Mercurial > repos > mmonsoor > probmetab
changeset 7:cbf292c32002 draft
planemo upload commit b4c0722a0efb673566e3900bf215e28350d043f5
| author | lecorguille |
|---|---|
| date | Fri, 07 Apr 2017 04:03:36 -0400 |
| parents | 9876c52c51c6 |
| children | 66fe5a2237f3 |
| files | ProbMetab.xml static/images/probmetab_workflow.png |
| diffstat | 2 files changed, 4 insertions(+), 4 deletions(-) [+] |
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--- a/ProbMetab.xml Fri Apr 07 03:35:47 2017 -0400 +++ b/ProbMetab.xml Fri Apr 07 04:03:36 2017 -0400 @@ -124,7 +124,7 @@ </when> </conditional> - <section name="getannot" title="Extraction of CAMERA annotation [get.annot]"> + <section name="getannot" title="Extraction of CAMERA annotation [get.annot]" expanded="True"> <param name="allowMiss" type="boolean" checked="true" truevalue="TRUE" falsevalue="FALSE" label="Retrieves peaks with no eviendence of adduct or isotope" help=" [allowMiss] (ionAnnot function) Logical, annotate also the peaks as single charged molecules [M+/-H]." /> <conditional name="option_toexclude"> <param name="option" type="select" label="Exclude samples" > @@ -138,7 +138,7 @@ </conditional> </section> - <section name="db" title="Database matching [create.reactionM]"> + <section name="db" title="Database matching [create.reactionM]" expanded="True"> <param name="kegg_db" type="text" size="40" label="Search on KEGG database or multiple organisms " help="Search on all KEGG organisms or multiple organisms (id1,id2,id3,...).By default,the value is KEGG which means searching on all KEGG organism. The list of KEGG IDs are available at http://rest.kegg.jp/list/organism" value="KEGG" > <validator type="empty_field"/> </param> @@ -159,7 +159,7 @@ --> </section> - <section name="export" title="Probability calculations matrix export [export.class.table]"> + <section name="export" title="Probability calculations matrix export [export.class.table]" expanded="True"> <param name="prob" type="select" label=" Calculation of the probability to attribute a mass to a compound" help="[prob] Default is 'count'. See the tool help for more details." > <option value="count" selected="true">Count</option> <option value="mean">Mean</option> @@ -168,7 +168,7 @@ <param name="html" type="boolean" checked="true" truevalue="TRUE" falsevalue="FALSE" label="Logical, check if you want to generate a HTML ProbMetab report" help="[html] This parameter uses the raw data to plot EICs and may be time consuming." /> </section> - <section name="reac2cor" title="Calculate the correlations and partial correlations and cross reference then with reactions [reac2cor]"> + <section name="reac2cor" title="Calculate the correlations and partial correlations and cross reference then with reactions [reac2cor]" expanded="True"> <param name="opt" type="select" label="Correlation option" help="[opt] cor for correlation, and pcor for partial correlation." > <option value="cor" selected="true">cor</option> <option value="pcor">pcor</option>