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-rw-r--r--java/src/CMakeLists.txt6
-rw-r--r--java/src/hdf/CMakeLists.txt4
-rw-r--r--java/src/hdf/hdf5lib/CMakeLists.txt2
-rw-r--r--java/src/hdf/hdf5lib/H5.java209
-rw-r--r--java/src/hdf/hdf5lib/HDF5Constants.java15
-rw-r--r--java/src/hdf/overview.html6
-rw-r--r--java/src/jni/CMakeLists.txt8
-rw-r--r--java/src/jni/exceptionImp.c17
-rw-r--r--java/src/jni/exceptionImp.h10
-rw-r--r--java/src/jni/h5Constants.c10
-rw-r--r--java/src/jni/h5dImp.c2
-rw-r--r--java/src/jni/h5pImp.c225
-rw-r--r--java/src/jni/h5pImp.h73
-rw-r--r--java/src/jni/h5util.c3
14 files changed, 543 insertions, 47 deletions
diff --git a/java/src/CMakeLists.txt b/java/src/CMakeLists.txt
index 3f93f39..0c00923 100644
--- a/java/src/CMakeLists.txt
+++ b/java/src/CMakeLists.txt
@@ -1,8 +1,8 @@
-cmake_minimum_required(VERSION 3.2.2)
+cmake_minimum_required (VERSION 3.10)
PROJECT ( HDF5_JAVA_SRC C Java )
#-----------------------------------------------------------------------------
# Traverse source subdirectory
#-----------------------------------------------------------------------------
-add_subdirectory (${HDF5_JAVA_SRC_SOURCE_DIR}/jni ${HDF5_JAVA_SRC_BINARY_DIR}/jni)
-add_subdirectory (${HDF5_JAVA_SRC_SOURCE_DIR}/hdf ${HDF5_JAVA_SRC_BINARY_DIR}/hdf)
+add_subdirectory (jni)
+add_subdirectory (hdf)
diff --git a/java/src/hdf/CMakeLists.txt b/java/src/hdf/CMakeLists.txt
index 84bda53..ecff984 100644
--- a/java/src/hdf/CMakeLists.txt
+++ b/java/src/hdf/CMakeLists.txt
@@ -1,4 +1,4 @@
-cmake_minimum_required (VERSION 3.2.2)
+cmake_minimum_required (VERSION 3.10)
PROJECT (HDF5_JAVA_HDF)
-add_subdirectory (${HDF5_JAVA_HDF_SOURCE_DIR}/hdf5lib hdf5lib)
+add_subdirectory (hdf5lib)
diff --git a/java/src/hdf/hdf5lib/CMakeLists.txt b/java/src/hdf/hdf5lib/CMakeLists.txt
index c856c04..9506fc1 100644
--- a/java/src/hdf/hdf5lib/CMakeLists.txt
+++ b/java/src/hdf/hdf5lib/CMakeLists.txt
@@ -1,4 +1,4 @@
-cmake_minimum_required (VERSION 3.2.2)
+cmake_minimum_required (VERSION 3.10)
PROJECT (HDF5_JAVA_HDF_HDF5 Java)
set (CMAKE_VERBOSE_MAKEFILE 1)
diff --git a/java/src/hdf/hdf5lib/H5.java b/java/src/hdf/hdf5lib/H5.java
index 3d87c28..58a5703 100644
--- a/java/src/hdf/hdf5lib/H5.java
+++ b/java/src/hdf/hdf5lib/H5.java
@@ -214,7 +214,7 @@ import hdf.hdf5lib.structs.H5O_info_t;
* exception handlers to print out the HDF-5 error stack.
* <hr>
*
- * @version HDF5 1.11.0 <BR>
+ * @version HDF5 1.11.2 <BR>
* <b>See also: <a href ="./hdf.hdf5lib.HDFArray.html"> hdf.hdf5lib.HDFArray</a> </b><BR>
* <a href ="./hdf.hdf5lib.HDF5Constants.html"> hdf.hdf5lib.HDF5Constants</a><BR>
* <a href ="./hdf.hdf5lib.HDF5CDataTypes.html"> hdf.hdf5lib.HDF5CDataTypes</a><BR>
@@ -237,7 +237,7 @@ public class H5 implements java.io.Serializable {
*
* Make sure to update the versions number when a different library is used.
