Mercurial > repos > workflow4metabolomics > skyline2isocor

comparison skyline2isocor.xml @ 0:d45fffedc467 draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
planemo upload for repository https://github.com/MetaboHUB-MetaToul-FluxoMet/tools_w4m commit 23cfca443338f5ae8eed54b44a5b0d7b02563334
author workflow4metabolomics
date Tue, 19 Mar 2024 14:49:27 +0000
parents
children cdb4564fcb68
comparison
equal deleted inserted replaced
-1:000000000000 0:d45fffedc467
1 <tool id='skyline2isocor' name='Skyline2Isocor: converting skyling outputs into IsoCor inputs' version='@TOOL_VERSION@+galaxy0' profile='20.5'>
2 <macros>
3 <token name='@TOOL_VERSION@'>0.3.0</token>
4 </macros>
5 <requirements>
6 <requirement type='package' version='@TOOL_VERSION@'>skyline2isocor</requirement>
7 </requirements>
8 <command detect_errors='exit_code'><![CDATA[
9 skyline2isocor -i '$skyline_output' -o '$isocor_input' > '$stdout' 2> '$stderr'
10 ]]></command>
11 <inputs>
12 <param type='data' format='tabular, txt' name='skyline_output' label='Skyline output file' help='Skyline output to convert'/>
13 </inputs>
14 <outputs>
15 <data format='txt' name='stdout' label='Log'/>
16 <data format='txt' name='stderr' label='Error log' />
17 <data format='tabular,txt' name='isocor_input' label='IsoCor input file' />
18 </outputs>
19 <tests>
20 <test>
21 <param name='skyline_output' value='skyline_output.csv' />
22 <output name='isocor_input' value='test_output.tsv' />
23 </test>
24 </tests>
25 <help><![CDATA[
26 Preparing skyline output data for use in IsoCor software for natural abundance isotope correction. Can be directly linked to Isocor in a workflow.
27 Input is the skyline output. Necessary columns: File Name, Molecule Name, Product Adduct, Total Area.
28 ]]></help>
29 <citations>
30 <citation type='bibtex'>
31 @misc{
32 githubskyline2isocor,
33 author = {Le Gregam, Loic},
34 year = {2024},
35 title = {Skyline2IsoCor,
36 }
37 </citation>
38 </citations>
39 </tool>