Java heap space

[pinkyrosewilson11]

While i running Lucene search library,i am facing a problem
Java heap space error.
what is the reason behind this

[Petr]

Hi. Can you show all stack trace ?
Usually If you have Error problems it relate with performance java. I guess you have OutOfMemoryError. If it is so you need improve memory for java. You can it for help key Xmx or your app has leak memory.

[pinkyrosewilson11]

hi ,


90168157 [main] ERROR cidms.pathway.index.IndexDTO - getAll -> java.lang.OutOfMemoryError: Java heap space
90168969 [main] ERROR cidms.pathway.index.proteingene.ProteinGeneIndex - document -> Java heap space
90168969 [main] INFO cidms.pathway.index.proteingene.ProteinGeneDBA - (19494) getProteinGeneDetails -> CSN5_HUMAN
90194422 [main] ERROR cidms.pathway.index.proteingene.ProteinGeneDBA - setInteractionDetails -> Java heap space
90198516 [main] INFO cidms.pathway.index.proteingene.ProteinGeneDBA - (19493) getProteinGeneDetails -> CREB1_HUMAN
90229469 [main] ERROR cidms.pathway.index.IndexDTO - getAll -> java.lang.OutOfMemoryError: Java heap space
90229485 [main] INFO cidms.pathway.index.proteingene.ProteinGeneDBA - (19492) getProteinGeneDetails -> CAH9_HUMAN
90253407 [main] ERROR cidms.pathway.index.proteingene.ProteinGeneDBA - setInteractionDetails -> Java heap space
90256735 [main] INFO cidms.pathway.index.proteingene.ProteinGeneDBA - (19491) getProteinGeneDetails -> CXCR4_HUMAN
90287063 [main] ERROR cidms.pathway.index.proteingene.ProteinGeneDBA - setInteractionDetails -> Java heap space
90291016 [main] INFO cidms.pathway.index.proteingene.ProteinGeneDBA - (19490) getProteinGeneDetails -> GTR1_HUMAN
90315563 [main] ERROR cidms.pathway.index.proteingene.ProteinGeneDBA - setInteractionDetails -> Java heap space
90319266 [main] INFO cidms.pathway.index.proteingene.ProteinGeneDBA - (19489) getProteinGeneDetails -> EGLN3_HUMAN
90348610 [main] ERROR cidms.pathway.index.proteingene.ProteinGeneDBA - setInteractionDetails -> Java heap space
90351953 [main] INFO cidms.pathway.index.proteingene.ProteinGeneDBA - (19488) getProteinGeneDetails -> ITB2_HUMAN
90377813 [main] ERROR cidms.pathway.index.proteingene.ProteinGeneDBA - setInteractionDetails -> Java heap space
90382344 [main] INFO cidms.pathway.index.proteingene.ProteinGeneDBA - (19487) getProteinGeneDetails -> NOS2_HUMAN
90408313 [main] ERROR cidms.pathway.index.proteingene.ProteinGeneDBA - setInteractionDetails -> Java heap space
90412250 [main] INFO cidms.pathway.index.proteingene.ProteinGeneDBA - (19486) getProteinGeneDetails -> NCOA1_HUMAN
90442375 [main] ERROR cidms.pathway.index.proteingene.ProteinGeneDBA - setInteractionDetails -> Java heap space
90447266 [main] INFO cidms.pathway.index.proteingene.ProteinGeneDBA - (19485) getProteinGeneDetails -> EPO_HUMAN
90472032 [main] ERROR cidms.pathway.index.proteingene.ProteinGeneDBA - setInteractionDetails -> Java heap space
90475766 [main] INFO cidms.pathway.index.proteingene.ProteinGeneDBA - (19484) getProteinGeneDetails -> LEP_HUMAN
90506125 [main] ERROR cidms.pathway.index.proteingene.ProteinGeneDBA - setInteractionDetails -> Java heap space
90509766 [main] INFO cidms.pathway.index.proteingene.ProteinGeneDBA - (19483) getProteinGeneDetails -> MDR1_HUMAN
90539532 [main] ERROR cidms.pathway.index.proteingene.ProteinGeneDBA - getPathwayDetails -> Java heap space
90581188 [main] DEBUG cidms.pathway.index.IndexMain - Index Main Start -> Sat Apr 30 12:02:31 KST 2011
90581188 [main] DEBUG cidms.pathway.index.IndexMain - Index Main End -> Sun May 01 13:12:12 KST 2011
90581188 [main] DEBUG cidms.pathway.index.IndexMain - Index Time -> 1509 minutes

[Petr]

Can you show code from IndexDTO class?
yes You need add memory for Java.

[doWhile]

As Petr mentioned, add more memory using the -Xmx parameter (for example, when running the app add the -Xmx512m to the command line parameters to increase the maximum memory to 512mb). It looks like you are reading genome/proteome data, which is a lot of information and typically requires more memory than the default maximum heap memory java provides.