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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.


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),

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

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:



this looks like a bug in our code, ill let you know when i have a


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


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 =

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

init>(H5header.java:4137) at
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:

Ticket Details =================== Ticket ID: FUE-836943 Department:
Support netCDF Java Priority: Normal Status: Closed

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