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[THREDDS #GHR-456072]: nullPointerException in when accessing 4.3.15 GRIB featureCollection's

Remember that if you restart tomcat, PermGen problems should not happen.

--John

> Ethan,
> 
> I believe your first paragraph is getting toward the cause.
> 
> I shall try PermGen options and get back to you.
> 
> Here is the info from psiprobe:
> At this point the TDS is not running.
> 
> Memory utilization
> Current memory usage is       ++++++++++++     2.4%
> Free: 13.08 GB Total: 13.77 GB Max: 28.44 GB
> OS information
> JVM:  Java(TM) SE Runtime Environment  1.7.0_03-b04  Java HotSpot(TM)
> 64-Bit Server VM)
> OS: Linux (unknown) amd64 2.6.32-279.9.1.el6.x86_64
> Processors: 24
> Current time: Fri Feb 22 10:31:45 EST 2013
> 
> Container information
> Container: Apache Tomcat/7.0.27
> 
> -Dan
> 
> 
> On Wed, Feb 20, 2013 at 10:45 PM, Unidata THREDDS Support
> <address@hidden> wrote:
> > Hi Dan,
> >
> > What version of Tomcat and Java are you running?
> >
> > I see an "OutOfMemoryError: PermGen space" in the serverStartup.log file. 
> > There is some psiprobe code wound up in the stack. Is that the OOM error 
> > you mention? Have you increased the maximum amount of PermGen space allowed 
> > with a "-XX:MaxPermSize" java option? We have an FAQ with some PermGen 
> > information [1]. Not sure if this one is related to the same issues or not.
> >
> > In the threddsServlet.log file I'm seeing a NullPointerException. However, 
> > given the NPE stacktrace and the preceeding WARNing message [3], I'm 
> > wondering if there is a permission problem. Does the user that runs this 
> > Tomcat instance have permission to write in the content/thredds directory 
> > and/or the directory where the data files are located?
> >
> > If that is the issue, another option is to run the THREDDS Data Manager 
> > (TDM) [2]. The TDM is a stand-alone process that can run in the background 
> > to crawl data directories and keep indexes up to date. It can also notify 
> > the TDS when indexes have been updated.
> >
> > Let us know if any of that helps.
> >
> > Ethan
> >
> > Dan Swank wrote:
> >> Upon Ethan's request, here is the last two messages
> >> I sent to Caron, whom is out right now:
> >> I will be sending the full config & logs to Ethan
> >> in a separate message:
> >>
> >> ==== Begin FWD ==============================
> >>
> >> John
> >>
> >> I need to raise this thread after about 40 days of staleness.
> >> After wading through the docs regarding the feature collection
> >> and trying a few things, I just cannot get this working for our
> >> gfsanl dataset.  (Around L40 on catalog.xml).
> >>
> >> Attached tar.bz2 package contains configs & logs.
> >> The exception in featureCollection.xml* is different than before.
> >> However I had my psi probe come up with an OOM error.
> >> so it very well may still be sucking it dry.
> >>
> >> I have my opts set as  -Xms8192m -Xmx16384m
> >>
> >> Any help is appreciated.
> >>
> >>
> >> ==== next 
> >> ==================================================================
> >>
> >> John:
> >> I found that it didn't like my dateFormatMark
> >> ~ corrected that, it actually builds the .gbx9 indecies now,
> >> but the same NullPointerException  is occuring:
> >>
> >> java.lang.NullPointerException
> >> at 
> >> thredds.catalog.InvDatasetFcGrib.makeCatalogTop(InvDatasetFcGrib.java:449)
> >> at thredds.catalog.InvDatasetFcGrib.makeCatalog(InvDatasetFcGrib.java:373)
> >> at 
> >> thredds.servlet.DataRootHandler.makeDynamicCatalog(DataRootHandler.java:1469)
> >> at thredds.servlet.DataRootHandler.getCatalog(DataRootHandler.java:1432)
> >> at 
> >> thredds.server.catalogservice.LocalCatalogServiceController.handleRequestInternal(LocalCatalogServiceController.java:191)
> >> at 
> >> org.springframework.web.servlet.mvc.AbstractController.handleRequest(AbstractController.java:153)
> >> at 
> >> org.springframework.web.servlet.mvc.SimpleControllerHandlerAdapter.handle(SimpleControllerHandlerAdapter.java:48)
> >> at 
