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Samebug tips

  1. ,
    via oracle.com by Unknown author

    An easy way to solve OutOfMemoryError in java is to increase the maximum heap size by using JVM options -Xmx512M, this will immediately solve your OutOfMemoryError.

  2. ,
    via Stack Overflow by Eugene Yokota

    In Eclipse : go to Run --> Run Configurations --> then select the project under maven build --> then select the tab "JRE" --> then enter -Xmx1024m.

    This should increase the memory heap for all the builds/projects. The above memory size is 1 GB.

Solutions on the web

via GitHub by cacampbell
, 1 year ago
Requested array size exceeds VM limit
via netbeans.org by Unknown author, 2 years ago
via GitHub by donghwan-shin
, 2 years ago
GC overhead limit exceeded
via Stack Overflow by dotwin
, 1 year ago
Requested array size exceeds VM limit
via jenkins-ci.org by Unknown author, 2 years ago
via Jenkins JIRA by Debashis Prusty, 1 year ago
GC overhead limit exceeded
java.lang.OutOfMemoryError: Requested array size exceeds VM limit	at java.util.Arrays.copyOf(Arrays.java:3332)	at java.lang.AbstractStringBuilder.expandCapacity(AbstractStringBuilder.java:137)	at java.lang.AbstractStringBuilder.ensureCapacityInternal(AbstractStringBuilder.java:121)	at java.lang.AbstractStringBuilder.append(AbstractStringBuilder.java:421)	at java.lang.StringBuilder.append(StringBuilder.java:136)	at htsjdk.samtools.SAMTextHeaderCodec.advanceLine(SAMTextHeaderCodec.java:131)	at htsjdk.samtools.SAMTextHeaderCodec.decode(SAMTextHeaderCodec.java:86)	at htsjdk.samtools.SAMTextReader.readHeader(SAMTextReader.java:200)	at htsjdk.samtools.SAMTextReader.(SAMTextReader.java:63)	at htsjdk.samtools.SAMTextReader.(SAMTextReader.java:73)	at htsjdk.samtools.SamReaderFactory$SamReaderFactoryImpl.open(SamReaderFactory.java:319)	at htsjdk.samtools.SamReaderFactory$SamReaderFactoryImpl.open(SamReaderFactory.java:145)	at picard.sam.CleanSam.doWork(CleanSam.java:81)	at picard.cmdline.CommandLineProgram.instanceMain(CommandLineProgram.java:208)	at picard.cmdline.PicardCommandLine.instanceMain(PicardCommandLine.java:95)	at picard.cmdline.PicardCommandLine.main(PicardCommandLine.java:105)