Mercurial > repos > galaxyp > proteinpilot
annotate proteinpilot_tabular.xml @ 8:0aa9d080713e
Update for ProteinPilot version 5.0
| author | Jim Johnson <jj@umn.edu> |
|---|---|
| date | Thu, 05 Nov 2015 13:15:48 -0600 |
| parents | ffbfff887a03 |
| children |
| rev | line source |
|---|---|
| 8 | 1 <tool id="proteinpilot_tabular" name="ProteinPilot - Convert Group to Tabular" version="5.0.0"> |
| 0 | 2 <description></description> |
| 5 | 3 <!-- TOOD: Implement wrapper allowing Windows newlines to be replaced. --> |
| 0 | 4 <command> |
| 5 #if $quant.use | |
|
7
ffbfff887a03
Change params named "type" to something that won't confuse galaxy.
Jim Johnson <jj@umn.edu>
parents:
5
diff
changeset
|
6 #set $denom = $quant.dtype |
| 0 | 7 #else |
| 8 #set $denom = "" | |
| 9 #end if | |
| 8 | 10 GroupFileExtractor.exe ${ptype} $input $output $denom |
| 0 | 11 </command> |
| 12 <inputs> | |
| 13 <param format="group" name="input" type="data" label="ProteinPilot Group Data" help=""/> | |
|
7
ffbfff887a03
Change params named "type" to something that won't confuse galaxy.
Jim Johnson <jj@umn.edu>
parents:
5
diff
changeset
|
14 <param name="ptype" type="select" label="Summary Type"> |
| 0 | 15 <option value="PROTEIN">Protein</option> |
| 16 <option value="PEPTIDE">Peptide</option> | |
| 17 </param> | |
| 18 <conditional name="quant"> | |
| 19 <param name="use" type="boolean" label="Include quantation results" truevalue="true" falsevalue="false" /> | |
| 20 <when value="true"> | |
|
7
ffbfff887a03
Change params named "type" to something that won't confuse galaxy.
Jim Johnson <jj@umn.edu>
parents:
5
diff
changeset
|
21 <param name="dtype" type="select" label="Denominator"> |
| 0 | 22 <option value="IT113">113</option> |
| 23 <option value="IT114" selected="true">114</option> | |
| 24 <option value="IT115">115</option> | |
| 25 <option value="IT116">116</option> | |
| 26 <option value="IT117">117</option> | |
| 27 <option value="IT118">118</option> | |
| 28 <option value="IT119">119</option> | |
| 29 <option value="IT121">121</option> | |
| 30 <option value="Light">Light</option> | |
| 31 <option value="Heavy">Heavy</option> | |
| 32 <option value="Medium">Medium</option> | |
| 33 </param> | |
| 34 </when> | |
|
7
ffbfff887a03
Change params named "type" to something that won't confuse galaxy.
Jim Johnson <jj@umn.edu>
parents:
5
diff
changeset
|
35 <when value="false"/> |
| 0 | 36 </conditional> |
| 37 </inputs> | |
| 38 <outputs> | |
|
7
ffbfff887a03
Change params named "type" to something that won't confuse galaxy.
Jim Johnson <jj@umn.edu>
parents:
5
diff
changeset
|
39 <data format="tabular" name="output" label="${ptype} report for ${on_string}"/> |
| 0 | 40 </outputs> |
| 41 <help> | |
| 42 </help> | |
| 43 </tool> |