> >> org.springframework.web.servlet.DispatcherServlet.doDispatch(DispatcherServlet.java:923)
> >> at 
> >> org.springframework.web.servlet.DispatcherServlet.doService(DispatcherServlet.java:852)
> >> ~ more ~
> >>
> >> Also changed the path so it only scans 1 month.
> >>
> >>
> >> =======================================
> >> Dan Swank
> >> NCDC-NOMADS Project
> >> Team ERT/STG
> >
> > ============================
> >
> > [1] 
> > http://www.unidata.ucar.edu/projects/THREDDS/tech/tds4.2/faq.html#permGenOutOfMemoryError
> >
> > [2] 
> > http://www.unidata.ucar.edu/projects/THREDDS/tech/tds4.3/reference/collections/TDM.html
> >
> > [3]
> > 2013-01-16T15:55:06.525 -0500 [     12250][       7] INFO  - threddsServlet 
> > - Remote host: 127.0.0.1 - Request: "GET 
> > /thredds/catalog/gribFC/gfsanlfc/catalog.html HTTP/1.1"
> > 2013-01-16T15:55:06.533 -0500 [     12258][       7] WARN  - 
> > ucar.nc2.util.DiskCache2 - Cant create directories for file 
> > .../content/thredds/cache/GribIndex/global/nomads/nexus/gfsanl
> > 2013-01-16T15:55:33.820 -0500 [     39545][       7] ERROR - 
> > thredds.server.catalogservice.LocalCatalogServiceController - 
> > handleRequestInternal(): Problem handling request.
> > java.lang.NullPointerException
> >   at thredds.filesystem.ControllerOS$Traversal.<init>(ControllerOS.java:245)
> >   at 
> > thredds.filesystem.ControllerOS$MFileIteratorAll.getNextIterator(ControllerOS.java:218)
> >   at 
> > thredds.filesystem.ControllerOS$MFileIteratorAll.getNextIterator(ControllerOS.java:224)
> >   at 
> > thredds.filesystem.ControllerOS$MFileIteratorAll.getNextIterator(ControllerOS.java:224)
> >   at 
> > thredds.filesystem.ControllerOS$MFileIteratorAll.hasNext(ControllerOS.java:196)
> >   at 
> > thredds.filesystem.ControllerOS$FilteredIterator.nextFilteredFile(ControllerOS.java:137)
> >   at 
> > thredds.filesystem.ControllerOS$FilteredIterator.hasNext(ControllerOS.java:119)
> >   at 
> > thredds.inventory.MFileCollectionManager.reallyScan(MFileCollectionManager.java:517)
> >   at 
> > thredds.inventory.MFileCollectionManager.scanFirstTime(MFileCollectionManager.java:478)
> >   at 
> > thredds.inventory.MFileCollectionManager.getFiles(MFileCollectionManager.java:440)
> >   at 
> > thredds.inventory.TimePartitionCollection.makePartitionsByDays(TimePartitionCollection.java:254)
> >   at 
> > thredds.inventory.TimePartitionCollection.makePartitions(TimePartitionCollection.java:93)
> >   at 
> > ucar.nc2.grib.grib1.Grib1TimePartitionBuilder.needsUpdate(Grib1TimePartitionBuilder.java:137)
> >   at 
> > ucar.nc2.grib.grib1.Grib1TimePartitionBuilder.readOrCreateIndex(Grib1TimePartitionBuilder.java:123)
> >   at 
> > ucar.nc2.grib.grib1.Grib1TimePartitionBuilder.factory(Grib1TimePartitionBuilder.java:73)
> >   at ucar.nc2.grib.TimePartition.factory(TimePartition.java:96)
> >   at 
> > thredds.catalog.InvDatasetFcGrib.updateCollection(InvDatasetFcGrib.java:220)
> >   at thredds.catalog.InvDatasetFcGrib.checkState(InvDatasetFcGrib.java:205)
> >   at thredds.catalog.InvDatasetFcGrib.makeCatalog(InvDatasetFcGrib.java:364)
> >   at 
> > thredds.servlet.DataRootHandler.makeDynamicCatalog(DataRootHandler.java:1469)
> >   at thredds.servlet.DataRootHandler.getCatalog(DataRootHandler.java:1432)
> >   ...
> >
> >
> >
> > Ticket Details
> > ===================
> > Ticket ID: GHR-456072
> > Department: Support THREDDS
> > Priority: High
> > Status: Open
> >
> 
> 
> 
> --
> =======================================
> Dan Swank
> NCDC-NOMADS Project
> Team ERT/STG
> (NCDC Government Contractor)
> Data Access & Applications Branch
> Veach-Baley Federal Building
> 151 Patton Avenue
> Asheville, NC 28801-5001
> Email: address@hidden
> Phone: 828-271-4007
> ============================================
> Any opinions expressed in this message are mine personally and
> do not represent any position from STG, ERT, NCDC, or NOAA
> ============================================
> 
> 


Ticket Details
===================
Ticket ID: GHR-456072
Department: Support THREDDS
Priority: High
Status: Open