fe9 |
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1 <tool id="refinery_test_2-6" name="Refinery test tool 2-6" version="0.1"> | |
2 <description>for testing Galaxy workflow execution from Refinery</description> | |
3 | |
4 <command interpreter="python"> | |
5 refinery_test_tool.py -i $input_file1 $input_file2 -o $output_file1 $output_file2 $output_file3 $output_file4 $output_file5 $output_file6 -e $exit_code -p $p_fail -s $sleep_time $stdout $stderr | |
6 </command> | |
7 | |
8 <inputs> | |
9 <param name="input_file1" format="txt" type="data" label="Input file A"/> | |
10 <param name="input_file2" format="txt" type="data" label="Input file B"/> | |
11 <param name="sleep_time" type="integer" label="Sleep (seconds)" value="0" min="0"/> | |
12 <param name="p_fail" type="float" label="Probability of failure [0.0, 1.0]" value="0.0" min="0.0" max="1.0"/> | |
13 <param name="stdout" type="boolean" label="Write to standard out" truevalue="--stdout" falsevalue=""/> | |
14 <param name="stderr" type="boolean" label="Write to standard error" truevalue="--stderr" falsevalue=""/> | |
15 <param name="exit_code" type="integer" label="Exit code [0, 255]" value="0" min="0" max="255"/> | |
16 </inputs> | |
17 | |
18 <outputs> | |
19 <data format="txt" name="output_file1" label="Output file A"/> | |
20 <data format="txt" name="output_file2" label="Output file B"/> | |
21 <data format="txt" name="output_file3" label="Output file C"/> | |
22 <data format="txt" name="output_file4" label="Output file D"/> | |
23 <data format="txt" name="output_file5" label="Output file E"/> | |
24 <data format="txt" name="output_file6" label="Output file F"/> | |
25 </outputs> | |
26 | |
27 <stdio> | |
28 <exit_code range="1:" level="fatal" /> | |
29 <regex match=".+" source="stdout" level="fatal" description="Tool produced output to standard out" /> | |
30 <regex match=".+" source="stderr" level="fatal" description="Tool produced output to standard error" /> | |
31 </stdio> | |
32 | |
33 <help> | |
34 | |
35 .. class:: infomark | |
36 | |
37 **Purpose** | |
38 | |
39 To test Galaxy workflow execution and monitoring from Refinery. | |
40 | |
41 ----- | |
42 | |
43 .. class:: infomark | |
44 | |
45 **Inputs and outputs** | |
46 | |
47 This wrapper will accept two text files as input and produce six output files | |
48 with concatenated content from input files. | |
49 | |
50 *Note:* You must set the "Probability of failure" parameter to a non-zero value | |
51 for "Write to standard out", "Write to standard error" or "Exit code" to take effect. | |
52 | |
53 </help> | |
54 </tool> |