public void WriteAndReadOneString()
{
try
{
string[] str = new string[] { "test" };
string filename = Path.Combine(folder, "testOneStringList.H5");
// Open file and write the strings
var fileId = Hdf5.CreateFile(filename);
Assert.IsTrue(fileId > 0);
Hdf5.WriteStrings(fileId, "/test", str);
// Read the strings and close file
Assert.IsTrue(fileId > 0);
IEnumerable <string> strs2 = Hdf5.ReadStrings(fileId, "/test", "").result;
Assert.IsTrue(strs2.Count() == 1);
foreach (var s in strs2)
{
Assert.IsTrue(str[0] == s);
}
;
Hdf5.CloseFile(fileId);
}
catch (Exception ex)
{
CreateExceptionAssert(ex);
}
}
public void WriteAndOverrideChunkedDataset()
{
var data = CreateDataset();
string filename = Path.Combine(folder, "testOverrideChunks.H5");
string groupName = "/test";
string datasetName = "Data";
//create
var fileId = Hdf5.CreateFile(filename);
Assert.IsTrue(fileId > 0);
var groupId = Hdf5.CreateOrOpenGroup(fileId, groupName);
Assert.IsTrue(groupId >= 0);
using (var chunkedDset = new ChunkedDataset <double>(datasetName, groupId))
{
chunkedDset.AppendOrCreateDataset(data);
}
Hdf5.CloseFile(fileId);
//read
fileId = Hdf5.OpenFile(filename);
var dataRead = Hdf5.ReadDatasetToArray <double>(fileId, string.Concat(groupName, "/", datasetName));
Hdf5.CloseFile(fileId);
CompareDatasets(dataRead.result as double[, ], data);
}
public void WriteAndReadOneUnicodeString()
{
try
{
string test = "Γαζέες καὶ μυρτιὲς δὲν θὰ βρῶ πιὰ στὸ χρυσαφὶ ξέφωτο";
string filename = Path.Combine(folder, "testUnicodeString.H5");
var fileId = Hdf5.CreateFile(filename);
Hdf5.WriteUnicodeString(fileId, "/test", test);
Assert.IsTrue(Hdf5.CloseFile(fileId) >= 0);
fileId = Hdf5.OpenFile(filename);
string readStr = Hdf5.ReadUnicodeString(fileId, "/test");
//var readStr = Hdf5.ReadStrings(fileId, "/test");
Assert.IsTrue(test == readStr);
Assert.IsTrue(Hdf5.CloseFile(fileId) >= 0);
Hdf5.CloseFile(fileId);
}
catch (Exception ex)
{
CreateExceptionAssert(ex);
}
}
public KamaAcquisitionFile(string filename, AcquisitionInterface acquisitionInterface, ILogger logger,
int eitDefaultChunkSize = 24000, int ecgDefaultChunkSize = 10)
{
FileName = filename;
Logger = logger;
EITDefaultChunkSize = eitDefaultChunkSize;
ECGDefaultChunkSize = ecgDefaultChunkSize;
RecordNumber = 1;
H5E.set_auto(H5E.DEFAULT, null, IntPtr.Zero);
fileId = Hdf5.CreateFile(filename);
groupRoot = fileId;
groupEIT = Hdf5.CreateOrOpenGroup(groupRoot, "eit");
ProcedureInformation = new ProcedureInformation(fileId, groupRoot, logger)
{
ProcedureDirectory = Path.GetDirectoryName(filename),
StartDateTime = DateTime.Now,
EndDateTime = DateTime.Now
};
SystemInformation = new SystemInformation(fileId, groupRoot, logger);
SystemInformation.SystemType = acquisitionInterface.ToString();
// InjectionGroup = new InjectionGroup(fileId, groupRoot);
CalibrationGroup = new CalibrationGroup(fileId, groupRoot, logger);
SystemEvents = new SystemEventGroup(fileId, groupRoot, logger);
RPosition = new RPositionGroup(fileId, groupRoot, logger);
Tags = new TagsGroup(fileId, groupRoot, logger);
UserEventsGroup = new UserEventsGroup(fileId, groupRoot, logger);
}
