Mercurial > repos > galaxyp > openms_qccalculator

comparison QCCalculator.xml @ 7:1fc9e74f040c draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit f608f41d45664d04d3124c6ebc791bf8a566b3c5
author galaxyp
date Fri, 17 May 2019 04:54:51 -0400
parents 988cd0f185ee
children 8bcc0d2ad96e
comparison
equal deleted inserted replaced
6:5c103025f6e4 7:1fc9e74f040c
8 <import>macros.xml</import> 8 <import>macros.xml</import>
9 </macros> 9 </macros>
10 <expand macro="references"/> 10 <expand macro="references"/>
11 <expand macro="stdio"/> 11 <expand macro="stdio"/>
12 <expand macro="requirements"/> 12 <expand macro="requirements"/>
13 <command>QCCalculator 13 <command detect_errors="aggressive"><![CDATA[QCCalculator
14 14
15 #if $param_in: 15 #if $param_in:
16 -in $param_in 16 -in $param_in
17 #end if 17 #end if
18 #if $param_out: 18 #if $param_out:
33 #if $adv_opts.adv_opts_selector=='advanced': 33 #if $adv_opts.adv_opts_selector=='advanced':
34 #if $adv_opts.param_force: 34 #if $adv_opts.param_force:
35 -force 35 -force
36 #end if 36 #end if
37 #end if 37 #end if
38 </command> 38 ]]></command>
39 <inputs> 39 <inputs>
40 <param name="param_in" type="data" format="mzml" optional="False" label="raw data input file (this is relevant if you want to look at MS1, MS2 and precursor peak information)" help="(-in) "/> 40 <param name="param_in" type="data" format="mzml" optional="False" label="raw data input file (this is relevant if you want to look at MS1, MS2 and precursor peak information)" help="(-in) "/>
41 <param name="param_id" type="data" format="idxml" optional="True" label="Input idXML file containing the identifications" help="(-id) Your identifications will be exported in an easy-to-read format"/> 41 <param name="param_id" type="data" format="idxml" optional="True" label="Input idXML file containing the identifications" help="(-id) Your identifications will be exported in an easy-to-read format"/>
42 <param name="param_feature" type="data" format="featurexml" optional="True" label="feature input file (this is relevant for most QC issues)" help="(-feature) "/> 42 <param name="param_feature" type="data" format="featurexml" optional="True" label="feature input file (this is relevant for most QC issues)" help="(-feature) "/>
43 <param name="param_consensus" type="data" format="consensusxml" optional="True" label="consensus input file (this is only used for charge state deconvoluted output" help="(-consensus) Use the consensusXML output form the DeCharger)"/> 43 <param name="param_consensus" type="data" format="consensusxml" optional="True" label="consensus input file (this is only used for charge state deconvoluted output" help="(-consensus) Use the consensusXML output form the DeCharger)"/>
50 <data name="param_out" format="qcml"/> 50 <data name="param_out" format="qcml"/>
51 </outputs> 51 </outputs>
52 <help>Calculates basic quality parameters from MS experiments and subsequent analysis data as identification or feature detection. 52 <help>Calculates basic quality parameters from MS experiments and subsequent analysis data as identification or feature detection.
53 53
54 54
55 For more information, visit http://ftp.mi.fu-berlin.de/OpenMS/release-documentation/html/UTILS_QCCalculator.html</help> 55 For more information, visit https://abibuilder.informatik.uni-tuebingen.de/archive/openms/Documentation/release/2.3.0/html/UTILS_QCCalculator.html</help>
56 </tool> 56 </tool>