*/
- public final static int LIB_VERSION[] = { 1, 11, 0 };
+ public final static int LIB_VERSION[] = { 1, 11, 2 };
public final static String H5PATH_PROPERTY_KEY = "hdf.hdf5lib.H5.hdf5lib";
@@ -424,7 +424,7 @@ public class H5 implements java.io.Serializable {
private synchronized static native int H5dont_atexit() throws HDF5LibraryException;
/**
- * Turn off error handling By default, the C library prints the error stack of the HDF-5 C library on stdout. This
+ * Turn off error handling. By default, the C library prints the error stack of the HDF-5 C library on stdout. This
* behavior may be disabled by calling H5error_off().
*
* @return a non-negative value if successful
@@ -432,6 +432,12 @@ public class H5 implements java.io.Serializable {
public synchronized static native int H5error_off();
/**
+ * Turn on error handling. By default, the C library prints the error stack of the HDF-5 C library on stdout. This
+ * behavior may be reenabled by calling H5error_on().
+ */
+ public synchronized static native void H5error_on();
+
+ /**
* H5garbage_collect collects on all free-lists of all types.
*
* @return a non-negative value if successful
@@ -4435,7 +4441,7 @@ public class H5 implements java.io.Serializable {
// //
// ////////////////////////////////////////////////////////////
- // Generic property list routines
+ // /////// Generic property list routines ///////
/**
* H5Pget_class_name retrieves the name of a generic property list class
@@ -4751,7 +4757,7 @@ public class H5 implements java.io.Serializable {
public synchronized static native int H5Piterate(long plist, int[] idx, H5P_iterate_cb op, H5P_iterate_t op_data) throws HDF5LibraryException;
- // Object creation property list (OCPL) routines
+ // /////// Object creation property list (OCPL) routines ///////
/**
* H5Pget_attr_phase_change retrieves attribute storage phase change thresholds.
@@ -5055,7 +5061,7 @@ public class H5 implements java.io.Serializable {
public synchronized static native int H5Pset_fletcher32(long plist) throws HDF5LibraryException,
NullPointerException;
- // File creation property list (FCPL) routines
+ // /////// File creation property list (FCPL) routines ///////
/**
* H5Pget_userblock retrieves the size of a user block in a file creation property list.
@@ -5464,7 +5470,7 @@ public class H5 implements java.io.Serializable {
throws HDF5LibraryException, IllegalArgumentException;
- // File access property list (FAPL) routines
+ // /////// File access property list (FAPL) routines ///////
/**
* H5Pget_alignment retrieves the current settings for alignment properties from a file access property list.
@@ -5844,6 +5850,37 @@ public class H5 implements java.io.Serializable {
public synchronized static native void H5Pset_metadata_read_attempts(long plist_id, long attempts)
throws HDF5LibraryException;
+ /**
+ * H5Pget_evict_on_close retrieves the file access property list setting that determines whether an HDF5 object
+ * will be evicted from the library's metadata cache when it is closed.
+ *
+ * @param fapl_id
+ * IN: File access property list identifier
+ *
+ * @return indication if the object will be evicted on close.
+ *
+ * @exception HDF5LibraryException
+ * - Error from the HDF-5 Library.
+ *
+ **/
+ public synchronized static native boolean H5Pget_evict_on_close(long fapl_id)
+ throws HDF5LibraryException;
+
+ /**
+ * H5Pset_evict_on_close controls the library's behavior of evicting metadata associated with a closed object.
+ *
+ * @param fapl_id
+ * IN: File access property list identifier
+ * @param evict_on_close
+ * IN: Whether the HDF5 object should be evicted on close.
+ *
+ * @exception HDF5LibraryException
+ * - Error from the HDF-5 Library.
