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[netCDFJava #NNB-487385]: NcML aggregation code fails after recent Java NetCDF library upgrade

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  • Subject: [netCDFJava #NNB-487385]: NcML aggregation code fails after recent Java NetCDF library upgrade
  • Date: Fri, 14 Jun 2013 09:39:39 -0600
Hi Tommy,

I'm assuming that you are running a 4.3 release of the TDS, since you've 
mentioned updating jar files.  I can take a look at the failure if you follow 
these steps to get a clean set of logs that capture the problem:

Stop the tomcat server.
Install the latest release if needed.
Remove/copy all files from {tomcat}/logs and {tomcat}/content/thredds/logs
Restart the server
Make the problem happen
Zip up everything in {tomcat}/logs and {tomcat}/content/thredds/logs.
Send the logs and a detailed description of what you do to make the problem 
happen, and what the problem looks like. If it took a while to get the problem 
to happen, note what time it happened so that we can correlate with the logs.

Thanks,
  Lansing Madry
  Unidata
  Boulder, Colorado

> Hi guys - just updated my ncIdv.jar and some union aggregations
> started failing with below exception, any ideas?
> 
> [java] 09:49:19.987 [Thread-113] INFO
> t.i.CollectionManagerAbstract - log: HEY cleanName
> [java] 09:49:19.988 [Thread-113] ERROR
> e.w.s.m.d.hydra.SuomiNPPDataSource - setup: cannot create NetCDF reader
> for files selected
> [java] 09:49:19.989 [Thread-113] WARN
> e.w.s.m.d.hydra.SuomiNPPDataSource - log: java.lang.NullPointerException
> [java] 09:49:19.989 [Thread-113] WARN
> e.w.s.m.d.hydra.SuomiNPPDataSource - log:     at
> thredds.inventory.CollectionManagerAbstract.cleanName(CollectionManagerAbstract.java:56)
> [java] 09:49:19.989 [Thread-113] WARN
> e.w.s.m.d.hydra.SuomiNPPDataSource - log:     at
> thredds.inventory.CollectionManagerAbstract.<init>(CollectionManagerAbstract.java:70)
> [java] 09:49:19.990 [Thread-113] WARN
> e.w.s.m.d.hydra.SuomiNPPDataSource - log:     at
> thredds.inventory.MFileCollectionManager.<init>(MFileCollectionManager.java:236)
> [java] 09:49:19.990 [Thread-113] WARN
> e.w.s.m.d.hydra.SuomiNPPDataSource - log:     at
> thredds.inventory.MFileCollectionManager.openWithRecheck(MFileCollectionManager.java:91)
> [java] 09:49:19.990 [Thread-113] WARN
> e.w.s.m.d.hydra.SuomiNPPDataSource - log:     at
> ucar.nc2.ncml.Aggregation.<init>(Aggregation.java:176)
> [java] 09:49:19.990 [Thread-113] WARN
> e.w.s.m.d.hydra.SuomiNPPDataSource - log:     at
> ucar.nc2.ncml.AggregationUnion.<init>(AggregationUnion.java:56)
> [java] 09:49:19.991 [Thread-113] WARN
> e.w.s.m.d.hydra.SuomiNPPDataSource - log:     at
> ucar.nc2.ncml.NcMLReader.readAgg(NcMLReader.java:1256)
> [java] 09:49:19.991 [Thread-113] WARN
> e.w.s.m.d.hydra.SuomiNPPDataSource - log:     at
> ucar.nc2.ncml.NcMLReader.readNetcdf(NcMLReader.java:491)
> [java] 09:49:19.991 [Thread-113] WARN
> e.w.s.m.d.hydra.SuomiNPPDataSource - log:     at
> ucar.nc2.ncml.NcMLReader.readNcML(NcMLReader.java:438)
> [java] 09:49:19.992 [Thread-113] WARN
> e.w.s.m.d.hydra.SuomiNPPDataSource - log:     at
> ucar.nc2.ncml.NcMLReader.readNcML(NcMLReader.java:351)
> [java] 09:49:19.992 [Thread-113] WARN
> e.w.s.m.d.hydra.SuomiNPPDataSource - log:     at
> ucar.nc2.ncml.NcMLReader.readNcML(NcMLReader.java:283)
> [java] 09:49:19.992 [Thread-113] WARN
> e.w.s.m.d.hydra.SuomiNPPDataSource - log:     at
> edu.wisc.ssec.mcidasv.data.hydra.NetCDFFile.<init>(NetCDFFile.java:89)
> [java] 09:49:19.992 [Thread-113] WARN
> e.w.s.m.d.hydra.SuomiNPPDataSource - log:     at
> edu.wisc.ssec.mcidasv.data.hydra.SuomiNPPDataSource.setup(SuomiNPPDataSource.java:458)
> [java] 09:49:19.993 [Thread-113] WARN
> e.w.s.m.d.hydra.SuomiNPPDataSource - log:     at
> edu.wisc.ssec.mcidasv.data.hydra.SuomiNPPDataSource.<init>(SuomiNPPDataSource.java:207)
