New test for h5ex_d.

Author: karlnicholas

.gitignore

@@ -40,3 +40,6 @@ hdf5/*/*.h5
 /bouml/
 /src/main/resources/h5ex_t/*.h5
 /src/main/resources/h5ex_t/att/*.h5
+/src/main/resources/h5ex_tutr/*.h5
+/src/main/resources/h5ex_d/*.h5
+/src/main/resources/h5ex_d/*.data

Read File Flow.mmd

@@ -124,6 +124,7 @@ public byte[] getBytes() {
      * @return true if the value is undefined, false otherwise
      */
     public boolean isUndefined() {
+        if (datatype.isSigned()) return false;
         for (byte b : bytes) {
             if (b != (byte) 0xFF) {
                 return false;

Read File Flow.png

@@ -1,16 +1,13 @@
 package org.hdf5javalib.examples.HDF5Examples;
 
-import org.hdf5javalib.dataclass.HdfData;
 import org.hdf5javalib.datasource.TypedDataSource;
 import org.hdf5javalib.hdfjava.HdfDataset;
 import org.hdf5javalib.hdfjava.HdfFileReader;
-import org.hdf5javalib.utils.HdfDataHolder;
 
 import java.nio.channels.SeekableByteChannel;
 import java.nio.file.Files;
 import java.nio.file.Path;
 import java.nio.file.StandardOpenOption;
-import java.util.Arrays;
 
 import static org.hdf5javalib.utils.HdfDisplayUtils.displayAttributes;
 import static org.hdf5javalib.utils.HdfReadUtils.getResourcePath;

hdf5/notes.txt

@@ -1,18 +1,13 @@
 package org.hdf5javalib.examples.HDF5Examples;
 
 import org.hdf5javalib.datasource.TypedDataSource;
-import org.hdf5javalib.hdfjava.HdfDataset;
-import org.hdf5javalib.hdfjava.HdfFileReader;
 
 import java.io.IOException;
 import java.net.URISyntaxException;
-import java.nio.channels.SeekableByteChannel;
 import java.nio.file.Files;
 import java.nio.file.Path;
 import java.nio.file.Paths;
-import java.nio.file.StandardOpenOption;
 
-import static org.hdf5javalib.utils.HdfDisplayUtils.displayData;
 import static org.hdf5javalib.utils.HdfDisplayUtils.displayFile;
 
 /**

src/main/java/org/hdf5javalib/dataclass/HdfFixedPoint.java

@@ -0,0 +1,54 @@
+package org.hdf5javalib.examples.h5ex_d;
+
+import org.hdf5javalib.datasource.TypedDataSource;
+
+import java.io.IOException;
+import java.net.URISyntaxException;
+import java.nio.file.Files;
+import java.nio.file.Path;
+import java.nio.file.Paths;
+import java.util.Objects;
+import java.util.stream.Stream;
+
+import static org.hdf5javalib.utils.HdfDisplayUtils.displayFile;
+
+/**
+ * Demonstrates reading and processing compound data from an HDF5 file.
+ * <p>
+ * The {@code CompoundRead} class serves as an example application that reads
+ * a compound dataset from an HDF5 file, processes it using a {@link TypedDataSource},
+ * and displays the results. It showcases filtering and mapping operations on the
+ * dataset, as well as conversion to a custom Java class.
+ * </p>
+ */
+public class h5ex_d_read {
+    /**
+     * Entry point for the application.
+     *
+     * @param args command-line arguments (not used)
+     */
+    public static void main(String[] args) {
+        new h5ex_d_read().run();
+    }
+
+    /**
+     * Executes the main logic of reading and displaying compound data from an HDF5 file.
+     */
+    private void run() {
+        try {
+            // List all .h5 files in HDF5Examples resources directory
+            Path dirPath = Paths.get(Objects.requireNonNull(h5ex_d_read.class.getClassLoader().getResource("h5ex_d")).toURI());
+            try ( Stream<Path> streamList = Files.list(dirPath) ) {
+                streamList.filter(p -> p.toString().endsWith(".h5"))
+                        .forEach(p -> {
+                            System.out.println("Running " + p.getFileName());
+                            displayFile(p);
+                        });
+
+            }
+        } catch (URISyntaxException | IOException e) {
+            throw new RuntimeException(e);
+        }
+    }
+
+}

src/main/java/org/hdf5javalib/examples/HDF5Examples/ArrayAttributeRead.java

@@ -0,0 +1,54 @@
+package org.hdf5javalib.examples.h5ex_tutr.h5ex_d;
+
+import org.hdf5javalib.datasource.TypedDataSource;
+
+import java.io.IOException;
+import java.net.URISyntaxException;
+import java.nio.file.Files;
+import java.nio.file.Path;
+import java.nio.file.Paths;
+import java.util.Objects;
+import java.util.stream.Stream;
+
+import static org.hdf5javalib.utils.HdfDisplayUtils.displayFile;
+
+/**
+ * Demonstrates reading and processing compound data from an HDF5 file.
+ * <p>
+ * The {@code CompoundRead} class serves as an example application that reads
+ * a compound dataset from an HDF5 file, processes it using a {@link TypedDataSource},
+ * and displays the results. It showcases filtering and mapping operations on the
+ * dataset, as well as conversion to a custom Java class.
+ * </p>
+ */
+public class h5ex_tutr_read {
+    /**
+     * Entry point for the application.
+     *
+     * @param args command-line arguments (not used)
+     */
+    public static void main(String[] args) {
+        new h5ex_tutr_read().run();
+    }
+
+    /**
+     * Executes the main logic of reading and displaying compound data from an HDF5 file.
+     */
+    private void run() {
+        try {
+            // List all .h5 files in HDF5Examples resources directory
+            Path dirPath = Paths.get(Objects.requireNonNull(h5ex_tutr_read.class.getClassLoader().getResource("h5ex_tutr")).toURI());
+            try ( Stream<Path> streamList = Files.list(dirPath) ) {
+                streamList.filter(p -> p.toString().endsWith(".h5"))
+                        .forEach(p -> {
+                            System.out.println("Running " + p.getFileName());
+                            displayFile(p);
+                        });
+
+            }
+        } catch (URISyntaxException | IOException e) {
+            throw new RuntimeException(e);
+        }
+    }
+
+}

src/main/java/org/hdf5javalib/examples/HDF5Examples/ExamplesRead.java

@@ -7,6 +7,7 @@
 import org.hdf5javalib.hdffile.infrastructure.HdfBTreeV1;
 import org.hdf5javalib.hdffile.infrastructure.HdfChunkBTreeEntry;
 import org.hdf5javalib.hdfjava.HdfDataFile;
+import org.hdf5javalib.utils.HdfDisplayUtils;
 import org.hdf5javalib.utils.HdfReadUtils;
 import org.hdf5javalib.utils.HdfWriteUtils;
 
@@ -414,8 +415,8 @@ public HdfFixedPoint getDataSize() {
         @Override
         public String toString() {
             return "ContiguousStorage{" +
-                    ", address=" + dataAddress +
-                    ", elementSize=" + dataSize +
+                    ", address=" + (dataAddress.isUndefined()? HdfDisplayUtils.UNDEFINED :dataAddress) +
+                    ", dataSize=" + (dataSize.isUndefined()?HdfDisplayUtils.UNDEFINED:dataSize) +
                     '}';
         }