public void WriteAndReadStructsWithDatetime()
{
string filename = Path.Combine(folder, "testCompounds.H5");
try
{
var fileId = Hdf5.CreateFile(filename);
Assert.IsTrue(fileId > 0);
var status = Hdf5.WriteCompounds(fileId, "/test", wDataList);
Hdf5.CloseFile(fileId);
}
catch (Exception ex)
{
CreateExceptionAssert(ex);
}
try
{
var fileId = Hdf5.OpenFile(filename);
Assert.IsTrue(fileId > 0);
var cmpList = Hdf5.ReadCompounds <WData>(fileId, "/test").ToArray();
Hdf5.CloseFile(fileId);
CollectionAssert.AreEqual(wDataList, cmpList);
}
catch (Exception ex)
{
CreateExceptionAssert(ex);
}
}
public void WriteAndReadAttribute()
{
string filename = Path.Combine(folder, "testAttribute.H5");
try
{
var fileId = Hdf5.CreateFile(filename);
Assert.IsTrue(fileId > 0);
var groupId = Hdf5.CreateOrOpenGroup(fileId, "test");
DateTime nowTime = DateTime.Now;
Hdf5.WriteAttribute(groupId, "time", nowTime);
Hdf5.WriteAttributes <DateTime>(groupId, "times", new List <DateTime> {
nowTime, nowTime.AddDays(1)
}.ToArray());
DateTime readTime = Hdf5.ReadAttribute <DateTime>(groupId, "time");
var allTimes = Hdf5.ReadAttributes <DateTime>(groupId, "times");
Assert.IsTrue(readTime == nowTime);
Assert.IsTrue(Hdf5.CloseFile(fileId) == 0);
}
catch (Exception ex)
{
CreateExceptionAssert(ex);
}
}
public void WriteAndReadListOfStrings()
{
try
{
List <string> strs = new List <string>();
strs.Add("t");
strs.Add("tst");
strs.Add("test1");
strs.Add("small test");
string filename = Path.Combine(folder, "testStringList.H5");
// Open file and write the strings
var fileId = Hdf5.CreateFile(filename);
Assert.IsTrue(fileId > 0);
Hdf5.WriteStrings(fileId, "/test", strs);
// Read the strings and close file
Assert.IsTrue(fileId > 0);
IEnumerable <string> strs2 = Hdf5.ReadStrings(fileId, "/test");
Assert.IsTrue(strs.Count() == strs2.Count());
foreach (var item in strs2.Select((str, i) => new { i, str }))
{
Assert.IsTrue(item.str == strs[item.i]);
}
Hdf5.CloseFile(fileId);
}
catch (Exception ex)
{
CreateExceptionAssert(ex);
}
}
public void WriteAndReadStringAttribute()
{
string filename = Path.Combine(folder, "testAttributeString.H5");
try
{
var fileId = Hdf5.CreateFile(filename);
Assert.IsTrue(fileId > 0);
var groupId = Hdf5.CreateOrOpenGroup(fileId, "test");
string attrStr = "this is an attribute";
Hdf5.WriteAttribute(groupId, "time", attrStr);
string readStr = Hdf5.ReadAttribute <string>(groupId, "time_Non_Exist");
Assert.IsTrue(string.IsNullOrEmpty(readStr));
readStr = Hdf5.ReadAttribute <string>(groupId, "time");
Assert.IsTrue(readStr == attrStr);
Assert.IsTrue(H5G.close(groupId) == 0);
Assert.IsTrue(Hdf5.CloseFile(fileId) == 0);
ErrorCountExpected = 2;
}
catch (Exception ex)
{
CreateExceptionAssert(ex);
}
}
public void WriteAndReadStructs()
{
string filename = Path.Combine(folder, "testCompoundsWithDifferentDisplayName.H5");
Dictionary <string, List <string> > attributes = new Dictionary <string, List <string> >();
try
{
var fileId = Hdf5.CreateFile(filename);
Assert.IsTrue(fileId > 0);
var status = Hdf5.WriteCompounds(fileId, "/test", wData2List, attributes);
Hdf5.CloseFile(fileId);
}
catch (Exception ex)
{
