Mercurial > repos > galaxyp > openms_openpepxllf

comparison OpenPepXLLF.xml @ 2:44d9ef025505 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 07:59:37 -0400
parents 7074d15fcacc
children 04168c0bdfa7
comparison
equal deleted inserted replaced
1:ce58e77b5e05 2:44d9ef025505
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>OpenPepXLLF 13 <command detect_errors="aggressive"><![CDATA[OpenPepXLLF
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_database: 18 #if $param_database:
154 #end if 154 #end if
155 #if $adv_opts.param_precursor_max_charge: 155 #if $adv_opts.param_precursor_max_charge:
156 -precursor:max_charge $adv_opts.param_precursor_max_charge 156 -precursor:max_charge $adv_opts.param_precursor_max_charge
157 #end if 157 #end if
158 #end if 158 #end if
159 </command> 159 ]]></command>
160 <inputs> 160 <inputs>
161 <param name="param_in" type="data" format="mzml" optional="False" label="Input file containing the spectra" help="(-in) "/> 161 <param name="param_in" type="data" format="mzml" optional="False" label="Input file containing the spectra" help="(-in) "/>
162 <param name="param_database" type="data" format="fasta" optional="False" label="Input file containing the protein database" help="(-database) "/> 162 <param name="param_database" type="data" format="fasta" optional="False" label="Input file containing the protein database" help="(-database) "/>
163 <param name="param_decoy_string" type="text" size="30" value="decoy" label="String that was appended (or prefixed - see 'prefix' flag below) to the accessions in the protein database to indicate decoy proteins" help="(-decoy_string) "> 163 <param name="param_decoy_string" type="text" size="30" value="decoy" label="String that was appended (or prefixed - see 'prefix' flag below) to the accessions in the protein database to indicate decoy proteins" help="(-decoy_string) ">
164 <sanitizer> 164 <sanitizer>
5330 <data name="param_out_mzIdentML" format="mzid"/> 5330 <data name="param_out_mzIdentML" format="mzid"/>
5331 </outputs> 5331 </outputs>
5332 <help>Tool for protein-protein cross linking with label-free linkers. 5332 <help>Tool for protein-protein cross linking with label-free linkers.
5333 5333
5334 5334
5335 For more information, visit http://ftp.mi.fu-berlin.de/OpenMS/release-documentation/html/UTILS_OpenPepXLLF.html</help> 5335 For more information, visit https://abibuilder.informatik.uni-tuebingen.de/archive/openms/Documentation/release/2.3.0/html/UTILS_OpenPepXLLF.html</help>
5336 </tool> 5336 </tool>