comparison LuciphorAdapter.xml @ 12:772d236ead0a draft

planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit f608f41d45664d04d3124c6ebc791bf8a566b3c5

11:2a5738ecd2fc

<?xml version='1.0' encoding='UTF-8'?>
<!--This is a configuration file for the integration of a tools into Galaxy (https://galaxyproject.org/). This file was automatically generated using CTD2Galaxy.-->
<!--Proposed Tool Section: [ID Processing]-->
<tool id="LuciphorAdapter" name="LuciphorAdapter" version="2.2.0">
  <description>Modification site localisation using LuciPHOr2.</description>
  <macros>
    <token name="@EXECUTABLE@">LuciphorAdapter</token>
    <import>macros.xml</import>
  </macros>
  <expand macro="references"/>
  <expand macro="stdio"/>
  <expand macro="requirements"/>
  <command>LuciphorAdapter

#if $param_in:
  -in $param_in
#end if
#if $param_id:

#if $adv_opts.adv_opts_selector=='advanced':
    #if $adv_opts.param_force:
  -force
#end if
#end if
</command>
  <inputs>
    <param name="param_in" type="data" format="mzml" optional="False" label="Input spectrum file" help="(-in) "/>
    <param name="param_id" type="data" format="idxml" optional="False" label="Protein/peptide identifications file" help="(-id) "/>
    <param name="param_fragment_method" display="radio" type="select" optional="False" value="CID" label="Fragmentation method" help="(-fragment_method) ">
      <option value="CID" selected="true">CID</option>

    <data name="param_out" format="idxml"/>
  </outputs>
  <help>Modification site localisation using LuciPHOr2.


For more information, visit http://ftp.mi.fu-berlin.de/OpenMS/release-documentation/html/TOPP_LuciphorAdapter.html</help>
</tool>

12:772d236ead0a

<?xml version='1.0' encoding='UTF-8'?>
<!--This is a configuration file for the integration of a tools into Galaxy (https://galaxyproject.org/). This file was automatically generated using CTDConverter.-->
<!--Proposed Tool Section: [ID Processing]-->
<tool id="LuciphorAdapter" name="LuciphorAdapter" version="2.3.0">
  <description>Modification site localisation using LuciPHOr2.</description>
  <macros>
    <token name="@EXECUTABLE@">LuciphorAdapter</token>
    <import>macros.xml</import>
  </macros>
  <expand macro="references"/>
  <expand macro="stdio"/>
  <expand macro="requirements"/>
  <command detect_errors="aggressive"><![CDATA[LuciphorAdapter

#if $param_in:
  -in $param_in
#end if
#if $param_id:

#if $adv_opts.adv_opts_selector=='advanced':
    #if $adv_opts.param_force:
  -force
#end if
#end if
]]></command>
  <inputs>
    <param name="param_in" type="data" format="mzml" optional="False" label="Input spectrum file" help="(-in) "/>
    <param name="param_id" type="data" format="idxml" optional="False" label="Protein/peptide identifications file" help="(-id) "/>
    <param name="param_fragment_method" display="radio" type="select" optional="False" value="CID" label="Fragmentation method" help="(-fragment_method) ">
      <option value="CID" selected="true">CID</option>

    <data name="param_out" format="idxml"/>
  </outputs>
  <help>Modification site localisation using LuciPHOr2.


For more information, visit https://abibuilder.informatik.uni-tuebingen.de/archive/openms/Documentation/release/2.3.0/html/TOPP_LuciphorAdapter.html</help>
</tool>