CreateExceptionAssert(ex);
}
try
{
var fileId = Hdf5.OpenFile(filename);
Assert.IsTrue(fileId > 0);
var cmpList = Hdf5.ReadCompounds <WData2>(fileId, "/test", "").ToArray();
Hdf5.CloseFile(fileId);
CollectionAssert.AreEqual(wData2List, cmpList);
}
catch (Exception ex)
{
CreateExceptionAssert(ex);
}
}
public void WriteAndReadJaggedArray()
{
string filename = Path.Combine(folder, $"{nameof(WriteAndReadJaggedArray)}.H5");
var obj = new TestClassWithJaggedArray();
try
{
var fileId = Hdf5.CreateFile(filename);
Assert.IsTrue(fileId > 0);
var status = Hdf5.WriteObject(fileId, obj, "test");
Hdf5.CloseFile(fileId);
}
catch (Exception ex)
{
CreateExceptionAssert(ex);
}
try
{
var fileId = Hdf5.OpenFile(filename);
Assert.IsTrue(fileId > 0);
var obj2 = Hdf5.ReadObject <TestClassWithJaggedArray>(fileId, "test");
Assert.IsTrue(obj.Equals(obj2));
Hdf5.CloseFile(fileId);
}
catch (Exception ex)
{
CreateExceptionAssert(ex);
}
}
public void WriteAndReadListOfList()
{
string filename = Path.Combine(folder, $"{nameof(WriteAndReadList)}.H5");
TestClassListOfList data = new TestClassListOfList();
try
{
var fileId = Hdf5.CreateFile(filename);
Assert.IsTrue(fileId > 0);
Hdf5.WriteObject(fileId, data, "test");
Hdf5.CloseFile(fileId);
}
catch (Exception ex)
{
CreateExceptionAssert(ex);
}
try
{
var fileId = Hdf5.OpenFile(filename);
Assert.IsTrue(fileId > 0);
var objWithList = Hdf5.ReadObject <TestClassListOfList>(fileId, "test");
Hdf5.CloseFile(fileId);
Assert.IsTrue(objWithList.Data[0].SequenceEqual(data.Data[0]));
Assert.IsTrue(objWithList.Data[1].SequenceEqual(data.Data[1]));
}
catch (Exception ex)
{
CreateExceptionAssert(ex);
}
}
public void WriteAndReadSystemEvent()
{
string filename = Path.Combine(folder, "testCompounds.H5");
List <SystemEvent> se = new List <SystemEvent>();
Dictionary <string, List <string> > attributes = new Dictionary <string, List <string> >();
try
{
se.Add(new SystemEvent(5, "55", "3300000000000000000000000", "555555555555555555555555555555555"));
se.Add(new SystemEvent(1, "255", "3d3000000000007777773", "ggggggggggggdf"));
var fileId = Hdf5.CreateFile(filename);
Assert.IsTrue(fileId > 0);
var status = Hdf5.WriteCompounds(fileId, "/test", se, attributes);
Hdf5.CloseFile(fileId);
}
catch (Exception ex)
{
CreateExceptionAssert(ex);
}
try
{
var fileId = Hdf5.OpenFile(filename);
Assert.IsTrue(fileId > 0);
var cmpList = Hdf5.ReadCompounds <SystemEvent>(fileId, "/test", "").ToArray();
Hdf5.CloseFile(fileId);
CollectionAssert.AreEqual(se, cmpList);
}
catch (Exception ex)
{
CreateExceptionAssert(ex);
}
}
public void WriteAndReadDatetimeDataset()
{
string filename = Path.Combine(folder, "testDatetime.H5");
var times = new DateTime[10, 5];
var offset = new DateTime(2000, 1, 1, 12, 0, 0);
for (var i = 0; i < 10; i++)
{
for (var j = 0; j < 5; j++)
{
times[i, j] = offset.AddDays(i + j * 5);
}
}
try
{
var fileId = Hdf5.CreateFile(filename);
Assert.IsTrue(fileId > 0);
Hdf5.WriteDataset(fileId, "/test", times);
var timesRead = (DateTime[, ])Hdf5.ReadDataset <DateTime>(fileId, "/test").result;
CompareDatasets(times, timesRead);
Hdf5.CloseFile(fileId);
}
catch (Exception ex)
