Mercurial > repos > galaxyp > openms_peakpickeriterative

comparison PeakPickerIterative.xml @ 7:eab30c6f4d08 draft

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planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit f608f41d45664d04d3124c6ebc791bf8a566b3c5
author galaxyp
date Wed, 15 May 2019 08:29:51 -0400
parents 57ab47a36532
children 4bb4e2db2e77
comparison
equal deleted inserted replaced
6:49bc3e521f21 7:eab30c6f4d08
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>PeakPickerIterative 13 <command detect_errors="aggressive"><![CDATA[PeakPickerIterative
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:
48 #end if 48 #end if
49 #if $adv_opts.param_algorithm_check_width_internally: 49 #if $adv_opts.param_algorithm_check_width_internally:
50 -algorithm:check_width_internally 50 -algorithm:check_width_internally
51 #end if 51 #end if
52 #end if 52 #end if
53 </command> 53 ]]></command>
54 <inputs> 54 <inputs>
55 <param name="param_in" type="data" format="mzml" optional="False" label="input file" help="(-in) "/> 55 <param name="param_in" type="data" format="mzml" optional="False" label="input file" help="(-in) "/>
56 <param name="param_algorithm_signal_to_noise_" type="float" value="1.0" label="Signal to noise value, each peak is required to be above this value (turn off by setting it to 0.0)" help="(-signal_to_noise_) "/> 56 <param name="param_algorithm_signal_to_noise_" type="float" value="1.0" label="Signal to noise value, each peak is required to be above this value (turn off by setting it to 0.0)" help="(-signal_to_noise_) "/>
57 <param name="param_algorithm_peak_width" type="float" value="0.0" label="Expected peak width half width in Dalton - peaks will be extended until this half width is reached (even if the intensitity is increasing)" help="(-peak_width) In conjunction with check_width_internally it will also be used to remove peaks whose spacing is larger than this value"/> 57 <param name="param_algorithm_peak_width" type="float" value="0.0" label="Expected peak width half width in Dalton - peaks will be extended until this half width is reached (even if the intensitity is increasing)" help="(-peak_width) In conjunction with check_width_internally it will also be used to remove peaks whose spacing is larger than this value"/>
58 <param name="param_algorithm_ms1_only" display="radio" type="boolean" truevalue="-algorithm:ms1_only" falsevalue="" checked="false" optional="True" label="Only do MS1" help="(-ms1_only) "/> 58 <param name="param_algorithm_ms1_only" display="radio" type="boolean" truevalue="-algorithm:ms1_only" falsevalue="" checked="false" optional="True" label="Only do MS1" help="(-ms1_only) "/>
70 <data name="param_out" format="mzml"/> 70 <data name="param_out" format="mzml"/>
71 </outputs> 71 </outputs>
72 <help>Finds mass spectrometric peaks in profile mass spectra. 72 <help>Finds mass spectrometric peaks in profile mass spectra.
73 73
74 74
75 For more information, visit http://ftp.mi.fu-berlin.de/OpenMS/release-documentation/html/UTILS_PeakPickerIterative.html</help> 75 For more information, visit https://abibuilder.informatik.uni-tuebingen.de/archive/openms/Documentation/release/2.3.0/html/UTILS_PeakPickerIterative.html</help>
76 </tool> 76 </tool>