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NOTICE: This version of the NSF Unidata web site (archive.unidata.ucar.edu) is no longer being updated.
Current content can be found at unidata.ucar.edu.
To learn about what's going on, see About the Archive Site.
Update:
This is how you can read the values from the sequence. Replace the
NCdumpW.printStructureData(new PrintWriter(System.out), nestedData);
with this
for (Member member : nestedData.getMembers()) {
String name = member.getName();
switch (member.getDataType()) {
case INT:
Integer value1 = nestedData.getScalarInt(member);
System.out.println(name + " (Integer) = " + value1);
break;
[... other types...]
case CHAR:
case STRING:
String value2 = nestedData.getScalarString(member);
System.out.println(name + " (String) = " + value2);
break;
default:
System.out.println(name + " unknown");
}
}
Netty
> Gesendet: Dienstag, 03. September 2019 um 09:20 Uhr
> Von: netty.jawn@xxxxxx
> An: netcdf-java@xxxxxxxxxxxxxxxx
> Betreff: Re: [netcdf-java] Reading sequences from BUFR with NetcdfDataset
>
> Hi John,
>
> many thanks for your help! You saved my day!
>
> All read data looks very well.
>
> BTW:
> The exception, which I found also happens in ToolsUI:
> - Open toolsUI-5.0.0.jar
> - Click Viewer
> - Enable Enhance
> - Open my BUFR file
> - Click on Show data as shown in the screenshot
>
> The full exception in the window is:
> java.lang.ClassCastException: ucar.ma2.ArrayObject$D1 cannot be cast to
> ucar.ma2.ArrayStructure
> at ucar.nc2.dataset.StructureDS.convert(StructureDS.java:268)
> at ucar.nc2.dataset.SequenceDS.read(SequenceDS.java:84)
> at ucar.nc2.ui.op.DatasetViewer.showData(DatasetViewer.java:566)
> at ucar.nc2.ui.op.DatasetViewer.access$1000(DatasetViewer.java:59)
> at
> ucar.nc2.ui.op.DatasetViewer$NestedTable$3.actionPerformed(DatasetViewer.java:416)
> at javax.swing.AbstractButton.fireActionPerformed(Unknown Source)
> at javax.swing.AbstractButton$Handler.actionPerformed(Unknown Source)
> at javax.swing.DefaultButtonModel.fireActionPerformed(Unknown Source)
> at javax.swing.DefaultButtonModel.setPressed(Unknown Source)
> at javax.swing.AbstractButton.doClick(Unknown Source)
> at javax.swing.plaf.basic.BasicMenuItemUI.doClick(Unknown Source)
> at javax.swing.plaf.basic.BasicMenuItemUI$Handler.mouseReleased(Unknown
> Source)
> at java.awt.Component.processMouseEvent(Unknown Source)
> at javax.swing.JComponent.processMouseEvent(Unknown Source)
> at java.awt.Component.processEvent(Unknown Source)
> at java.awt.Container.processEvent(Unknown Source)
> at java.awt.Component.dispatchEventImpl(Unknown Source)
> at java.awt.Container.dispatchEventImpl(Unknown Source)
> at java.awt.Component.dispatchEvent(Unknown Source)
> at java.awt.LightweightDispatcher.retargetMouseEvent(Unknown Source)
> at java.awt.LightweightDispatcher.processMouseEvent(Unknown Source)
> at java.awt.LightweightDispatcher.dispatchEvent(Unknown Source)
> at java.awt.Container.dispatchEventImpl(Unknown Source)
> at java.awt.Window.dispatchEventImpl(Unknown Source)
> at java.awt.Component.dispatchEvent(Unknown Source)
> at java.awt.EventQueue.dispatchEventImpl(Unknown Source)
> at java.awt.EventQueue.access$500(Unknown Source)
> at java.awt.EventQueue$3.run(Unknown Source)
> at java.awt.EventQueue$3.run(Unknown Source)
> at java.security.AccessController.doPrivileged(Native Method)
> at
> java.security.ProtectionDomain$JavaSecurityAccessImpl.doIntersectionPrivilege(Unknown
> Source)
> at
> java.security.ProtectionDomain$JavaSecurityAccessImpl.doIntersectionPrivilege(Unknown
> Source)
> at java.awt.EventQueue$4.run(Unknown Source)
> at java.awt.EventQueue$4.run(Unknown Source)
> at java.security.AccessController.doPrivileged(Native Method)
> at
> java.security.ProtectionDomain$JavaSecurityAccessImpl.doIntersectionPrivilege(Unknown
> Source)
> at java.awt.EventQueue.dispatchEvent(Unknown Source)
> at java.awt.EventDispatchThread.pumpOneEventForFilters(Unknown Source)
> at java.awt.EventDispatchThread.pumpEventsForFilter(Unknown Source)
> at java.awt.EventDispatchThread.pumpEventsForHierarchy(Unknown Source)
> at java.awt.EventDispatchThread.pumpEvents(Unknown Source)
> at java.awt.EventDispatchThread.pumpEvents(Unknown Source)
> at java.awt.EventDispatchThread.run(Unknown Source)
>
> Kind regards
>
> Netty
>
> Gesendet: Dienstag, 03. September 2019 um 03:55 Uhr
> Von: "John Caron" <jcaron1129@xxxxxxxxx>
> An: netty.jawn@xxxxxx
> Cc: "NetCDF-Java community" <netcdf-java@xxxxxxxxxxxxxxxx>
> Betreff: Re: [netcdf-java] Reading sequences from BUFR with NetcdfDataset
>
> Hi netty:
>
> Sorry for the crappy documents and confusion. Sequences are strange, they
> dont behave like normal Arrays. As sort-of described here:
>
> https://www.unidata.ucar.edu/software/netcdf-java/current/reference/Cookbook.html#readSequences
>
> you cant call read(), you can only call getStructureIterator() and iterate,