{
CreateExceptionAssert(ex);
}
}
public void WriteAndReadStructsWithArray()
{
string filename = Path.Combine(folder, "testArrayCompounds.H5");
try
{
var fileId = Hdf5.CreateFile(filename);
Assert.IsTrue(fileId > 0);
var status = Hdf5.WriteCompounds(fileId, "/test", responseList);
Hdf5.CloseFile(fileId);
}
catch (Exception ex)
{
CreateExceptionAssert(ex);
}
try
{
var fileId = Hdf5.OpenFile(filename);
Assert.IsTrue(fileId > 0);
Responses[] cmpList = Hdf5.ReadCompounds <Responses>(fileId, "/test").ToArray();
Hdf5.CloseFile(fileId);
var isSame = responseList.Zip(cmpList, (r, c) =>
{
return(r.MCID == c.MCID &&
r.PanelIdx == c.PanelIdx &&
r.ResponseValues.Zip(c.ResponseValues, (rr, cr) => rr == cr).All(v => v == true));
});
Assert.IsTrue(isSame.All(s => s == true));
}
catch (Exception ex)
{
CreateExceptionAssert(ex);
}
}
public void save_weights(string filepath, bool overwrite = true, string save_format = null, object options = null)
{
long fileId = Hdf5.CreateFile(filepath);
hdf5_format.save_weights_to_hdf5_group(fileId, Layers);
Hdf5.CloseFile(fileId);
}
public void WriteReadAndEditAttribute()
{
string filename = Path.Combine(folder, "WriteReadAndEditAttribute.H5");
try
{
var fileId = Hdf5.CreateFile(filename);
Assert.IsTrue(fileId > 0);
var groupId = Hdf5.CreateOrOpenGroup(fileId, "test");
DateTime nowTime = DateTime.Now;
Hdf5.WriteAttribute(groupId, "time", nowTime);
DateTime readTime = Hdf5.ReadAttribute <DateTime>(groupId, "time");
Assert.IsTrue(readTime == nowTime);
Hdf5.CloseFile(fileId);
fileId = Hdf5.OpenFile(filename, false);
readTime = Hdf5.ReadAttribute <DateTime>(groupId, "time");
Assert.IsTrue(readTime == nowTime);
nowTime = DateTime.Now;
Hdf5.WriteAttribute(groupId, "time", nowTime);
readTime = Hdf5.ReadAttribute <DateTime>(groupId, "time");
Assert.IsTrue(readTime == nowTime);
Hdf5.CloseFile(fileId);
fileId = Hdf5.OpenFile(filename, false);
readTime = Hdf5.ReadAttribute <DateTime>(groupId, "time");
Assert.IsTrue(readTime == nowTime);
Hdf5.CloseFile(fileId);
}
catch (Exception ex)
{
CreateExceptionAssert(ex);
}
}
public void WriteAndReadTimespanDataset()
{
string filename = Path.Combine(folder, "testTimespan.H5");
var times = new TimeSpan[10, 5];
var offset = new TimeSpan(1, 0, 0, 0, 0);
for (var i = 0; i < 10; i++)
{
for (var j = 0; j < 5; j++)
{
times[i, j] = offset.Add(new TimeSpan(i + j * 5, 0, 0));
}
}
try
{
var fileId = Hdf5.CreateFile(filename);
Assert.IsTrue(fileId > 0);
Hdf5.WriteDataset(fileId, "/test", times);
TimeSpan[,] timesRead = (TimeSpan[, ])Hdf5.ReadDataset <TimeSpan>(fileId, "/test").result;
CompareDatasets(times, timesRead);
Hdf5.CloseFile(fileId);
}
catch (Exception ex)
{
CreateExceptionAssert(ex);
}
}
public void WriteAndReadDataset()
{
string filename = Path.Combine(folder, "testDataset.H5");
var dset = dsets.First();
try
{
var fileId = Hdf5.CreateFile(filename);
Assert.IsTrue(fileId > 0);
Hdf5.WriteDataset(fileId, "/test", dset);
Hdf5.CloseFile(fileId);
}
catch (Exception ex)
{
CreateExceptionAssert(ex);
}
try
{
var fileId = Hdf5.OpenFile(filename);
Assert.IsTrue(fileId > 0);
double[,] dset2 = (double[, ])Hdf5.ReadDataset <double>(fileId, "/test").result;
