comparison MascotAdapterOnline.xml @ 5:cd20b37947f9 draft

planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit 58476cadaaf10b494317a604ad81d41c2d15f29b

4:f7912ee5960f

<?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: [Identification]-->
<tool id="MascotAdapterOnline" name="MascotAdapterOnline" version="2.2.0">
  <description>Annotates MS/MS spectra using Mascot.</description>
  <macros>
    <token name="@EXECUTABLE@">MascotAdapterOnline</token>
    <import>macros.xml</import>
  </macros>

          <remove value="'"/>
          <remove value="&quot;"/>
        </valid>
      </sanitizer>
    </param>
    <repeat name="rep_param_Mascot_parameters_fixed_modifications" min="0" max="1" title="param_Mascot_parameters_fixed_modifications">
      <param name="param_Mascot_parameters_fixed_modifications" type="select" optional="True" label="List of fixed modifications, according to UniMod definitions" help="(-fixed_modifications) ">
        <option value="15N-oxobutanoic (N-term C)">15N-oxobutanoic (N-term C)</option>
        <option value="2-dimethylsuccinyl (C)">2-dimethylsuccinyl (C)</option>
        <option value="2-monomethylsuccinyl (C)">2-monomethylsuccinyl (C)</option>
        <option value="2-nitrobenzyl (Y)">2-nitrobenzyl (Y)</option>

        <option value="sulfo+amino (Y)">sulfo+amino (Y)</option>
        <option value="thioacylPA (K)">thioacylPA (K)</option>
        <option value="trifluoro (L)">trifluoro (L)</option>
      </param>
    </repeat>
    <repeat name="rep_param_Mascot_parameters_variable_modifications" min="0" max="1" title="param_Mascot_parameters_variable_modifications">
      <param name="param_Mascot_parameters_variable_modifications" type="select" optional="True" label="Variable modifications given as UniMod definitions" help="(-variable_modifications) ">
        <option value="15N-oxobutanoic (N-term C)">15N-oxobutanoic (N-term C)</option>
        <option value="2-dimethylsuccinyl (C)">2-dimethylsuccinyl (C)</option>
        <option value="2-monomethylsuccinyl (C)">2-monomethylsuccinyl (C)</option>
        <option value="2-nitrobenzyl (Y)">2-nitrobenzyl (Y)</option>

5:cd20b37947f9

<?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: [Identification]-->
<tool id="MascotAdapterOnline" name="MascotAdapterOnline" version="2.3.0">
  <description>Annotates MS/MS spectra using Mascot.</description>
  <macros>
    <token name="@EXECUTABLE@">MascotAdapterOnline</token>
    <import>macros.xml</import>
  </macros>

          <remove value="'"/>
          <remove value="&quot;"/>
        </valid>
      </sanitizer>
    </param>
    <repeat name="rep_param_Mascot_parameters_fixed_modifications" min="0" title="param_Mascot_parameters_fixed_modifications">
      <param name="param_Mascot_parameters_fixed_modifications" type="select" optional="True" label="List of fixed modifications, according to UniMod definitions" help="(-fixed_modifications) ">
        <option value="15N-oxobutanoic (N-term C)">15N-oxobutanoic (N-term C)</option>
        <option value="2-dimethylsuccinyl (C)">2-dimethylsuccinyl (C)</option>
        <option value="2-monomethylsuccinyl (C)">2-monomethylsuccinyl (C)</option>
        <option value="2-nitrobenzyl (Y)">2-nitrobenzyl (Y)</option>

        <option value="sulfo+amino (Y)">sulfo+amino (Y)</option>
        <option value="thioacylPA (K)">thioacylPA (K)</option>
        <option value="trifluoro (L)">trifluoro (L)</option>
      </param>
    </repeat>
    <repeat name="rep_param_Mascot_parameters_variable_modifications" min="0" title="param_Mascot_parameters_variable_modifications">
      <param name="param_Mascot_parameters_variable_modifications" type="select" optional="True" label="Variable modifications given as UniMod definitions" help="(-variable_modifications) ">
        <option value="15N-oxobutanoic (N-term C)">15N-oxobutanoic (N-term C)</option>
        <option value="2-dimethylsuccinyl (C)">2-dimethylsuccinyl (C)</option>
        <option value="2-monomethylsuccinyl (C)">2-monomethylsuccinyl (C)</option>
        <option value="2-nitrobenzyl (Y)">2-nitrobenzyl (Y)</option>