Mercurial > repos > tomnl > mspurity_combineannotations

comparison combineAnnotations.xml @ 4:68c405751ef6 draft

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planemo upload for repository https://github.com/computational-metabolomics/mspurity-galaxy commit 14eafbdb65f491713d1314d77c454defd137c392
author tomnl
date Tue, 18 Jun 2019 11:14:17 -0400
parents b22aa0a9fc25
children d2e88337f7fb
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3:b22aa0a9fc25 4:68c405751ef6
24 --sirius_csi_weight=$sirius_csi_weight 24 --sirius_csi_weight=$sirius_csi_weight
25 --probmetab_weight=$probmetab_weight 25 --probmetab_weight=$probmetab_weight
26 #if $create_new_database: 26 #if $create_new_database:
27 --create_new_database 27 --create_new_database
28 #end if 28 #end if
29 #if $eic 29
30 --eic
31 #end if
32 30
33 ]]></command> 31 ]]></command>
34 <inputs> 32 <inputs>
35 <param name="sm_resultPth" type="data" label="Spectral matching result" format="sqlite" 33 <param name="sm_resultPth" type="data" label="Spectral matching result" format="sqlite"
36 help="The SQLite database generated from msPurity.spectralMatching"/> 34 help="The SQLite database generated from msPurity.spectralMatching"/>
46 <param name="probmetab_weight" type="float" min="0.0" max="1.0" value="0.1" label="Probmetab weight" help="all weights need to sum to 1" /> 44 <param name="probmetab_weight" type="float" min="0.0" max="1.0" value="0.1" label="Probmetab weight" help="all weights need to sum to 1" />
47 <param name="create_new_database" type="boolean" checked="true" label="Create a new database for the results?" 45 <param name="create_new_database" type="boolean" checked="true" label="Create a new database for the results?"
48 help="A copy will be made of the input SQLite spectral matching database and the results will be added to this copy. 46 help="A copy will be made of the input SQLite spectral matching database and the results will be added to this copy.
49 When False, the input SQLite database will be updated the results. Use False 47 When False, the input SQLite database will be updated the results. Use False
50 if you want to reduce storage space being used."/> 48 if you want to reduce storage space being used."/>
51 <param name="eic" type="boolean" label="Include EIC data?"
52 help="The Extracted Ion Chromatogram can be calculated for each peak and stored in
53 the database. Note, this will take considerable time for large datasets and
54 the resulting SQLite database can be large"/>
55 </inputs> 49 </inputs>
56 <outputs> 50 <outputs>
57 <data name="combined_annotations_sqlite" from_work_dir="combined_annotations.sqlite" format="sqlite" label="${tool.name} on ${on_string}: sqlite" /> 51 <data name="combined_annotations_sqlite" from_work_dir="combined_annotations.sqlite" format="sqlite" label="${tool.name} on ${on_string}: sqlite" />
58 <data name="combined_annotations_tsv" from_work_dir="combined_annotations.tsv" format="tsv" label="${tool.name} on ${on_string}: tsv" /> 52 <data name="combined_annotations_tsv" from_work_dir="combined_annotations.tsv" format="tsv" label="${tool.name} on ${on_string}: tsv" />
59 </outputs> 53 </outputs>