CompareDatasets(dset, dset2);
bool same = dset == dset2;
Hdf5.CloseFile(fileId);
}
catch (Exception ex)
{
CreateExceptionAssert(ex);
}
}
public void WriteAndReadObjectWithStructs()
{
string filename = Path.Combine(folder, "testObjectWithStructArray.H5");
try
{
var fileId = Hdf5.CreateFile(filename);
Assert.IsTrue(fileId > 0);
var status = Hdf5.WriteObject(fileId, classWithStructs, "test");
Hdf5.CloseFile(fileId);
}
catch (Exception ex)
{
CreateExceptionAssert(ex);
}
try
{
TestClassWithStructs objWithStructs;
var fileId = Hdf5.OpenFile(filename);
Assert.IsTrue(fileId > 0);
objWithStructs = Hdf5.ReadObject <TestClassWithStructs>(fileId, "test");
CollectionAssert.AreEqual(wDataList, objWithStructs.DataList);
Hdf5.CloseFile(fileId);
}
catch (Exception ex)
{
CreateExceptionAssert(ex);
}
}
public void WriteAndReadGroupsWithDataset()
{
string filename = Path.Combine(folder, "testGroups.H5");
try
{
var fileId = Hdf5.CreateFile(filename);
Assert.IsTrue(fileId > 0);
var dset = dsets.First();
var groupId = H5G.create(fileId, Hdf5Utils.NormalizedName("/A")); ///B/C/D/E/F/G/H
Hdf5.WriteDataset(groupId, Hdf5Utils.NormalizedName("test"), dset);
var subGroupId = Hdf5.CreateOrOpenGroup(groupId, Hdf5Utils.NormalizedName("C"));
var subGroupId2 = Hdf5.CreateOrOpenGroup(groupId, Hdf5Utils.NormalizedName("/D")); // will be saved at the root location
dset = dsets.Skip(1).First();
Hdf5.WriteDataset(subGroupId, Hdf5Utils.NormalizedName("test2"), dset);
Hdf5.CloseGroup(subGroupId);
Hdf5.CloseGroup(subGroupId2);
Hdf5.CloseGroup(groupId);
groupId = H5G.create(fileId, Hdf5Utils.NormalizedName("/A/B")); ///B/C/D/E/F/G/H
dset = dsets.Skip(1).First();
Hdf5.WriteDataset(groupId, Hdf5Utils.NormalizedName("test"), dset);
Hdf5.CloseGroup(groupId);
groupId = Hdf5.CreateGroupRecursively(fileId, Hdf5Utils.NormalizedName("A/B/C/D/E/F/I"));
Hdf5.CloseGroup(groupId);
Hdf5.CloseFile(fileId);
fileId = Hdf5.OpenFile(filename);
Assert.IsTrue(fileId > 0);
fileId = Hdf5.OpenFile(filename);
groupId = H5G.open(fileId, Hdf5Utils.NormalizedName("/A/B"));
double[,] dset2 = (double[, ])Hdf5.ReadDataset <double>(groupId, Hdf5Utils.NormalizedName("test")).result;
CompareDatasets(dset, dset2);
Assert.IsTrue(Hdf5.CloseGroup(groupId) >= 0);
groupId = H5G.open(fileId, Hdf5Utils.NormalizedName("/A/C"));
dset2 = (double[, ])Hdf5.ReadDataset <double>(groupId, Hdf5Utils.NormalizedName("test2")).result;
CompareDatasets(dset, dset2);
Assert.IsTrue(Hdf5.CloseGroup(groupId) >= 0);
bool same = dset == dset2;
dset = dsets.First();
dset2 = (double[, ])Hdf5.ReadDataset <double>(fileId, Hdf5Utils.NormalizedName("/A/test")).result;
CompareDatasets(dset, dset2);
Assert.IsTrue(Hdf5Utils.ItemExists(fileId, Hdf5Utils.NormalizedName("A/B/C/D/E/F/I"), DataTypes.Hdf5ElementType.Dataset));
Assert.IsTrue(Hdf5.CloseFile(fileId) == 0);
}
catch (Exception ex)
{
CreateExceptionAssert(ex);
}
}
public void WriteAndReadChunckedDataset2()
{
string filename = Path.Combine(folder, "testChunks2.H5");
string groupName = "/test";
string datasetName = "Data";
try
{
var fileId = Hdf5.CreateFile(filename);