+ *
+ **/
+ public synchronized static native void H5Pset_evict_on_close(long fapl_id, boolean evict_on_close)
+ throws HDF5LibraryException;
+
// Dataset creation property list (DCPL) routines //
/**
@@ -6050,6 +6087,36 @@ public class H5 implements java.io.Serializable {
**/
public synchronized static native String H5Pget_virtual_dsetname(long dcpl_id, long index) throws HDF5LibraryException, IllegalArgumentException;
+// ///// unimplemented /////
+// /**
+// * H5Pget_vds_file_cache_size retrieves the size of the vds link open file cache.
+// *
+// * @param fapl_id
+// * IN: File access property list identifier
+// *
+// * @return VDS link open file cache size in number of files.
+// *
+// * @exception HDF5LibraryException
+// * - Error from the HDF-5 Library.
+// *
+// **/
+// public synchronized static native int H5Pget_vds_file_cache_size(long fapl_id) throws HDF5LibraryException;
+//
+// /**
+// * H5Pset_vds_file_cache_size sets the number of files that can be held open in an vds link open file cache.
+// *
+// * @param fapl_id
+// * IN: File access property list identifier
+// * @param efc_size
+// * IN: VDS link open file cache size in number of files.
+// *
+// * @exception HDF5LibraryException
+// * - Error from the HDF-5 Library.
+// *
+// **/
+// public synchronized static native void H5Pset_vds_file_cache_size(long fapl_id, int efc_size)
+// throws HDF5LibraryException;
+
/**
* H5Pget_external returns information about an external file.
*
@@ -6269,7 +6336,37 @@ public class H5 implements java.io.Serializable {
public synchronized static native int H5Pset_fill_time(long plist_id, int fill_time) throws HDF5LibraryException,
NullPointerException;
- // Dataset access property list (DAPL) routines //
+ // /////// Dataset creation property list (DCPL) routines ///////
+
+ /**
+ * H5Pset_chunk_opts Sets the edge chunk option in a dataset creation property list.
+ *
+ * @param dcpl_id
+ * IN: Dataset creation property list identifier
+ * @param opts
+ * IN: Edge chunk option flag. Valid values are:
+ * H5D_CHUNK_DONT_FILTER_PARTIAL_CHUNKS - filters are not applied to partial edge chunks.
+ * 0 - Disables option; partial edge chunks will be compressed.
+ *
+ * @exception HDF5LibraryException
+ * - Error from the HDF-5 Library
+ **/
+ public synchronized static native void H5Pset_chunk_opts(long dcpl_id, int opts) throws HDF5LibraryException;
+
+ /**
+ * H5Pget_chunk_opts retrieves the edge chunk option setting stored in the dataset creation property list .
+ *
+ * @param dcpl_id
+ * IN: Dataset creation property list
+
+ * @return The edge chunk option setting.
+ *
+ * @exception HDF5LibraryException
+ * - Error from the HDF-5 Library
+ **/
+ public synchronized static native int H5Pget_chunk_opts(long dcpl_id) throws HDF5LibraryException;
+
+ // /////// Dataset access property list (DAPL) routines ///////
/**
* Retrieves the maximum possible number of elements in the meta data cache and the maximum possible number of bytes
@@ -6372,12 +6469,76 @@ public class H5 implements java.io.Serializable {
**/
public synchronized static native long H5Pget_virtual_printf_gap(long dapl_id) throws HDF5LibraryException;
+ /**
+ * H5Pget_virtual_prefix Retrieves prefix applied to virtual file paths.
+ *
+ * @param dapl_id
+ * IN: Link access property list identifier
+ *
+ * @return the prefix to be applied to virtual file paths.
+ *
+ * @exception HDF5LibraryException
+ * - Error from the HDF-5 Library.
+ *
+ **/
+ public synchronized static native String H5Pget_virtual_prefix(long dapl_id)
+ throws HDF5LibraryException;
+
+ /**
+ * H5Pset_virtual_prefix Sets prefix to be applied to virtual file paths.
