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comparison hardklor.xml @ 6:73fc27617b2e draft default tip

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"planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tools/hardklor commit 44c3e37a12f60b01521d3e3f18b7f16664f954cc"
author galaxyp
date Tue, 07 Apr 2020 03:27:32 -0400
parents 539f157784e7
children
comparison
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5:c5b3b7eafd46 6:73fc27617b2e
1 <tool id="hardklor" name="Hardklor" version="2.30.1"> 1 <tool id="hardklor" name="Hardklor" version="2.30.1+galaxy1">
2 <description>identification of features from mass spectra</description> 2 <description>identification of features from mass spectra</description>
3 <requirements> 3 <requirements>
4 <requirement type="package" version="2.3.0">hardklor</requirement> 4 <requirement type="package" version="2.3.0">hardklor</requirement>
5 <requirement type="package" version="3.7">python</requirement>
5 </requirements> 6 </requirements>
6 <stdio> 7 <command detect_errors="exit_code"><![CDATA[
7 <exit_code range="1:" level="fatal"/> 8 python '$__tool_directory__/hardklor.py'
8 </stdio> 9 '$ms1_in.extension'
9 <command>python $__tool_directory__/hardklor.py "$ms1_in.extension" "$ms1_in" 10 '$ms1_in'
10 "$output" -charge_algo=$cdm -resolution=$res -centroided=$centroided -instrument=$instrument -algorithm=$algorithm -mincharge=$chMin 11 '$output'
11 -maxcharge=$chMax -mslvl=$mslvl -correlation=$corr -depth=$depth -sensitivity=$sens -maxfeat=$maxfeat</command> 12 -charge_algo=$cdm
13 -resolution=$res
14 -centroided=$centroided
15 -instrument=$instrument
16 -algorithm=$algorithm
17 -mincharge=$chMin
18 -maxcharge=$chMax
19 -mslvl=$mslvl
20 -correlation=$corr
21 -depth=$depth
22 -sensitivity=$sens
23 -maxfeat=$maxfeat
24 ]]></command>
12 <inputs> 25 <inputs>
13 <param name="ms1_in" type="data" format="mzml" label="MS1 files with precursor spectra " /> 26 <param name="ms1_in" type="data" format="mzml" label="MS1 files with precursor spectra" />
14 <param name="res" type="integer" value="60000" label="Spectral resolution at 400m/z" /> 27 <param name="res" type="integer" value="60000" label="Spectral resolution at 400m/z" />
15 <param name="centroided" type="select" display="radio" label="Centroided data?"> 28 <param name="centroided" type="select" display="radio" label="Centroided data?">
16 <option value="0" selected="true">No</option> 29 <option value="0" selected="true">No</option>
17 <option value="1">Yes</option> 30 <option value="1">Yes</option>
18 </param> 31 </param>