Re: [netCDFJava #FUE-836943]: read ushort(*) vlen_t variable

Hi Bruno:

Yes, you're right, for some reason I am handling the case with only one vlen 
array differently. I will remove that special handling so that one can handle 
the returned Array uniformly.

John

On 11/25/2010 4:01 AM, Bruno Santos wrote:
> Hello John, I think that there are another problem... If I read one
> section with more than one sub-arrays all is perfect. But if I select
> only one sub-array the data.next() returns each value of this
> sub-array instead of the entire sub-array. With the following code if
> I the finalIndex and initialIndex are the same (for example 5) I get
> this error: Exception in thread "main" java.lang.ClassCastException:
> java.lang.Integer cannot be cast to ucar.ma2.Array at
> Simple_xy_rd.main(Simple_xy_rd.java:213) Java Result: 1 Thank you for
> your support,
>
> Bruno Santos
>
> Example: initialIndex = 5; finalIndex = 6; Array data =
> dataLevels.read(initialIndex + ":" + finalIndex + ",:");
> //NCdumpW.printArray(data, "read()",  new PrintWriter( System.out),
> null);
>
> System.out.println("Size: " + data.getSize());
> System.out.println("Data: " + data); // loop over outer dimension
>
> ArrayList<Point> points = new ArrayList<Point>();
>
> int x = 0; while (data.hasNext()) {
> System.out.println("Index: " + data.getIndex());
> System.out.println("Rank: " + data.getRank());
> System.out.println("Size: " + data.getSize());
> System.out.println("Shape: " + data.getShape().toString()); Array as
> = (Array) data.next(); // inner variable length array of short
> System.out.println(as);
>
>
> 2010/11/24 Unidata netCDF Java Support
> <address@hidden
> <mailto:address@hidden>>
>
> Hi Bruno:
>
> This should be fixed in latest release 4.2.20101124.1758. thanks for
> reporting it.
>
> ive added some docs on how to read vlen variables:
>
> http://www.unidata.ucar.edu/software/netcdf-java/reference/DataType.html
>
>  John
>
> > this looks like a bug in our code, ill let you know when i have a
> > fix.
> >
> > > Hello,
> > >
> > > I'm developing a data acquisition system with multiple data for
> > > each time stamp... Each time stamp have one array of shorts with
> > > variable lenght because the samples can have different lenght
> > > over the time. But I can't read the values from variable "levels"
> > > because its shape is -1... When I use the API read function I got
> > > the errors showed below. I'm using the last version of NetCDF
> > > Java Library.
> > >
> > > Can you help me to read a vlen_t variable with multiple data in
> > > Java? Thanks for your support,
> > >
> > > Bruno Santos
> > >
> > > P.S. Attached the .nc and .cdl files
> > >
> > > types:
> > >
> > > ushort(*) vlen_t;
> > >
> > > dimensions: acqtime = UNLIMITED ;
> > >
> > > variables: uint acqtime(acqtime) ; acqtime:long_name =
> > > "Acquisition time" ; (...) vlen_t levels(acqtime);
> > > levels:long_name = "Acquired values array" ;
> > >
> > >
> > > data: acqtime = 1,2,3,4,5,6,7,8,9,10;
> > > levels={1,1,1,2,3,4,5,6,7,8}, {2,2,2,3,4,5,6,7,8,9},
> > > {3,3,3,4,5,6,7,8,9,10}, {4,4,4,5,6,7,8,9,10,11},
> > > {5,5,5,6,7,8,9,10,11,12}, {6,6,6,7,8,9,10,11,12,13},
> > > {7,7,7,8,9,10,11,12,13,14}, {8,8,8,9,10,11,12,13,14,15},
> > > {9,9,9,10,11,12,13,14,15,16}, {10,10,10,11,12,13,14,15,16,17}; }
> > >
> > >
> > > ------------------------------- dataFile =
> > > NetcdfFile.open(filename, null);
> > >
> > > // Retrieve the variable named "data" Variable dataVar =
> > > dataFile.findVariable("levels");
> > >
> > > if (dataVar == null) { System.out.println("Cant find Variable
> > > data"); return; }
> > >
> > > try { Array data = dataVar.read(); } catch (IOException ioe) {
> > > System.out.println("trying to read " +  ioe); }
> > > __________________________________ Exception in thread "main"
> > > java.lang.ArrayIndexOutOfBoundsException: 1 at
> > > ucar.nc2.iosp.hdf5.Tiling.tile(Tiling.java:84) at
> > > ucar.nc2.iosp.hdf5.Tiling.order(Tiling.java:99) at
> > > ucar.nc2.iosp.hdf5.Tiling.compare(Tiling.java:113) at
> > > ucar.nc2.iosp.hdf5.H5header$DataBTree$Node.first(H5header.java:4265)
>
> > >
> > at
> > > ucar.nc2.iosp.hdf5.H5header$DataBTree$DataChunkIterator2.<
> > > init>(H5header.java:4137) at
> > > ucar.nc2.iosp.hdf5.H5header$DataBTree.getDataChunkIterator2(
> > > H5header.java:4118) at
> > > ucar.nc2.iosp.hdf5.H5tiledLayout.<init>(H5tiledLayout.java:90) at
> > > ucar.nc2.iosp.hdf5.H5iosp.readData(H5iosp.java:175) at
> > > ucar.nc2.iosp.hdf5.H5iosp.readData(H5iosp.java:121) at
> > > ucar.nc2.NetcdfFile.readData(NetcdfFile.java:1759) at
> > > ucar.nc2.Variable.reallyRead(Variable.java:809) at
> > > ucar.nc2.Variable._read(Variable.java:781) at
> > > ucar.nc2.Variable.read(Variable.java:659) at
> > > ucar.nc2.Variable.getScalarData(Variable.java:759) at
> > > ucar.nc2.Variable.readScalarByte(Variable.java:675) Java Result:
> > > 1
>
>
> Ticket Details =================== Ticket ID: FUE-836943 Department:
> Support netCDF Java Priority: Normal Status: Closed