Mercurial > repos > recetox > ramclustr_csv

comparison ramclustr_csv.xml @ 2:08b09930cd73 draft

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"planemo upload for repository https://github.com/RECETOX/galaxytools/tree/master/tools/ramclustr commit beda1b99934fb8254de04bb38e41eb9ce836d71d"
author recetox
date Thu, 04 Feb 2021 11:34:59 +0000
parents d9c9ec0e2bd8
children 61035548f46c
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1:d9c9ec0e2bd8 2:08b09930cd73
55 <data label="Spec Abundance of ${on_string}" name="spec_abundance" format="csv" /> 55 <data label="Spec Abundance of ${on_string}" name="spec_abundance" format="csv" />
56 <data label="Metadata for ${tool.name} on ${on_string}" name="method_metadata" format="txt"/> 56 <data label="Metadata for ${tool.name} on ${on_string}" name="method_metadata" format="txt"/>
57 <expand macro="output_msp"/> 57 <expand macro="output_msp"/>
58 </outputs> 58 </outputs>
59 59
60 <tests>
61 <test>
62 <param name="ms" value="csv_test-input.csv" ftype="csv"/>
63 <param name="sample_name_column" value="1"/>
64 <param name="feature_delimiter" value="_"/>
65 <param name="retention_time_column" value="2"/>
66 <param name="st" value="5.0"/>
67 <param name="sr" value="0.5"/>
68 <param name="deepSplit" value="False"/>
69 <param name="blocksize" value="1000"/>
70 <param name="mult" value="1"/>
71 <param name="hmax" value="0.3"/>
72 <param name="collapse" value="True"/>
73 <param name="usePheno" value="True"/>
74 <param name="normalize" value="none"/>
75 <param name="qc_inj_range" value="20"/>
76 <param name="minModuleSize" value="2"/>
77 <param name="linkage" value="average"/>
78 <param name="mzdec" value="3"/>
79 <param name="cor_method" value="pearson"/>
80 <param name="rt_only_low_n" value="True"/>
81 <param name="replace_zeros" value="True"/>
82 <param name="Merge MSP Files" value="True"/>
83 <param name="maxt" value="1"/>
84 <output name="result" file="ramclustR-csv_object.RData"/>
85 <output name="spec_abundance" file="spec-abundance_csv.csv" ftype="csv"/>
86 <output name="method_metadata" file="metadata_csv.txt" ftype="txt"/>
87 <output_collection name="mass_spectra" type="list">
88 <element name="fill" file="test-spectra_csv.msp" ftype="msp"/>
89 </output_collection>
90 </test>
91 </tests>
92
60 <help> 93 <help>
61 Documentation 94 Documentation
62 For documentation on the tool see https://github.com/cbroeckl/RAMClustR/blob/master/vignettes/RAMClustR.Rmd 95 For documentation on the tool see https://github.com/cbroeckl/RAMClustR/blob/master/vignettes/RAMClustR.Rmd
63 96
64 Upstream Tools 97 Upstream Tools