+ *
+ * @param dapl_id
+ * IN: Dataset access property list identifier
+ * @param prefix
+ * IN: Prefix to be applied to virtual file paths
+ *
+ * @exception HDF5LibraryException
+ * - Error from the HDF-5 Library.
+ * @exception NullPointerException
+ * - prefix is null.
+ *
+ **/
+ public synchronized static native void H5Pset_virtual_prefix(long dapl_id, String prefix)
+ throws HDF5LibraryException, NullPointerException;
+
+ /**
+ * H5Pget_efile_prefix Retrieves prefix applied to external file paths.
+ *
+ * @param dapl_id
+ * IN: Link access property list identifier
+ *
+ * @return the prefix to be applied to external file paths.
+ *
+ * @exception HDF5LibraryException
+ * - Error from the HDF-5 Library.
+ *
+ **/
+ public synchronized static native String H5Pget_efile_prefix(long dapl_id)
+ throws HDF5LibraryException;
+
+ /**
+ * H5Pset_efile_prefix Sets prefix to be applied to external file paths.
+ *
+ * @param dapl_id
+ * IN: Dataset access property list identifier
+ * @param prefix
+ * IN: Prefix to be applied to external file paths
+ *
+ * @exception HDF5LibraryException
+ * - Error from the HDF-5 Library.
+ * @exception NullPointerException
+ * - prefix is null.
+ *
+ **/
+ public synchronized static native void H5Pset_efile_prefix(long dapl_id, String prefix)
+ throws HDF5LibraryException, NullPointerException;
+
// public synchronized static native void H5Pset_append_flush(long plist_id, int ndims, long[] boundary, H5D_append_cb func, H5D_append_t udata) throws HDF5LibraryException;
// public synchronized static native void H5Pget_append_flush(long plist_id, int dims, long[] boundary, H5D_append_cb func, H5D_append_t udata) throws HDF5LibraryException;
- // Dataset xfer property list (DXPL) routines //
+ // /////// Dataset xfer property list (DXPL) routines ///////
/**
* H5Pget_data_transform retrieves the data transform expression previously set in the dataset transfer property
@@ -6528,7 +6689,7 @@ public class H5 implements java.io.Serializable {
public synchronized static native int H5Pset_hyper_vector_size(long dxpl_id, long vector_size)
throws HDF5LibraryException, NullPointerException;
- // Link creation property list (LCPL) routines //
+ // /////// Link creation property list (LCPL) routines ///////
/**
* H5Pget_create_intermediate_group determines whether property is set to enable creating missing intermediate
@@ -6563,7 +6724,7 @@ public class H5 implements java.io.Serializable {
public synchronized static native int H5Pset_create_intermediate_group(long lcpl_id, boolean crt_intermed_group)
throws HDF5LibraryException;
- // Group creation property list (GCPL) routines //
+ // /////// Group creation property list (GCPL) routines ///////
/**
* H5Pget_local_heap_size_hint Retrieves the anticipated size of the local heap for original-style groups.
@@ -6720,14 +6881,14 @@ public class H5 implements java.io.Serializable {
public synchronized static native int H5Pset_link_creation_order(long gcpl_id, int crt_order_flags)
throws HDF5LibraryException;
- // String creation property list (STRCPL) routines //
+ // /////// String creation property list (STRCPL) routines ///////
public synchronized static native int H5Pget_char_encoding(long plist_id) throws HDF5LibraryException;
public synchronized static native void H5Pset_char_encoding(long plist_id, int encoding)
throws HDF5LibraryException;
- // Link access property list (LAPL) routines //
+ // /////// Link access property list (LAPL) routines ///////
/**
* H5Pget_nlinks retrieves the maximum number of soft or user-defined link traversals allowed, nlinks, before the
@@ -6880,7 +7041,7 @@ public class H5 implements java.io.Serializable {
public synchronized static native int H5Pset_elink_acc_flags(long lapl_id, int flags) throws HDF5LibraryException,
IllegalArgumentException;
- // Object copy property list (OCPYPL) routines //
+ // /////// Object copy property list (OCPYPL) routines ///////
/**
* H5Pget_copy_object retrieves the properties to be used when an object is copied.
