Merge pull request #2 from bernt-matthias/CarlosHorro_sg_4022_ps_2014

detect oom errors as fatal_oom and not fatal
galaxyproteomics · Mar 15, 2021 · 7416940 · 7416940
2 parents d7c9057 + 95736b3
commit 7416940
Showing 1 changed file with 3 additions and 2 deletions.
diff --git a/tools/peptideshaker/macros_basic.xml b/tools/peptideshaker/macros_basic.xml
@@ -2,10 +2,11 @@
     <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" description="Out of memory"/>
+            <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" 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>