> because sequences dont have a fixed size. You have nested sequences: a BUFR
> file consists of a variable number of BUFR messages (top level sequence), and
> each BUFR message has a variable number of Long_time_period_or_displacement
> fields (nested sequence). Heres some code that can get you started:
>
> public void testReadSequenceEnhanced() throws IOException {try (NetcdfDataset
> ncd = NetcdfDataset.openDataset("yourFilename")) {SequenceDS record =
> (SequenceDS) ncd.findVariable("obs");
> try (StructureDataIterator iter = record.getStructureIterator()) {int
> recordCount = 0;while (iter.hasNext()) {StructureData sdata =
> iter.next();Assert.assertNotNull(sdata); recordCount++;
> ArraySequence nestedSequence =
> sdata.getArraySequence("Long_time_period_or_displacement");try
> (StructureDataIterator nestedIter =
> nestedSequence.getStructureDataIterator()) {int nestedCount = 0;while
> (nestedIter.hasNext()) {StructureData nestedData =
> nestedIter.next();Assert.assertNotNull(nestedData);NCdumpW.printStructureData(new
> PrintWriter(System.out), nestedData); nestedCount++;
> }Assert.assertEquals(1685, nestedCount); } }Assert.assertEquals(1,
> recordCount); } } }
>
> Theres also this doc that may be useful:
> https://www.unidata.ucar.edu/software/netcdf-java/current/reference/StructureData.html[https://www.unidata.ucar.edu/software/netcdf-java/current/reference/StructureData.html]
> Good luck!
>
> On Mon, Sep 2, 2019 at 8:18 AM <netty.jawn@xxxxxx[mailto:netty.jawn@xxxxxx]>
> wrote:Hi,
>
> I have to read the attached BUFR-File with netcdf-java and it works a little
> bit.
>
> I opened my BUFR-File with ToolsUI to examine the content. Here was the first
> surprise: The icon
> https://docs.unidata.ucar.edu/netcdf-java/5.0/userguide/images/netcdf-java/tutorial/cdmdatasets/enhanceButton.jpg[https://docs.unidata.ucar.edu/netcdf-java/5.0/userguide/images/netcdf-java/tutorial/cdmdatasets/enhanceButton.jpg]
> shows "add Coordinates..." as tooltip. But it is actually the enable/disable
> of the enhance-mode, as stated here
> https://docs.unidata.ucar.edu/netcdf-java/5.0/userguide/netcdf_dataset.html[https://docs.unidata.ucar.edu/netcdf-java/5.0/userguide/netcdf_dataset.html]
> The tooltip should be changed.
>
> Reading variables was easy thanks to the enhance-mode:
> try (NetcdfDataset ncFile = NetcdfDataset.openDataset(filename);) {
> VariableDS variable = (VariableDS)
> ncFile.findVariable("obs.Software_identification_and_version_number");
> System.out.println(variable.readScalarString());
> }
> Float and all other types are correctly enhanced.
>
> Naively I thought reading sequences is easy too. I have to read the sequence
> "obs.Long_time_period_or_displacement" (as an example). Aunt Google showed me
> the function "showNestedSequence" from
> https://www.unidata.ucar.edu/software/netcdf-java/current/reference/Cookbook.html[https://www.unidata.ucar.edu/software/netcdf-java/current/reference/Cookbook.html]
> (can't find it in the current documentation). This function shows me all
> values, but not enhanced. Furthermore 2 nested loops were used. I would
> prefer ONE loop (if possible).
>
> After (I think) thousands of failed attempts, I came to this
> try (NetcdfDataset ncFile = NetcdfDataset.openDataset(filename);) {
> VariableDS variable = (VariableDS)
> ncFile.findVariable("obs.Long_time_period_or_displacement");
> System.out.println("Type: " + variable.getDataType());
> Array value = variable.read();
> System.out.println("THIS LINE IS NOT PRINTED");
> }
> The following exception is thrown:
> java.lang.ClassCastException: class ucar.ma2.ArrayObject$D1 cannot be cast to
> class ucar.ma2.ArrayStructure (ucar.ma2.ArrayObject$D1 and
> ucar.ma2.ArrayStructure are in unnamed module of loader
> org.apache.catalina.loader.ParallelWebappClassLoader @ebbfb89)
> at ucar.nc2.dataset.StructureDS.convert(StructureDS.java:268)
> at ucar.nc2.dataset.SequenceDS.read(SequenceDS.java:84)
> at de.sample.BUFRTest.showNestedSequenceNew(BUFRTest.java:88)
> Line 88 is the "variable.read();".
> I called your netcdf-lib from a servlet, therefore the "org.apache.catalina",
> but this should not be the problem.
>
> So it seems this sentence is not correct:
> https://docs.unidata.ucar.edu/netcdf-java/5.0/userguide/netcdf_dataset.html[https://docs.unidata.ucar.edu/netcdf-java/5.0/userguide/netcdf_dataset.html]
> "Note that NetcdfDataset is a subclass of NetcdfFile, and so can be used
> wherever a NetcdfFile is used."
>
> Someone suggested to have a look at NCdumpW, which I also did, but this
> program does not enhance any values.
>
> Since I don't want to open my file as NetcdfDataset and again as NetcdfFile,
> I would try to open it as NetcdfFile and manually enhance the values. But no
> idea how to do this. Any good solution for my problem is also appreciated.
>
> Thanks
>
> Kind regards
>
> Netty_______________________________________________
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