annotate macros_basic.xml @ 61:3ec27b4cee7c draft default tip

"planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/peptideshaker commit fc2810c412d9954fa584ae74497562b986c52764"

<macros>
    <xml name="stdio">
        <stdio>
            <exit_code range="1:" level="fatal" description="Job Failed" />
            <regex match="OutOfMemoryError" level="fatal_oom" description="Out of memory"/>
            <regex match="java.*Exception" level="fatal" description="Java Exception"/>
            <regex match="Could not reserve enough space for * object heap" level="fatal_oom" description="Out of memory"/>
            <regex match="Could not create the Java virtual machine" level="fatal" description="JVM Error"/>
            <regex match="PeptideShaker ran out of memory" level="fatal_oom" description="JVM Error"/>
            <regex match="CompomicsError" level="fatal" description="Compomics Error"/>
        </stdio>
    </xml>
    <token name="@SEARCHGUI_MAJOR_VERSION@">4</token>
    <token name="@SEARCHGUI_VERSION@">4.0.41</token>
    <token name="@SEARCHGUI_VERSION_SUFFIX@">1</token>
    <token name="@PEPTIDESHAKER_VERSION@">2.0.33</token>
    <token name="@PEPTIDESHAKER_VERSION_SUFFIX@">1</token>
    <xml name="citations">
        <citations>
            <citation type="doi">10.1186/1471-2105-12-70</citation>
            <citation type="doi">10.1002/pmic.201000595</citation>
            <citation type="doi">doi:10.1038/nbt.3109</citation>
        </citations>
    </xml>
</macros>