public void testNcmlCached() throws IOException, InvalidRangeException {
System.out.println("\n TestNcmlAggExistingCached.acquire at " + new Date());
NetcdfFile ncfile = NetcdfDataset.acquireDataset(filename, null);
testAggCoordVar(ncfile);
ncfile.close();
System.out.println("\n TestNcmlAggExistingCached.acquire again at " + new Date());
ncfile = NetcdfDataset.acquireDataset(filename, null);
testAggCoordVar(ncfile);
ncfile.close();
try {
Thread.sleep(5000);
} catch (InterruptedException e) {
e.printStackTrace();
}
System.out.println("\n TestNcmlAggExistingCached.acquire after sleeping " + new Date());
ncfile = NetcdfDataset.acquireDataset(filename, null);
testAggCoordVar(ncfile);
ncfile.close();
NetcdfDataset.getNetcdfFileCache().clearCache(false);
System.out.println("\n TestNcmlAggExistingCached.acquire after flushing cache " + new Date());
ncfile = NetcdfDataset.acquireDataset(filename, null);
testAggCoordVar(ncfile);
testAggCoordVarSubset(ncfile);
ncfile.close();
}
public void testScan() throws IOException, InvalidRangeException {
String xml =
"<?xml version='1.0' encoding='UTF-8'?>\n"
+ "<netcdf xmlns='http://www.unidata.ucar.edu/namespaces/netcdf/ncml-2.2'>\n"
+ " <variable name='time' type='int' shape='time'>\n"
+ " <attribute name='long_name' type='string' value='time coordinate' />\n"
+ " <attribute name='units' type='string' value='days since 2001-8-31 00:00:00 UTC' />\n"
+ " <values start='0' increment='10' />\n"
+ " </variable>\n"
+ " <aggregation dimName='time' type='joinNew'>\n"
+ " <variableAgg name='T'/>\n"
+ " <scan location='src/test/data/ncml/nc/' suffix='Dir.nc' subdirs='false'/>\n"
+ " </aggregation>\n"
+ "</netcdf>";
String filename = "file:./" + TestNcML.topDir + "aggSynScan.xml";
NetcdfFile ncfile = NcMLReader.readNcML(new StringReader(xml), null);
testDimensions(ncfile);
testCoordVar(ncfile);
testAggCoordVarScan(ncfile);
testReadData(ncfile, "T");
testReadSlice(ncfile, "T");
ncfile.close();
}
public void testNcmlDirect() throws IOException, InvalidRangeException {
NetcdfFile ncfile = NetcdfDataset.openDataset(filename, false, null);
System.out.println("\n TestNcmlAggExistingCached.open " + filename);
// System.out.println(" "+ ncfile);
testAggCoordVar(ncfile);
testAggCoordVarSubset(ncfile);
testAggCoordVarSubsetDefeatLocalCache(ncfile);
ncfile.close();
}
void writeNetCDF(String filename) {
try {
FileWriter2 writer = new FileWriter2(ds, filename, NetcdfFileWriter.Version.netcdf3);
NetcdfFile result = writer.write();
result.close();
JOptionPane.showMessageDialog(this, "File successfully written");
} catch (Exception ioe) {
JOptionPane.showMessageDialog(this, "ERROR: " + ioe.getMessage());
ioe.printStackTrace();
}
}
public void testNoCoord() throws IOException, InvalidRangeException {
String filename = "file:./" + TestNcML.topDir + "aggSynNoCoord.xml";
NetcdfFile ncfile = NcMLReader.readNcML(filename, null);
testDimensions(ncfile);
testCoordVar(ncfile);
testAggCoordVarNoCoord(ncfile);
testReadData(ncfile, "T");
testReadSlice(ncfile, "T");
ncfile.close();
}
private void read(
String filename, int ndims, int nvars, int ngatts, int natts, int nstructFields, int ngroups)
throws IOException {
NetcdfFile ncfile = NetcdfFile.open(filename);
