Mercurial > repos > galaxyp > openms_speclibcreator
comparison SpecLibCreator.xml @ 0:564a6acb89e8 draft
planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit fb85d488133bb2b5f483b52b2db0ac66038fafb8
| author | galaxyp |
|---|---|
| date | Wed, 01 Mar 2017 12:36:58 -0500 |
| parents | |
| children | c61d23e4f90e |
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| -1:000000000000 | 0:564a6acb89e8 |
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| 1 <?xml version='1.0' encoding='UTF-8'?> | |
| 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 <!--Proposed Tool Section: [Utilities]--> | |
| 4 <tool id="SpecLibCreator" name="SpecLibCreator" version="2.1.0"> | |
| 5 <description>Creates an MSP formatted spectral library.</description> | |
| 6 <macros> | |
| 7 <token name="@EXECUTABLE@">SpecLibCreator</token> | |
| 8 <import>macros.xml</import> | |
| 9 </macros> | |
| 10 <expand macro="references"/> | |
| 11 <expand macro="stdio"/> | |
| 12 <expand macro="requirements"/> | |
| 13 <command>SpecLibCreator | |
| 14 | |
| 15 #if $param_info: | |
| 16 -info $param_info | |
| 17 #end if | |
| 18 #if $param_itemseperator: | |
| 19 -itemseperator "$param_itemseperator" | |
| 20 #end if | |
| 21 #if $param_itemenclosed: | |
| 22 -itemenclosed | |
| 23 #end if | |
| 24 #if $param_spec: | |
| 25 -spec $param_spec | |
| 26 #end if | |
| 27 #if $param_out: | |
| 28 -out $param_out | |
| 29 #end if | |
| 30 #if $adv_opts.adv_opts_selector=='advanced': | |
| 31 #if $adv_opts.param_force: | |
| 32 -force | |
| 33 #end if | |
| 34 #end if | |
| 35 </command> | |
| 36 <inputs> | |
| 37 <param name="param_info" type="data" format="tabular" optional="False" label="Holds id, peptide, retention time etc" help="(-info) "/> | |
| 38 <param name="param_itemseperator" type="text" size="30" value="," label=" Seperator between items. e.g. ," help="(-itemseperator) "> | |
| 39 <sanitizer> | |
| 40 <valid initial="string.printable"> | |
| 41 <remove value="'"/> | |
| 42 <remove value="""/> | |
| 43 </valid> | |
| 44 </sanitizer> | |
| 45 </param> | |
| 46 <param name="param_itemenclosed" display="radio" type="boolean" truevalue="-itemenclosed" falsevalue="" checked="false" optional="True" label="'true' or 'false' if true every item is enclosed" help="(-itemenclosed) e.g. '$peptide$,$run$"/> | |
| 47 <param name="param_spec" type="data" format="mzxml" optional="False" label="spectra" help="(-spec) "/> | |
| 48 <expand macro="advanced_options"> | |
| 49 <param name="param_force" display="radio" type="boolean" truevalue="-force" falsevalue="" checked="false" optional="True" label="Overwrite tool specific checks" help="(-force) "/> | |
| 50 </expand> | |
| 51 </inputs> | |
| 52 <outputs> | |
| 53 <data name="param_out" format="msp"/> | |
| 54 </outputs> | |
| 55 <help>Creates an MSP formatted spectral library. | |
| 56 | |
| 57 | |
| 58 For more information, visit http://ftp.mi.fu-berlin.de/OpenMS/release-documentation/html/UTILS_SpecLibCreator.html</help> | |
| 59 </tool> |