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comparison macros.xml @ 52:864bd76db767 draft

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planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/peptideshaker commit 9dc7c9c3ebd64f14c0ce95a0dc190361a90fa4fb
author galaxyp
date Wed, 16 Jan 2019 08:18:39 -0500
parents 66690eb50a32
children
comparison
equal deleted inserted replaced
51:66690eb50a32 52:864bd76db767
1 <macros> 1 <macros>
2 <import>macros_modifications.xml</import>
2 <xml name="stdio"> 3 <xml name="stdio">
3 <stdio> 4 <stdio>
4 <exit_code range="1:" level="fatal" description="Job Failed" /> 5 <exit_code range="1:" level="fatal" description="Job Failed" />
5 <!-- <regex match="java.lang.OutOfMemoryError" level="fatal_oom" description="Java memory Exception"/> 6 <!-- <regex match="java.lang.OutOfMemoryError" level="fatal_oom" description="Java memory Exception"/>
6 <regex match="Could not allocate metaspace" level="fatal_oom" description="Java memory Exception"/> 7 <regex match="Could not allocate metaspace" level="fatal_oom" description="Java memory Exception"/>
138 </section> 139 </section>
139 140
140 <section name="protein_modification_options" expanded="false" title="Protein Modification Options"> 141 <section name="protein_modification_options" expanded="false" title="Protein Modification Options">
141 <param name="fixed_modifications" type="select" label="Fixed Modifications" multiple="true" 142 <param name="fixed_modifications" type="select" label="Fixed Modifications" multiple="true"
142 help="Occurs in known places on peptide sequence. Hold the appropriate key while clicking to select multiple items"> 143 help="Occurs in known places on peptide sequence. Hold the appropriate key while clicking to select multiple items">
143 <options from_file="searchgui_mods.loc"> 144 <expand macro="modifications"/>
144 <column name="name" index="0" />
145 <column name="value" index="0" />
146 </options>
147 </param> 145 </param>
148 <param name="variable_modifications" type="select" label="Variable Modifications" multiple="true" 146 <param name="variable_modifications" type="select" label="Variable Modifications" multiple="true"
149 help="Can occur anywhere on the peptide sequence; adds additional error to search score. Hold the appropriate key while clicking to select multiple items"> 147 help="Can occur anywhere on the peptide sequence; adds additional error to search score. Hold the appropriate key while clicking to select multiple items">
150 <options from_file="searchgui_mods.loc"> 148 <expand macro="modifications"/>
151 <column name="name" index="0" />
152 <column name="value" index="0" />
153 </options>
154 </param> 149 </param>
155 </section> 150 </section>
156 151
157 </xml> 152 </xml>
158 153