Mercurial > repos > galaxyp > openms_digestor

diff Digestor.xml @ 12:4827e132ac53 draft

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"planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit 55a2aeba8bfd8a6910630721de9857dcdfe05d3c"
author galaxyp
date Tue, 13 Oct 2020 20:19:57 +0000
parents 7af5860ae563
children 13399dc8f687
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--- a/Digestor.xml	Wed Sep 23 15:00:03 2020 +0000
+++ b/Digestor.xml	Tue Oct 13 20:19:57 2020 +0000
@@ -51,20 +51,21 @@
     <param name="min_length" argument="-min_length" type="integer" optional="true" value="6" label="Minimum length of peptide" help=""/>
     <param name="max_length" argument="-max_length" type="integer" optional="true" value="40" label="Maximum length of peptide" help=""/>
     <param name="enzyme" argument="-enzyme" type="select" optional="false" label="The type of digestion enzyme" help="">
-      <option value="Asp-N">Asp-N</option>
-      <option value="Asp-N/B">Asp-N/B</option>
-      <option value="Asp-N_ambic">Asp-N_ambic</option>
-      <option value="cyanogen-bromide">cyanogen-bromide</option>
-      <option value="Clostripain/P">Clostripain/P</option>
-      <option value="elastase-trypsin-chymotrypsin">elastase-trypsin-chymotrypsin</option>
-      <option value="no cleavage">no cleavage</option>
-      <option value="unspecific cleavage">unspecific cleavage</option>
+      <option value="V8-E">V8-E</option>
+      <option value="leukocyte elastase">leukocyte elastase</option>
+      <option value="proline endopeptidase">proline endopeptidase</option>
+      <option value="glutamyl endopeptidase">glutamyl endopeptidase</option>
+      <option value="Alpha-lytic protease">Alpha-lytic protease</option>
+      <option value="2-iodobenzoate">2-iodobenzoate</option>
+      <option value="iodosobenzoate">iodosobenzoate</option>
       <option value="staphylococcal protease/D">staphylococcal protease/D</option>
       <option value="proline-endopeptidase/HKR">proline-endopeptidase/HKR</option>
       <option value="Glu-C+P">Glu-C+P</option>
       <option value="PepsinA + P">PepsinA + P</option>
-      <option value="leukocyte elastase">leukocyte elastase</option>
-      <option value="proline endopeptidase">proline endopeptidase</option>
+      <option value="cyanogen-bromide">cyanogen-bromide</option>
+      <option value="Clostripain/P">Clostripain/P</option>
+      <option value="Asp-N/B">Asp-N/B</option>
+      <option value="Asp-N_ambic">Asp-N_ambic</option>
       <option value="Chymotrypsin">Chymotrypsin</option>
       <option value="Chymotrypsin/P">Chymotrypsin/P</option>
       <option value="CNBr">CNBr</option>
@@ -72,17 +73,16 @@
       <option value="Lys-C">Lys-C</option>
       <option value="Lys-N">Lys-N</option>
       <option value="Lys-C/P">Lys-C/P</option>
-      <option value="PepsinA">PepsinA</option>
-      <option value="TrypChymo">TrypChymo</option>
       <option value="Trypsin/P">Trypsin/P</option>
       <option value="V8-DE">V8-DE</option>
-      <option value="V8-E">V8-E</option>
+      <option value="elastase-trypsin-chymotrypsin">elastase-trypsin-chymotrypsin</option>
+      <option value="no cleavage">no cleavage</option>
+      <option value="unspecific cleavage">unspecific cleavage</option>
       <option value="Arg-C">Arg-C</option>
       <option value="Arg-C/P">Arg-C/P</option>
-      <option value="glutamyl endopeptidase">glutamyl endopeptidase</option>
-      <option value="Alpha-lytic protease">Alpha-lytic protease</option>
-      <option value="2-iodobenzoate">2-iodobenzoate</option>
-      <option value="iodosobenzoate">iodosobenzoate</option>
+      <option value="Asp-N">Asp-N</option>
+      <option value="PepsinA">PepsinA</option>
+      <option value="TrypChymo">TrypChymo</option>
       <option value="Trypsin" selected="true">Trypsin</option>
       <expand macro="list_string_san"/>
     </param>
@@ -100,12 +100,12 @@
       </param>
     </section>
     <expand macro="adv_opts_macro">
-      <param name="force" argument="-force" type="boolean" truevalue="true" falsevalue="false" checked="false" label="Overwrite tool specific checks" help=""/>
+      <param name="force" argument="-force" type="boolean" truevalue="true" falsevalue="false" checked="false" label="Overrides tool-specific checks" help=""/>
       <param name="test" argument="-test" type="hidden" optional="true" value="False" label="Enables the test mode (needed for internal use only)" help="">
         <expand macro="list_string_san"/>
       </param>
     </expand>
-    <param name="OPTIONAL_OUTPUTS" type="select" multiple="true" label="Optional outputs" optional="true">
+    <param name="OPTIONAL_OUTPUTS" type="select" optional="true" multiple="true" label="Optional outputs">
       <option value="ctd_out_FLAG">Output used ctd (ini) configuration file</option>
     </param>
   </inputs>
@@ -127,6 +127,6 @@
   <help><![CDATA[Digests a protein database in-silico.
 
 
-For more information, visit http://www.openms.de/documentation/UTILS_Digestor.html]]></help>
+For more information, visit http://www.openms.de/doxygen/release/2.6.0/html/UTILS_Digestor.html]]></help>
   <expand macro="references"/>
 </tool>