@@ -6911,7 +7072,7 @@ public class H5 implements java.io.Serializable {
public synchronized static native void H5Pset_copy_object(long ocp_plist_id, int copy_options)
throws HDF5LibraryException;
- // Other/Older property list routines //
+ // /////// Other/Older property list routines ///////
/**
* H5Pget_version retrieves the version information of various objects for a file creation property list.
@@ -6939,7 +7100,7 @@ public class H5 implements java.io.Serializable {
public synchronized static native int H5Pget_version(long plist, int[] version_info) throws HDF5LibraryException,
NullPointerException, IllegalArgumentException;
- // file drivers property list routines //
+ // /////// file drivers property list routines ///////
public synchronized static native void H5Pget_fapl_core(long fapl_id, long[] increment, boolean[] backing_store)
throws HDF5LibraryException, NullPointerException;
@@ -7086,20 +7247,28 @@ public class H5 implements java.io.Serializable {
// File creation property list (FCPL) routines //
// File access property list (FAPL) routines //
- // herr_t H5Pset_driver( hid_t plist_id, hid_t new_driver_id, const void *new_driver_info )
- // const void *H5Pget_driver_info( hid_t plist_id )
- // herr_t H5Pget_multi_type ( hid_t fapl_id, H5FD_mem_t *type )
- // herr_t H5Pset_multi_type ( hid_t fapl_id, H5FD_mem_t type )
+ // herr_t H5Pset_driver(hid_t plist_id, hid_t new_driver_id, const void *new_driver_info)
+ // const void *H5Pget_driver_info(hid_t plist_id)
+ // herr_t H5Pget_multi_type(hid_t fapl_id, H5FD_mem_t *type)
+ // herr_t H5Pset_multi_type(hid_t fapl_id, H5FD_mem_t type)
// herr_t H5Pget_file_image(hid_t fapl_id, void **buf_ptr_ptr, size_t *buf_len_ptr);
// herr_t H5Pset_file_image(hid_t fapl_id, void *buf_ptr, size_t buf_len);
// herr_t H5Pget_file_image_callbacks(hid_t fapl_id, H5FD_file_image_callbacks_t *callbacks_ptr);
// herr_t H5Pset_file_image_callbacks(hid_t fapl_id, H5FD_file_image_callbacks_t *callbacks_ptr);
// herr_t H5Pset_core_write_tracking(hid_t fapl_id, hbool_t is_enabled, size_t page_size);
// herr_t H5Pget_core_write_tracking(hid_t fapl_id, hbool_t *is_enabled, size_t *page_size);
+ // herr_t H5Pset_all_coll_metadata_ops(hid_t accpl_id, hbool_t is_collective);
+ // herr_t H5Pset_coll_metadata_write(hid_t fapl_id, hbool_t is_collective);
+ // herr_t H5Pget_coll_metadata_write(hid_t fapl_id, hbool_t *is_collective);
+ // herr_t H5Pget_page_buffer_size(hid_t fapl_id, size_t *buf_size, unsigned *min_meta_perc, unsigned *min_raw_perc);
+ // herr_t H5Pset_object_flush_cb (hid_t fapl_id, H5F_flush_cb_t func, void *user_data);
+ // herr_t H5Pget_object_flush_cb (hid_t fapl_id, H5F_flush_cb_t *func, void **user_data);
// Dataset creation property list (DCPL) routines //
// Dataset access property list (DAPL) routines //