Counter c = new Counter();
c.count(ncfile.getRootGroup());
if (false) {
filename = filename.substring(testDir.length());
filename = StringUtil2.replace(filename, '\\', "/");
System.out.println(
"read(testDir+\""
+ filename
+ "\","
+ c.ndims
+ ","
+ c.nvars
+ ","
+ c.ngatts
+ ","
+ c.natts
+ ","
+ c.nstructFields
+ ","
+ c.ngroups
+ ");");
ncfile.close();
return;
}
print(ndims, c.ndims);
print(nvars, c.nvars);
print(ngatts, c.ngatts);
print(natts, c.natts);
print(nstructFields, c.nstructFields);
print(ngroups, c.ngroups);
System.out.println(" " + filename);
ncfile.close();
}
public void testReadStandardVar() throws Exception {
ncfileRead = NetcdfFile.open(filename);
dsRead = NetcdfDataset.openDataset(filename);
readDouble();
readByte2Short();
readByte();
readShortMissing();
readShort2FloatMissing();
readDoubleMissing();
ncfileRead.close();
dsRead.close();
}
public void test1() throws IOException, InvalidRangeException {
String filename = "file:./" + TestNcML.topDir + "aggSynthetic.xml";
NetcdfFile ncfile = NcMLReader.readNcML(filename, null);
Variable v = ncfile.findVariable("time");
assert v != null;
String testAtt = ncfile.findAttValueIgnoreCase(v, "units", null);
assert testAtt != null;
assert testAtt.equals("months since 2000-6-16 6:00");
testDimensions(ncfile);
testCoordVar(ncfile);
testAggCoordVar(ncfile);
testReadData(ncfile, "T");
testReadSlice(ncfile, "T");
ncfile.close();
}
public void testRename() throws IOException, InvalidRangeException {
String xml =
"<?xml version='1.0' encoding='UTF-8'?>\n"
+ "<netcdf xmlns='http://www.unidata.ucar.edu/namespaces/netcdf/ncml-2.2'>\n"
+ " <variable name='Temperature' orgName='T' />\n"
+ " <aggregation dimName='time' type='joinNew'>\n"
+ " <variableAgg name='T'/>\n"
+ " <scan location='src/test/data/ncml/nc/' suffix='Dir.nc' subdirs='false'/>\n"
+ " </aggregation>\n"
+ "</netcdf>";
String filename = "file:./" + TestNcML.topDir + "aggSynRename.xml";
NetcdfFile ncfile = NcMLReader.readNcML(new StringReader(xml), null);
testDimensions(ncfile);
testCoordVar(ncfile);
testAggCoordVarNoCoordsDir(ncfile);
testReadData(ncfile, "Temperature");
testReadSlice(ncfile, "Temperature");
ncfile.close();
}
private void compareDataset(CompareDialog.Data data) {
if (data.name == null) return;
NetcdfFile compareFile = null;
try {
compareFile = NetcdfDataset.openFile(data.name, null);
Formatter f = new Formatter();
CompareNetcdf2 cn = new CompareNetcdf2(f, data.showCompare, data.showDetails, data.readData);
if (data.howMuch == CompareDialog.HowMuch.All) cn.compare(ds, compareFile);
else {
NestedTable nested = nestedTableList.get(0);
Variable org = getCurrentVariable(nested.table);
if (org == null) return;
Variable ov = compareFile.findVariable(org.getFullNameEscaped());
if (ov != null) cn.compareVariable(org, ov);
}
infoTA.setText(f.toString());
infoTA.gotoTop();
infoWindow.setTitle("Compare");
infoWindow.show();
} catch (Throwable ioe) {
ByteArrayOutputStream bos = new ByteArrayOutputStream(10000);
ioe.printStackTrace(new PrintStream(bos));
infoTA.setText(bos.toString());
infoTA.gotoTop();
infoWindow.show();
} finally {
if (compareFile != null)
try {
compareFile.close();
} catch (Exception eek) {
