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comparison LabeledEval.xml @ 4:6ead64a594bd draft default tip

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planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/openms commit 7a5239910fda9ed90cca286a38855703b40b1b56-dirty
author bgruening
date Wed, 27 Jan 2016 10:06:49 -0500
parents 3d84209d3178
children
comparison
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3:ec62782f6c68 4:6ead64a594bd
1 <?xml version='1.0' encoding='UTF-8'?> 1 <?xml version="1.0" encoding="UTF-8"?>
2 <tool id="LabeledEval" name="LabeledEval" version="1.12.0"> 2 <!--This is a configuration file for the integration of a tools into Galaxy (https://galaxyproject.org/). This file was automatically generated using CTD2Galaxy.-->
3 <description> Evaluation tool for isotope-labeled quantitation experiments.</description> 3 <!--Proposed Tool Section: [Utilities]-->
4 <macros> 4 <tool id="LabeledEval" name="LabeledEval" version="2.0.0">
5 <token name="@EXECUTABLE@">LabeledEval</token> 5 <description> Evaluation tool for isotope-labeled quantitation experiments.</description>
6 <import>macros.xml</import> 6 <macros>
7 </macros> 7 <token name="@EXECUTABLE@">LabeledEval</token>
8 <expand macro="stdio"/> 8 <import>macros.xml</import>
9 <expand macro="requirements"/> 9 </macros>
10 <command>LabeledEval 10 <expand macro="references"/>
11 <expand macro="stdio"/>
12 <expand macro="requirements"/>
13 <command>LabeledEval
11 14
12 -in ${param_in} 15 #if $param_in:
13 -truth ${param_truth} 16 -in $param_in
14 -rt_tol ${param_rt_tol} 17 #end if
15 -mz_tol ${param_mz_tol} 18 #if $param_truth:
16 -threads \${GALAXY_SLOTS:-24} 19 -truth $param_truth
20 #end if
21 #if $param_rt_tol:
22 -rt_tol $param_rt_tol
23 #end if
24 #if $param_mz_tol:
25 -mz_tol $param_mz_tol
26 #end if
27 -threads \${GALAXY_SLOTS:-24}
28 #if $adv_opts.adv_opts_selector=='advanced':
29 #if $adv_opts.param_force:
30 -force
31 #end if
32 #end if
33 &gt; $param_stdout
17 </command> 34 </command>
18 <inputs> 35 <inputs>
19 <param name="param_in" type="data" format="featureXML" optional="False" label="Feature result file" help="(-in)"/> 36 <param format="xml" help="(-in) " label="Feature result file" name="param_in" optional="False" type="data"/>
20 <param name="param_truth" type="data" format="consensusXML" optional="False" label="Expected result file." help="(-truth)"/> 37 <param format="consensusxml" help="(-truth) " label="Expected result file" name="param_truth" optional="False" type="data"/>
21 <param name="param_rt_tol" type="float" value="20.0" label="Maximum allowed retention time deviation" help="(-rt_tol)"/> 38 <param help="(-rt_tol) " label="Maximum allowed retention time deviation" name="param_rt_tol" type="float" value="20.0"/>
22 <param name="param_mz_tol" type="float" value="0.25" label="Maximum allowed m/z deviation (divided by charge)" help="(-mz_tol)"/> 39 <param help="(-mz_tol) " label="Maximum allowed m/z deviation (divided by charge)" name="param_mz_tol" type="float" value="0.25"/>
23 </inputs> 40 <expand macro="advanced_options">
24 <outputs/> 41 <param checked="false" falsevalue="" help="(-force) " label="Overwrite tool specific checks" name="param_force" optional="True" truevalue="-force" type="boolean"/>
25 <help>**What it does** 42 </expand>
26 43 </inputs>
27 Evaluation tool for isotope-labeled quantitation experiments. 44 <outputs>
45 <data format="text" label="Output from stdout" name="param_stdout"/>
46 </outputs>
47 <help> Evaluation tool for isotope-labeled quantitation experiments.
28 48
29 49
30 For more information, visit http://ftp.mi.fu-berlin.de/OpenMS/release-documentation/html/UTILS_LabeledEval.html 50 For more information, visit http://ftp.mi.fu-berlin.de/OpenMS/release-documentation/html/UTILS_LabeledEval.html</help>
31 51 </tool>
32 @REFERENCES@
33 </help>
34 </tool>