+ // herr_t H5Pset_append_flush (hid_t dapl_id, int ndims, const hsize_t boundary[], H5D_append_cb_t func, void *user_data);
+ // herr_t H5Pget_append_flush(hid_t dapl_id, int ndims, hsize_t boundary[], H5D_append_cb_t *func, void **user_data)
// Dataset xfer property list (DXPL) routines //
// herr_t H5Pset_buffer(hid_t plist_id, size_t size, void *tconv, void *bkg);
diff --git a/java/src/hdf/hdf5lib/HDF5Constants.java b/java/src/hdf/hdf5lib/HDF5Constants.java
index 8a3d6c8..eb4055d 100644
--- a/java/src/hdf/hdf5lib/HDF5Constants.java
+++ b/java/src/hdf/hdf5lib/HDF5Constants.java
@@ -88,6 +88,7 @@ public class HDF5Constants {
public static final int H5D_VDS_ERROR = H5D_VDS_ERROR();
public static final int H5D_VDS_FIRST_MISSING = H5D_VDS_FIRST_MISSING();
public static final int H5D_VDS_LAST_AVAILABLE = H5D_VDS_LAST_AVAILABLE();
+ public static final int H5D_CHUNK_DONT_FILTER_PARTIAL_CHUNKS = H5D_CHUNK_DONT_FILTER_PARTIAL_CHUNKS();
public static final int H5E_MAJOR = H5E_MAJOR();
public static final int H5E_MINOR = H5E_MINOR();
@@ -205,7 +206,11 @@ public class HDF5Constants {
public static final int H5F_CLOSE_SEMI = H5F_CLOSE_SEMI();
public static final int H5F_CLOSE_STRONG = H5F_CLOSE_STRONG();
public static final int H5F_CLOSE_WEAK = H5F_CLOSE_WEAK();
+ public static final int H5F_LIBVER_ERROR = H5F_LIBVER_ERROR();
public static final int H5F_LIBVER_EARLIEST = H5F_LIBVER_EARLIEST();
+ public static final int H5F_LIBVER_V18 = H5F_LIBVER_V18();
+ public static final int H5F_LIBVER_V110 = H5F_LIBVER_V110();
+ public static final int H5F_LIBVER_NBOUNDS = H5F_LIBVER_NBOUNDS();
public static final int H5F_LIBVER_LATEST = H5F_LIBVER_LATEST();
public static final int H5F_OBJ_ALL = H5F_OBJ_ALL();
public static final int H5F_OBJ_ATTR = H5F_OBJ_ATTR();
@@ -768,6 +773,8 @@ public class HDF5Constants {
private static native final int H5D_VDS_LAST_AVAILABLE();
+ private static native final int H5D_CHUNK_DONT_FILTER_PARTIAL_CHUNKS();
+
private static native final long H5E_ALIGNMENT();
private static native final long H5E_ALREADYEXISTS();
@@ -996,8 +1003,16 @@ public class HDF5Constants {
private static native final int H5F_CLOSE_WEAK();
+ private static native final int H5F_LIBVER_ERROR();
+
private static native final int H5F_LIBVER_EARLIEST();
+ private static native final int H5F_LIBVER_V18();
+
+ private static native final int H5F_LIBVER_V110();
+
+ private static native final int H5F_LIBVER_NBOUNDS();
+
private static native final int H5F_LIBVER_LATEST();
private static native final int H5F_OBJ_ALL();
diff --git a/java/src/hdf/overview.html b/java/src/hdf/overview.html
index 39d75b7..9c19442 100644
--- a/java/src/hdf/overview.html
+++ b/java/src/hdf/overview.html
@@ -47,20 +47,20 @@ which has a method:
The native method is implemented in C using the
<a href="http://java.sun.com/javase/6/docs/technotes/guides/jni/index.html">Java
Native Method Interface </a>(JNI). This is written something like the following:
