view macros.xml @ 3:8295d959ca28 draft default tip

planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/morpheus commit 84a14a4f77dc68f80e6f7d9ac562b6d9b46d58b1

<macros>
        <token name="@TOOL_VERSION@">288</token>
        <token name="@VERSION_SUFFIX@">0</token>
	<token name="@PROFILE@">22.05</token>
	<xml name="edam_ontology">
	  <edam_topics>
	     <edam_topic>topic_0121</edam_topic>
     	  </edam_topics>
          <edam_operations>
	     <edam_operation>operation_2479</edam_operation>
	     <edam_operation>operation_3092</edam_operation>
          </edam_operations>
  	</xml>
        <xml name="biotools">
            <xrefs>
               <xref type="bio.tools">morpheus</xref>
            </xrefs>
    	</xml>
	<xml name="requirements">
           <requirements>
             <requirement type="package" version="@TOOL_VERSION@">morpheus</requirement>
    	   </requirements>
	</xml>
        <xml name="modification_options">
            <option value="acetylation of protein N-terminus">acetylation of protein N-terminus</option>
            <option value="acetylation of lysine">acetylation of lysine</option>
            <option value="phosphorylation of S">phosphorylation of S</option>
            <option value="phosphorylation of T">phosphorylation of T</option>
            <option value="phosphorylation of Y">phosphorylation of Y</option>
            <option value="deamidation of N">deamidation of N</option>
            <option value="deamidation of Q">deamidation of Q</option>
            <option value="pyro-cmC">pyro-cmC</option>
            <option value="pyro-E">pyro-E</option>
            <option value="pyro-Q">pyro-Q</option>
            <option value="TMT zero on peptide N-terminus">TMT zero on peptide N-terminus</option>
            <option value="TMT zero on K">TMT zero on K</option>
            <option value="TMT zero on Y">TMT zero on Y</option>
            <option value="TMT duplex on peptide N-terminus">TMT duplex on peptide N-terminus</option>
            <option value="TMT duplex on K">TMT duplex on K</option>
            <option value="TMT duplex on Y">TMT duplex on Y</option>
            <option value="TMT sixplex/tenplex on peptide N-terminus">TMT sixplex/tenplex on peptide N-terminus</option>
            <option value="TMT sixplex/tenplex on K">TMT sixplex/tenplex on K</option>
            <option value="TMT sixplex/tenplex on Y">TMT sixplex/tenplex on Y</option>
            <option value="iTRAQ 4-plex on peptide N-terminus">iTRAQ 4-plex on peptide N-terminus</option>
            <option value="iTRAQ 4-plex on K">iTRAQ 4-plex on K</option>
            <option value="iTRAQ 4-plex on Y">iTRAQ 4-plex on Y</option>
            <option value="iTRAQ 8-plex on peptide N-terminus">iTRAQ 8-plex on peptide N-terminus</option>
            <option value="iTRAQ 8-plex on K">iTRAQ 8-plex on K</option>
            <option value="iTRAQ 8-plex on Y    ">iTRAQ 8-plex on Y    </option>
        </xml>
        <xml name="variable_modification_options">
            <option value="oxidation of M" selected="true">oxidation of M</option>
            <option value="carbamidomethylation of C">carbamidomethylation of C</option>
            <expand macro="modification_options"/>
        </xml>
        <xml name="fixed_modification_options">
            <option value="carbamidomethylation of C" selected="true">carbamidomethylation of C</option>
            <option value="oxidation of M">oxidation of M</option>
            <expand macro="modification_options"/>
    	</xml>
	<xml name="proteases_options">
	    <option value="Arg-C">Arg-C</option>
	    <option value="Asp-N" >Asp-N</option>
	    <option value="chymotrypsin (no proline rule)" >chymotrypsin (no proline rule)</option>
	    <option value="Glu-C" >Glu-C</option>
	    <option value="Lys-C" >Lys-C</option>
	    <option value="Lys-C (no proline rule)" >Lys-C (no proline rule)</option>
	    <option value="Lys-N" >Lys-N</option>
	    <option value="semi-trypsin" >semi-trypsin</option>
	    <option value="semi-trypsin (no proline rule)" >semi-trypsin (no proline rule)</option>
	    <option value="trypsin" >trypsin</option>
	    <option value="trypsin (no proline rule)" selected="true">trypsin (no proline rule)</option>
	    <option value="tryptophan oxidation" >tryptophan oxidation</option>
	    <option value="non-specific" >non-specific</option>
	    <option value="top-down" >top-down</option>
	</xml>
</macros>