Assert.IsTrue(fileId > 0);
var groupId = Hdf5.CreateGroup(fileId, groupName);
Assert.IsTrue(groupId >= 0);
//var chunkSize = new ulong[] { 5, 5 };
using (var chunkedDset = new ChunkedDataset <double>(datasetName, groupId))
{
foreach (var ds in dsets)
{
chunkedDset.AppendOrCreateDataset(ds);
}
;
}
Hdf5.CloseFile(fileId);
}
catch (Exception ex)
{
CreateExceptionAssert(ex);
}
try
{
var fileId = Hdf5.OpenFile(filename);
//var groupId = H5G.open(fileId, groupName);
//var dset = Hdf5.ReadDatasetToArray<double>(groupId, datasetName);
var dset = Hdf5.ReadDatasetToArray <double>(fileId, string.Concat(groupName, "/", datasetName));
Assert.IsTrue(dset.result.Rank == dsets.First().Rank);
var xSum = dsets.Select(d => d.GetLength(0)).Sum();
Assert.IsTrue(xSum == dset.result.GetLength(0));
var testRange = Enumerable.Range(0, 30).Select(t => (double)t);
// get every 5th element in the matrix
var x0Range = dset.result.Cast <double>().Where((d, i) => i % 5 == 0);
Assert.IsTrue(testRange.SequenceEqual(x0Range));
Hdf5.CloseFile(fileId);
}
catch (Exception ex)
{
CreateExceptionAssert(ex);
}
}
public void WriteAndReadPrimitives()
{
string filename = Path.Combine(folder, "testPrimitives.H5");
int intValue = 2;
double dblValue = 1.1;
string strValue = "test";
bool boolValue = true;
var groupStr = "/test";
string concatFunc(string x) => string.Concat(groupStr, "/", x);
Dictionary <string, List <string> > attributes = new Dictionary <string, List <string> >();
try
{
var fileId = Hdf5.CreateFile(filename);
Assert.IsTrue(fileId > 0);
var groupId = Hdf5.CreateGroup(fileId, groupStr);
Hdf5.WriteOneValue(groupId, concatFunc(nameof(intValue)), intValue, attributes);
Hdf5.WriteOneValue(groupId, concatFunc(nameof(dblValue)), dblValue, attributes);
Hdf5.WriteOneValue(groupId, concatFunc(nameof(strValue)), strValue, attributes);
Hdf5.WriteOneValue(groupId, concatFunc(nameof(boolValue)), boolValue, attributes);
Hdf5.CloseGroup(groupId);
Hdf5.CloseFile(fileId);
}
catch (Exception ex)
{
CreateExceptionAssert(ex);
}
try
{
var fileId = Hdf5.OpenFile(filename);
Assert.IsTrue(fileId > 0);
var groupId = H5G.open(fileId, groupStr);
int readInt = Hdf5.ReadOneValue <int>(groupId, concatFunc(nameof(intValue)));
Assert.IsTrue(intValue == readInt);
double readDbl = Hdf5.ReadOneValue <double>(groupId, concatFunc(nameof(dblValue)));
Assert.IsTrue(dblValue == readDbl);
string readStr = Hdf5.ReadOneValue <string>(groupId, concatFunc(nameof(strValue)));
Assert.IsTrue(strValue == readStr);
bool readBool = Hdf5.ReadOneValue <bool>(groupId, concatFunc(nameof(boolValue)));
Assert.IsTrue(boolValue == readBool);
H5G.close(groupId);
Hdf5.CloseFile(fileId);
}
catch (Exception ex)
{
CreateExceptionAssert(ex);
}
}
public void WriteAndReadSubsetOfDataset()
{
string filename = Path.Combine(folder, "testSubset.H5");
try
{
var fileId = Hdf5.CreateFile(filename);
Assert.IsTrue(fileId > 0);
var chunkSize = new ulong[] { 5, 5 };
using (var chunkedDset = new ChunkedDataset <double>("/test", fileId, dsets.First()))
{
foreach (var ds in dsets.Skip(1))
{
chunkedDset.AppendDataset(ds);
}
;
}
Hdf5.CloseFile(fileId);
}
catch (Exception ex)