}
}
}
public void testNC3Read() throws IOException {
NetcdfFile ncfile = TestDir.openFileLocal("testWrite.nc");
assert (null != ncfile.findDimension("lat"));
assert (null != ncfile.findDimension("lon"));
Variable temp = null;
assert (null != (temp = ncfile.findVariable("temperature")));
// read entire array
Array A;
try {
A = temp.read();
} catch (IOException e) {
System.err.println("ERROR reading file");
assert (false);
return;
}
assert (A.getRank() == 2);
int i, j;
Index ima = A.getIndex();
int[] shape = A.getShape();
assert shape[0] == 64;
assert shape[1] == 128;
for (i = 0; i < shape[0]; i++) {
for (j = 0; j < shape[1]; j++) {
double dval = A.getDouble(ima.set(i, j));
assert (dval == (double) (i * 1000000 + j * 1000)) : dval;
}
}
// read part of array
int[] origin2 = new int[2];
int[] shape2 = new int[2];
shape2[0] = 1;
shape2[1] = temp.getShape()[1];
try {
A = temp.read(origin2, shape2);
} catch (InvalidRangeException e) {
System.err.println("ERROR reading file " + e);
assert (false);
return;
} catch (IOException e) {
System.err.println("ERROR reading file");
assert (false);
return;
}
assert (A.getRank() == 2);
for (j = 0; j < shape2[1]; j++) {
assert (A.getDouble(ima.set(0, j)) == (double) (j * 1000));
}
// rank reduction
Array Areduce = A.reduce();
Index ima2 = Areduce.getIndex();
assert (Areduce.getRank() == 1);
for (j = 0; j < shape2[1]; j++) {
assert (Areduce.getDouble(ima2.set(j)) == (double) (j * 1000));
}
// read char variable
Variable c = null;
assert (null != (c = ncfile.findVariable("svar")));
try {
A = c.read();
} catch (IOException e) {
assert (false);
}
assert (A instanceof ArrayChar);
ArrayChar ac = (ArrayChar) A;
String val = ac.getString(ac.getIndex());
assert val.equals("Testing 1-2-3") : val;
// System.out.println( "val = "+ val);
// read char variable 2
Variable c2 = null;
assert (null != (c2 = ncfile.findVariable("svar2")));
try {
A = c2.read();
} catch (IOException e) {
assert (false);
}
assert (A instanceof ArrayChar);
ArrayChar ac2 = (ArrayChar) A;
assert (ac2.getString().equals("Two pairs of ladies stockings!"));
// read String Array
Variable c3 = null;
assert (null != (c3 = ncfile.findVariable("names")));
try {
A = c3.read();
} catch (IOException e) {
assert (false);
}
assert (A instanceof ArrayChar);
ArrayChar ac3 = (ArrayChar) A;
ima = ac3.getIndex();
assert (ac3.getString(ima.set(0)).equals("No pairs of ladies stockings!"));
assert (ac3.getString(ima.set(1)).equals("One pair of ladies stockings!"));
assert (ac3.getString(ima.set(2)).equals("Two pairs of ladies stockings!"));
// read String Array - 2
Variable c4 = null;
assert (null != (c4 = ncfile.findVariable("names2")));
try {
A = c4.read();
} catch (IOException e) {
assert (false);
}
assert (A instanceof ArrayChar);
ArrayChar ac4 = (ArrayChar) A;
ima = ac4.getIndex();
assert (ac4.getString(0).equals("0 pairs of ladies stockings!"));
assert (ac4.getString(1).equals("1 pair of ladies stockings!"));
assert (ac4.getString(2).equals("2 pairs of ladies stockings!"));
// System.out.println( "ncfile = "+ ncfile);
ncfile.close();
System.out.println("**************TestRead done");
}
protected void tearDown() throws IOException {
ncfile.close();
}