Mercurial > repos > md-anderson-bioinformatics > matrix_manipulation
comparison Test_input_into_file.xml @ 1:f1bcd79cd923 draft default tip
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| author | insilico-bob |
|---|---|
| date | Tue, 27 Nov 2018 14:20:40 -0500 |
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| 0:7f12c81e2083 | 1:f1bcd79cd923 |
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| 1 <?xml version='1.1' encoding='utf-8'?> | |
| 2 <tool id="Test-input-into-file" name="Test-File" version="1.0.0" force_history_refresh="True"> | |
| 3 <description> Read xml params into a file</description> | |
| 4 | |
| 5 <command interpreter="python">Test-input-into-file.py $inputfile "$__tool_dir__" $outputfile | |
| 6 #for $op in $test_param1 | |
| 7 ${op.discrete_fields1.Text_Fields1} | |
| 8 #end for | |
| 9 "$EndofVarParam1" | |
| 10 "$Covariate_Type" | |
| 11 "$EndofVarParam2" | |
| 12 #for $op in $test_param3 | |
| 13 ${op.discrete_fields3.Text_Fields3} | |
| 14 #end for | |
| 15 "$EndofVarParam3" | |
| 16 </command> | |
| 17 <!-- #in=$__tool_dir__/$inputfile | |
| 18 #inputfile="$__tool_dir__"$inputfile | |
| 19 | |
| 20 type Describes the parameter type - each different type as different semantics | |
| 21 and the tool form widget is different. Currently valid parameter types are: | |
| 22 text, integer, float, boolean, genomebuild, select, color, data_column, hidden, hidden_data, baseurl, file, ftpfile, data, data_collection, library_data, drill_down. The definition of supported parameter | |
| 23 types as defined in the parameter_types dictionary in /lib/galaxy/tools/parameters/basic.py. | |
| 24 --> | |
| 25 <stdio> | |
| 26 <exit_code range="1:" level="fatal" /> | |
| 27 </stdio> | |
| 28 <inputs> | |
| 29 <data format="txt" name="inputfile"/> | |
| 30 <repeat name="test_param1" title="Select 1 or more Covariate Clinical Categories"> | |
| 31 <conditional name="discrete_fields1"> | |
| 32 <param name="Text_Fields1" type="select" label="Covariate Bar Choices" help=""> | |
| 33 <option value='cat_EMPTY' selected="true">Click cursor in middle of this text to see choices</option> | |
| 34 <option value='cat_SampleTypeCode'>Sample Cohort</option> | |
| 35 <option value='cat_gender'>Gender</option> | |
| 36 <option value='cat_race'>Race</option> | |
| 37 </param> | |
| 38 </conditional> | |
| 39 </repeat> | |
| 40 <param name="EndofVarParam1" type="hidden" value="paramend1" </param> | |
| 41 <param name="Covariate_Type" type="select" value="" label="Type of Covariate Bars" help="Choose Sample or Gene covariate bar files"> | |
| 42 <option value="S" selected="true">Participant-Sample</option> | |
| 43 <option value="G" >Gene</option> | |
| 44 </param> | |
| 45 <param name="EndofVarParam2" type="hidden" value="paramend2" </param> | |
| 46 <repeat name="test_param3" title="Select 1 or more Covariate Clinical Categories"> | |
| 47 <conditional name="discrete_fields3"> | |
| 48 <param name="Text_Fields3" type="select" label="Covariate Bar Choices" help=""> | |
| 49 <option value='cat_EMPTY' selected="true">Click cursor in middle of this text to see choices</option> | |
| 50 <option value='cat_SampleTypeCode'>Sample Cohort</option> | |
| 51 <option value='cat_gender'>Gender</option> | |
| 52 <option value='cat_race'>Race</option> | |
| 53 </param> | |
| 54 </conditional> | |
| 55 </repeat> | |
| 56 <param name="EndofVarParam3" type="hidden" value="paramend1" </param> | |
| 57 </inputs> | |
| 58 <outputs> | |
| 59 <data format="txt" name="outputfile" label="${tool.name} on ${on_string}"/> | |
| 60 </outputs> | |
| 61 </tool> |