{
CreateExceptionAssert(ex);
}
try
{
var fileId = Hdf5.OpenFile(filename);
ulong begIndex = 8;
ulong endIndex = 21;
var dset = Hdf5.ReadDataset <double>(fileId, "/test", begIndex, endIndex);
Hdf5.CloseFile(fileId);
Assert.IsTrue(dset.Rank == dsets.First().Rank);
int count = Convert.ToInt32(endIndex - begIndex + 1);
Assert.IsTrue(count == dset.GetLength(0));
// Creat a range from number 8 to 21
var testRange = Enumerable.Range((int)begIndex, count).Select(t => (double)t);
// Get the first column from row index number 8 (the 9th row) to row index number 21 (22th row)
var x0Range = dset.Cast <double>().Where((d, i) => i % 5 == 0);
Assert.IsTrue(testRange.SequenceEqual(x0Range));
}
catch (Exception ex)
{
CreateExceptionAssert(ex);
}
}
public void WriteAndReadObjectWithPropertiesAndArrayPropertyTest()
{
try
{
var testClass = new TestClassWithArray()
{
TestInteger = 2,
TestDouble = 1.1,
TestBoolean = true,
TestString = "test string",
TestDoubles = new double[] { 1.1, 1.2, -1.1, -1.2 },
TestStrings = new string[] { "one", "two", "three", "four" }
};
testClassWithArrays.TestInteger = 2;
testClassWithArrays.TestDouble = 1.1;
testClassWithArrays.TestBoolean = true;
testClassWithArrays.TestString = "test string";
testClassWithArrays.TestDoubles = new double[] { 1.1, 1.2, -1.1, -1.2 };
testClassWithArrays.TestStrings = new string[] { "one", "two", "three", "four" };
string filename = Path.Combine(folder, "testArrayObjects.H5");
var fileId = Hdf5.CreateFile(filename);
Assert.IsTrue(fileId >= 0);
Hdf5.WriteObject(fileId, testClassWithArrays, "objectWithTwoArrays");
TestClassWithArray readObject = new TestClassWithArray
{
TestStrings = new string[0],
TestDoubles = null,
TestDouble = double.NaN
};
readObject = Hdf5.ReadObject(fileId, readObject, "objectWithTwoArrays");
Assert.IsTrue(testClassWithArrays.Equals(readObject));
readObject = Hdf5.ReadObject <TestClassWithArray>(fileId, "objectWithTwoArrays");
Assert.IsTrue(testClassWithArrays.Equals(readObject));
Assert.IsTrue(Hdf5.CloseFile(fileId) >= 0);
}
catch (Exception ex)
{
CreateExceptionAssert(ex);
}
}
public void WriteAndReadObjectWithHdf5Attributes()
{
string filename = Path.Combine(folder, "testHdf5Attribute.H5");
var attObject = new AttributeClass();
try
{
var fileId = Hdf5.CreateFile(filename);
Assert.IsTrue(fileId > 0);
Hdf5.WriteObject(fileId, attObject, "anObject");
Assert.IsTrue(Hdf5.CloseFile(fileId) == 0);
}
catch (Exception ex)
{
CreateExceptionAssert(ex);
}
}
private long WriteDataset(string filename)
{
long tef2 = Hdf5.CreateFile(filename);
int[] blah = { 1, 2, 4, 5, 0 };
Hdf5.WriteDatasetFromArray <int>(tef2, "blah", blah);
Hdf5.CloseFile(tef2);
var what = "???"; // breakpoint in VS to test h5 file contents independently before next write step
tef2 = Hdf5.OpenFile(filename);
blah[4] = 6;
Hdf5.WriteDatasetFromArray <int>(tef2, "blah", blah); // This command throws several debug errors from PInvoke
var(success, result) = Hdf5.ReadDataset <int>(tef2, "blah");
Assert.IsTrue(success);
Assert.IsTrue(result.Cast <int>().SequenceEqual(blah));
// loading the hdf5 file shows it only has {1, 2, 4, 5, 0} stored.
