Mercurial > repos > galaxyp > openms_internalcalibration

comparison InternalCalibration.xml @ 7:6b0c27522bcd draft

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planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit f608f41d45664d04d3124c6ebc791bf8a566b3c5
author galaxyp
date Fri, 17 May 2019 04:55:41 -0400
parents ed8100768631
children 4682dcff7e2f
comparison
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6:80621478131c 7:6b0c27522bcd
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>InternalCalibration 13 <command detect_errors="aggressive"><![CDATA[InternalCalibration
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:
97 #if $adv_opts.adv_opts_selector=='advanced': 97 #if $adv_opts.adv_opts_selector=='advanced':
98 #if $adv_opts.param_force: 98 #if $adv_opts.param_force:
99 -force 99 -force
100 #end if 100 #end if
101 #end if 101 #end if
102 </command> 102 ]]></command>
103 <inputs> 103 <inputs>
104 <param name="param_in" type="data" format="mzml" optional="False" label="Input peak file" help="(-in) "/> 104 <param name="param_in" type="data" format="mzml" optional="False" label="Input peak file" help="(-in) "/>
105 <param name="param_rscript_executable" type="data" format="txt" value="Rscript" label="Path to the Rscript executable (default: 'Rscript')" help="(-rscript_executable) "/> 105 <param name="param_rscript_executable" type="data" format="txt" value="Rscript" label="Path to the Rscript executable (default: 'Rscript')" help="(-rscript_executable) "/>
106 <param name="param_ppm_match_tolerance" type="float" value="25.0" label="Finding calibrants in raw data uses this tolerance (for lock masses and ID's)" help="(-ppm_match_tolerance) "/> 106 <param name="param_ppm_match_tolerance" type="float" value="25.0" label="Finding calibrants in raw data uses this tolerance (for lock masses and ID's)" help="(-ppm_match_tolerance) "/>
107 <repeat name="rep_param_ms_level" min="0" max="1" title="param_ms_level"> 107 <repeat name="rep_param_ms_level" min="0" max="1" title="param_ms_level">
145 <data name="param_quality_control_residuals_plot" format="png"/> 145 <data name="param_quality_control_residuals_plot" format="png"/>
146 </outputs> 146 </outputs>
147 <help>Applies an internal mass recalibration. 147 <help>Applies an internal mass recalibration.
148 148
149 149
150 For more information, visit http://ftp.mi.fu-berlin.de/OpenMS/release-documentation/html/TOPP_InternalCalibration.html</help> 150 For more information, visit https://abibuilder.informatik.uni-tuebingen.de/archive/openms/Documentation/release/2.3.0/html/TOPP_InternalCalibration.html</help>
151 </tool> 151 </tool>