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annotate SequenceCoverageCalculator.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
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6ead64a594bd planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/openms commit 7a5239910fda9ed90cca286a38855703b40b1b56-dirty
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1 <?xml version="1.0" encoding="UTF-8"?>
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2 <!--This is a configuration file for the integration of a tools into Galaxy (https://galaxyproject.org/). This file was automatically generated using CTD2Galaxy.-->
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3 <!--Proposed Tool Section: [Utilities]-->
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4 <tool id="SequenceCoverageCalculator" name="SequenceCoverageCalculator" version="2.0.0">
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5 <description>Prints information about idXML files.</description>
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6 <macros>
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7 <token name="@EXECUTABLE@">SequenceCoverageCalculator</token>
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8 <import>macros.xml</import>
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9 </macros>
6ead64a594bd planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/openms commit 7a5239910fda9ed90cca286a38855703b40b1b56-dirty
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10 <expand macro="references"/>
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11 <expand macro="stdio"/>
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12 <expand macro="requirements"/>
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13 <command>SequenceCoverageCalculator
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14
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15 #if $param_in_database:
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16 -in_database $param_in_database
6ead64a594bd planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/openms commit 7a5239910fda9ed90cca286a38855703b40b1b56-dirty
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17 #end if
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18 #if $param_in_peptides:
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19 -in_peptides $param_in_peptides
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20 #end if
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21 #if $param_out:
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22 -out $param_out
6ead64a594bd planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/openms commit 7a5239910fda9ed90cca286a38855703b40b1b56-dirty
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23 #end if
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24 -threads \${GALAXY_SLOTS:-24}
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25 #if $adv_opts.adv_opts_selector=='advanced':
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26 #if $adv_opts.param_force:
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27 -force
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28 #end if
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29 #end if
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30 </command>
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31 <inputs>
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32 <param format="fasta" help="(-in_database) " label="input file containing the database in FASTA format" name="param_in_database" optional="False" type="data"/>
6ead64a594bd planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/openms commit 7a5239910fda9ed90cca286a38855703b40b1b56-dirty
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33 <param format="xml" help="(-in_peptides) " label="input file containing the identified peptides" name="param_in_peptides" optional="False" type="data"/>
6ead64a594bd planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/openms commit 7a5239910fda9ed90cca286a38855703b40b1b56-dirty
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34 <expand macro="advanced_options">
6ead64a594bd planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/openms commit 7a5239910fda9ed90cca286a38855703b40b1b56-dirty
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35 <param checked="false" falsevalue="" help="(-force) " label="Overwrite tool specific checks" name="param_force" optional="True" truevalue="-force" type="boolean"/>
6ead64a594bd planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/openms commit 7a5239910fda9ed90cca286a38855703b40b1b56-dirty
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36 </expand>
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37 </inputs>
6ead64a594bd planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/openms commit 7a5239910fda9ed90cca286a38855703b40b1b56-dirty
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38 <outputs>
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39 <data format="txt" name="param_out"/>
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40 </outputs>
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41 <help>Prints information about idXML files.
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43
4
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44 For more information, visit http://ftp.mi.fu-berlin.de/OpenMS/release-documentation/html/UTILS_SequenceCoverageCalculator.html</help>
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45 </tool>