return(tef2);
}
public void WriteAndReadObjectWithPropertiesTest()
{
string filename = Path.Combine(folder, "testObjects.H5");
try
{
testClass.TestInteger = 2;
testClass.TestDouble = 1.1;
testClass.TestBoolean = true;
testClass.TestString = "test string";
// 31-Oct-2003, 18:00 is 731885.75 in matlab
testClass.TestTime = new DateTime(2003, 10, 31, 18, 0, 0);
var fileId = Hdf5.CreateFile(filename);
Assert.IsTrue(fileId > 0);
Hdf5.WriteObject(fileId, testClass, "objectWithProperties");
Hdf5.CloseFile(fileId);
}
catch (Exception ex)
{
CreateExceptionAssert(ex);
}
try
{
var fileId = Hdf5.OpenFile(filename);
Assert.IsTrue(fileId > 0);
TestClass readObject = new TestClass();
readObject = Hdf5.ReadObject(fileId, readObject, "objectWithProperties");
Assert.IsTrue(testClass.Equals(readObject));
readObject = Hdf5.ReadObject <TestClass>(fileId, "objectWithProperties");
Assert.IsTrue(testClass.Equals(readObject));
Assert.IsTrue(Hdf5.CloseFile(fileId) >= 0);
}
catch (Exception ex)
{
CreateExceptionAssert(ex);
}
}
public void WriteAndReadStringAttribute()
{
string filename = Path.Combine(folder, "testAttributeString.H5");
try
{
var fileId = Hdf5.CreateFile(filename);
Assert.IsTrue(fileId > 0);
var groupId = Hdf5.CreateGroup(fileId, "test");
string attrStr = "this is an attribute";
Hdf5.WriteAttribute(groupId, "time", attrStr);
string readStr = Hdf5.ReadAttribute <string>(groupId, "time");
Assert.IsTrue(readStr == attrStr);
Assert.IsTrue(Hdf5.CloseFile(fileId) == 0);
}
catch (Exception ex)
{
CreateExceptionAssert(ex);
}
}
public void WriteAndReadAllPrimitives()
{
string filename = Path.Combine(folder, "testAllPrimitives.H5");
//var groupStr = "/test";
//string concatFunc(string x) => string.Concat(groupStr, "/", x);
try
{
var fileId = Hdf5.CreateFile(filename);
Assert.IsTrue(fileId > 0);
Hdf5.WriteObject(fileId, allTypesObject, "/test");
var readObject = Hdf5.ReadObject <AllTypesClass>(fileId, "/test");
Assert.IsTrue(allTypesObject.PublicInstanceFieldsEqual(readObject));
Assert.IsTrue(Hdf5.CloseFile(fileId) == 0);
}
catch (Exception ex)
{
CreateExceptionAssert(ex);
}
}
public void WriteAndReadAttributeByPath()
{
string filename = Path.Combine(folder, "testAttributeByPath.H5");
string path = "/A/B/C/D/E/F/I";
string attributeValue = "test";
Hdf5.Settings.LowerCaseNaming = false;
var fileId = Hdf5.CreateFile(filename);
Assert.IsTrue(fileId > 0);
var groupId = Hdf5.CreateGroupRecursively(fileId, Hdf5Utils.NormalizedName(path));
var result = Hdf5Utils.WriteAttributeByPath(filename, path, "VALID", attributeValue);
Assert.IsTrue(result);
var write = Hdf5Utils.ReadAttributeByPath(filename, path, "VALID");
Assert.IsTrue(write.success);
Assert.IsTrue(write.value == attributeValue);
Assert.IsTrue(H5G.close(groupId) == 0);
Assert.IsTrue(Hdf5.CloseFile(fileId) == 0);
}