Mercurial > repos > galaxyp > openms_peakpickerhires

comparison PeakPickerHiRes.xml @ 7:3d8d4ada5405 draft

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planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit f608f41d45664d04d3124c6ebc791bf8a566b3c5-dirty
author galaxyp
date Fri, 17 May 2019 10:19:28 -0400
parents d34c1a10e713
children 146b59d2d3e5
comparison
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6:27c3a74a9a14 7:3d8d4ada5405
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>PeakPickerHiRes 13 <command detect_errors="aggressive"><![CDATA[PeakPickerHiRes
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:
95 #end if 95 #end if
96 #if $adv_opts.param_algorithm_SignalToNoise_noise_for_empty_window: 96 #if $adv_opts.param_algorithm_SignalToNoise_noise_for_empty_window:
97 -algorithm:SignalToNoise:noise_for_empty_window $adv_opts.param_algorithm_SignalToNoise_noise_for_empty_window 97 -algorithm:SignalToNoise:noise_for_empty_window $adv_opts.param_algorithm_SignalToNoise_noise_for_empty_window
98 #end if 98 #end if
99 #end if 99 #end if
100 </command> 100 ]]></command>
101 <inputs> 101 <inputs>
102 <param name="param_in" type="data" format="mzml" optional="False" label="input profile data file" help="(-in) "/> 102 <param name="param_in" type="data" format="mzml" optional="False" label="input profile data file" help="(-in) "/>
103 <param name="param_algorithm_signal_to_noise" type="float" min="0.0" optional="True" value="0.0" label="Minimal signal-to-noise ratio for a peak to be picked (0.0 disables SNT estimation!)" help="(-signal_to_noise) "/> 103 <param name="param_algorithm_signal_to_noise" type="float" min="0.0" optional="True" value="0.0" label="Minimal signal-to-noise ratio for a peak to be picked (0.0 disables SNT estimation!)" help="(-signal_to_noise) "/>
104 <repeat name="rep_param_algorithm_ms_levels" min="0" max="1" title="param_algorithm_ms_levels"> 104 <repeat name="rep_param_algorithm_ms_levels" min="0" max="1" title="param_algorithm_ms_levels">
105 <param name="param_algorithm_ms_levels" type="text" min="1" optional="True" size="30" value="1" label="List of MS levels for which the peak picking is applied" help="(-ms_levels) Other scans are copied to the output without changes"> 105 <param name="param_algorithm_ms_levels" type="text" min="1" optional="True" size="30" value="1" label="List of MS levels for which the peak picking is applied" help="(-ms_levels) Other scans are copied to the output without changes">
143 <data name="param_out" format="mzml"/> 143 <data name="param_out" format="mzml"/>
144 </outputs> 144 </outputs>
145 <help>Finds mass spectrometric peaks in profile mass spectra. 145 <help>Finds mass spectrometric peaks in profile mass spectra.
146 146
147 147
148 For more information, visit http://ftp.mi.fu-berlin.de/OpenMS/release-documentation/html/TOPP_PeakPickerHiRes.html</help> 148 For more information, visit https://abibuilder.informatik.uni-tuebingen.de/archive/openms/Documentation/release/2.3.0/html/TOPP_PeakPickerHiRes.html</help>
149 </tool> 149 </tool>