Mercurial > repos > lecorguille > xcms_group
comparison macros_xcms.xml @ 17:95e689b7f27f draft
planemo upload for repository https://github.com/workflow4metabolomics/xcms commit 878be1bfbe93af0a140df76fa47f0a82a48189e3
| author | lecorguille |
|---|---|
| date | Tue, 09 Oct 2018 04:39:40 -0400 |
| parents | 833d2c821d9c |
| children | c8f8d598f562 |
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| 16:6a4d8753a330 | 17:95e689b7f27f |
|---|---|
| 88 naTOzero $peaklist.naTOzero | 88 naTOzero $peaklist.naTOzero |
| 89 #end if | 89 #end if |
| 90 </token> | 90 </token> |
| 91 | 91 |
| 92 <xml name="input_peaklist"> | 92 <xml name="input_peaklist"> |
| 93 <conditional name="peaklist"> | |
| 94 <param name="peaklistBool" type="boolean" label="Get a Peak List" /> | |
| 95 <when value="true"> | |
| 96 <param name="convertRTMinute" type="boolean" checked="false" truevalue="TRUE" falsevalue="FALSE" label="Convert retention time (seconds) into minutes" help="Convert the columns rtmed, rtmin and rtmax into minutes"/> | 93 <param name="convertRTMinute" type="boolean" checked="false" truevalue="TRUE" falsevalue="FALSE" label="Convert retention time (seconds) into minutes" help="Convert the columns rtmed, rtmin and rtmax into minutes"/> |
| 97 <param name="numDigitsMZ" type="integer" value="4" label="Number of decimal places for mass values reported in ions' identifiers." help="A minimum of 4 decimal places is recommended. Useful to avoid duplicates within identifiers" /> | 94 <param name="numDigitsMZ" type="integer" value="4" label="Number of decimal places for mass values reported in ions' identifiers." help="A minimum of 4 decimal places is recommended. Useful to avoid duplicates within identifiers" /> |
| 98 <param name="numDigitsRT" type="integer" value="0" label="Number of decimal places for retention time values reported in ions' identifiers." help="Useful to avoid duplicates within identifiers" /> | 95 <param name="numDigitsRT" type="integer" value="0" label="Number of decimal places for retention time values reported in ions' identifiers." help="Useful to avoid duplicates within identifiers" /> |
| 99 <param name="intval" type="select" label="Reported intensity values" help="[intval] See the help section below"> | 96 <param name="intval" type="select" label="Reported intensity values" help="[intval] See the help section below"> |
| 100 <option value="into" selected="true">into</option> | 97 <option value="into" selected="true">into</option> |
| 101 <option value="maxo">maxo</option> | 98 <option value="maxo">maxo</option> |
| 102 <option value="intb">intb</option> | 99 <option value="intb">intb</option> |
| 103 </param> | 100 </param> |
| 104 <param name="naTOzero" type="boolean" checked="true" truevalue="TRUE" falsevalue="FALSE" label="Replace the remain NA by 0 in the dataMatrix" help="Rather mandatory for some downstream statistical steps"/> | 101 <param name="naTOzero" type="boolean" checked="true" truevalue="TRUE" falsevalue="FALSE" label="Replace the remain NA by 0 in the dataMatrix" help="Rather mandatory for some downstream statistical steps"/> |
| 102 </xml> | |
| 103 | |
| 104 <xml name="input_peaklist_section"> | |
| 105 <section name="peaklist" title="Peak List" expanded="True"> | |
| 106 <param name="peaklistBool" type="hidden" label="Get the Peak List" value="True" /> | |
| 107 <expand macro="input_peaklist"/> | |
| 108 </section> | |
| 109 </xml> | |
| 110 | |
| 111 <xml name="input_peaklist_conditional"> | |
| 112 <conditional name="peaklist"> | |
| 113 <param name="peaklistBool" type="boolean" label="Get the Peak List" /> | |
| 114 <when value="true"> | |
| 115 <expand macro="input_peaklist"/> | |
| 105 </when> | 116 </when> |
| 106 <when value="false" /> | 117 <when value="false" /> |
| 107 </conditional> | 118 </conditional> |
| 108 </xml> | 119 </xml> |
| 109 | 120 |