> [java] 09:49:19.993 [Thread-113] WARN
> e.w.s.m.d.hydra.SuomiNPPDataSource - log:     at
> edu.wisc.ssec.mcidasv.data.hydra.SuomiNPPDataSource.<init>(SuomiNPPDataSource.java:181)
> [java] 09:49:19.993 [Thread-113] WARN
> e.w.s.m.d.hydra.SuomiNPPDataSource - log:     at
> sun.reflect.NativeConstructorAccessorImpl.newInstance0(Native Method)
> [java] 09:49:19.993 [Thread-113] WARN
> e.w.s.m.d.hydra.SuomiNPPDataSource - log:     at
> sun.reflect.NativeConstructorAccessorImpl.newInstance(NativeConstructorAccessorImpl.java:39)
> [java] 09:49:19.994 [Thread-113] WARN
> e.w.s.m.d.hydra.SuomiNPPDataSource - log:     at
> sun.reflect.DelegatingConstructorAccessorImpl.newInstance(DelegatingConstructorAccessorImpl.java:27)
> [java] 09:49:19.994 [Thread-113] WARN
> e.w.s.m.d.hydra.SuomiNPPDataSource - log:     at
> java.lang.reflect.Constructor.newInstance(Constructor.java:513)
> [java] 09:49:19.994 [Thread-113] WARN
> e.w.s.m.d.hydra.SuomiNPPDataSource - log:     at
> ucar.unidata.data.DataManager.createDataSource(DataManager.java:1590)
> [java] 09:49:19.994 [Thread-113] WARN
> e.w.s.m.d.hydra.SuomiNPPDataSource - log:     at
> ucar.unidata.idv.IntegratedDataViewer.createDataSource(IntegratedDataViewer.java:1980)
> [java] 09:49:19.995 [Thread-113] WARN
> e.w.s.m.d.hydra.SuomiNPPDataSource - log:     at
> ucar.unidata.idv.IntegratedDataViewer.makeDataSource(IntegratedDataViewer.java:1897)
> [java] 09:49:19.995 [Thread-113] WARN
> e.w.s.m.d.hydra.SuomiNPPDataSource - log:     at
> ucar.unidata.idv.IntegratedDataViewer.makeDataSource(IntegratedDataViewer.java:1831)
> [java] 09:49:19.995 [Thread-113] WARN
> e.w.s.m.d.hydra.SuomiNPPDataSource - log:     at
> ucar.unidata.idv.IntegratedDataViewer.makeDataSource(IntegratedDataViewer.java:1804)
> [java] 09:49:19.995 [Thread-113] WARN
> e.w.s.m.d.hydra.SuomiNPPDataSource - log:     at
> ucar.unidata.idv.chooser.IdvChooser.makeDataSource(IdvChooser.java:943)
> [java] 09:49:19.996 [Thread-113] WARN
> e.w.s.m.d.hydra.SuomiNPPDataSource - log:     at
> ucar.unidata.idv.chooser.FileChooser.selectFilesInner(FileChooser.java:656)
> [java] 09:49:19.996 [Thread-113] WARN
> e.w.s.m.d.hydra.SuomiNPPDataSource - log:     at
> edu.wisc.ssec.mcidasv.chooser.SuomiNPPChooser.selectFilesInner(SuomiNPPChooser.java:105)
> [java] 09:49:19.996 [Thread-113] WARN
> e.w.s.m.d.hydra.SuomiNPPDataSource - log:     at
> ucar.unidata.idv.chooser.FileChooser.selectFiles(FileChooser.java:525)
> [java] 09:49:19.996 [Thread-113] WARN
> e.w.s.m.d.hydra.SuomiNPPDataSource - log:     at
> edu.wisc.ssec.mcidasv.chooser.FileChooser.doLoadInThread(FileChooser.java:229)
> [java] 09:49:19.996 [Thread-113] WARN
> e.w.s.m.d.hydra.SuomiNPPDataSource - log:     at
> sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
> [java] 09:49:19.997 [Thread-113] WARN
> e.w.s.m.d.hydra.SuomiNPPDataSource - log:     at
> sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:39)
> [java] 09:49:19.997 [Thread-113] WARN
> e.w.s.m.d.hydra.SuomiNPPDataSource - log:     at
> sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:25)
> [java] 09:49:19.997 [Thread-113] WARN
> e.w.s.m.d.hydra.SuomiNPPDataSource - log:     at
> java.lang.reflect.Method.invoke(Method.java:597)
> [java] 09:49:19.997 [Thread-113] WARN
> e.w.s.m.d.hydra.SuomiNPPDataSource - log:     at
> ucar.unidata.util.Misc$2.run(Misc.java:1221)
> [java] 09:49:19.998 [Thread-113] WARN
> e.w.s.m.d.hydra.SuomiNPPDataSource - log:     at
> ucar.unidata.util.Misc$3.run(Misc.java:1249)
> 
> --
> Tommy Jasmin
> Space Science and Engineering Center
> University of Wisconsin, Madison
> 1225 West Dayton Street, Madison, WI 53706
> 
> 

-Lansing Madry
  Unidata
  Boulder, Colorado

Ticket Details
===================
Ticket ID: NNB-487385
Department: Support netCDF Java
Priority: Normal
Status: Open