-<pre><b>JNIEXPORT jint
+<pre><b>JNIEXPORT jlong
JNICALL Java_hdf_hdf5lib_H5_H5Fopen
(
&nbsp;JNIEnv *env,
&nbsp;jclass class,
&nbsp;jstring hdfFile,
&nbsp;jint flags,
-&nbsp;jint access)
+&nbsp;jlong access)
&nbsp;{
&nbsp;/* ...convert Java String to (char *) */
&nbsp;/* call the HDF library */
-&nbsp;retVal = H5Fopen((char *)file, (unsigned)flags, (hid_t)access );
+&nbsp;retVal = H5Fopen((char *)file, (unsigned)flags, (hid_t)access);
&nbsp;/* ... */
}</b></pre>
diff --git a/java/src/jni/CMakeLists.txt b/java/src/jni/CMakeLists.txt
index 9e6c099..96e7035 100644
--- a/java/src/jni/CMakeLists.txt
+++ b/java/src/jni/CMakeLists.txt
@@ -1,4 +1,4 @@
-cmake_minimum_required (VERSION 3.2.2)
+cmake_minimum_required (VERSION 3.10)
PROJECT (HDF5_JAVA_JNI C CXX)
set (HDF5_JAVA_JNI_CSRCS
@@ -51,15 +51,13 @@ set (CMAKE_INCLUDE_CURRENT_DIR_IN_INTERFACE ON)
########### JNI libraries always must be built shared ###############
add_library (${HDF5_JAVA_JNI_LIB_TARGET} SHARED ${HDF5_JAVA_JNI_CSRCS} ${HDF5_JAVA_JNI_CHDRS})
TARGET_C_PROPERTIES (${HDF5_JAVA_JNI_LIB_TARGET} SHARED " " " ")
-target_link_libraries (${HDF5_JAVA_JNI_LIB_TARGET} ${HDF5_LIB_TARGET})
+target_link_libraries (${HDF5_JAVA_JNI_LIB_TARGET} PUBLIC ${HDF5_LIB_TARGET})
set_target_properties (${HDF5_JAVA_JNI_LIB_TARGET} PROPERTIES FOLDER libraries/jni)
SET_GLOBAL_VARIABLE (HDF5_LIBRARIES_TO_EXPORT "${HDF5_LIBRARIES_TO_EXPORT};${HDF5_JAVA_JNI_LIB_TARGET}")
H5_SET_LIB_OPTIONS (${HDF5_JAVA_JNI_LIB_TARGET} ${HDF5_JAVA_JNI_LIB_NAME} SHARED ${HDF5_JAVA_PACKAGE_SOVERSION})
if (WIN32)
get_filename_component (HDF5_JAVA_JNI_DLL_NAME ${HDF5_JAVA_JNI_LIB_TARGET} NAME_WE)
- if (CMAKE_BUILD_TYPE MATCHES Debug)
- set (HDF5_JAVA_JNI_DLL_NAME "${HDF5_JAVA_JNI_DLL_NAME}_D")
- endif ()
+ set (HDF5_JAVA_JNI_DLL_NAME "${HDF5_JAVA_JNI_DLL_NAME}$<$<CONFIG:Debug>:_D>")
# message (STATUS "HDF5_JAVA_JNI_DLL_NAME: ${HDF5_JAVA_JNI_DLL_NAME}")
if (BUILD_TESTING)
add_custom_target (HDF5_JAVA_JNI-Test-Copy ALL
diff --git a/java/src/jni/exceptionImp.c b/java/src/jni/exceptionImp.c
index 05c193f..afad5d5 100644
--- a/java/src/jni/exceptionImp.c
+++ b/java/src/jni/exceptionImp.c
@@ -33,6 +33,9 @@ extern "C" {
#include "h5jni.h"
#include "exceptionImp.h"
+extern H5E_auto2_t efunc;
+extern void *edata;
+
/*******************/
/* Local Variables */
@@ -122,10 +125,24 @@ JNIEXPORT jint JNICALL
Java_hdf_hdf5lib_H5_H5error_1off
(JNIEnv *env, jclass clss)
{
+ H5Eget_auto2(H5E_DEFAULT, &efunc, &edata);
H5Eset_auto2(H5E_DEFAULT, NULL, NULL);
return 0;
} /* end Java_hdf_hdf5lib_H5_H5error_1off() */
+/*
+ * Class: hdf_hdf5lib_exceptions_HDF5Library
+ * Method: H5error_on
+ * Signature: ()V
+ *
+ */
+JNIEXPORT void JNICALL
+Java_hdf_hdf5lib_H5_H5error_1on
+ (JNIEnv *env, jclass clss)
+{
+ H5Eset_auto2(H5E_DEFAULT, efunc, edata);
+} /* end Java_hdf_hdf5lib_H5_H5error_1on() */
+
/*
* Class: hdf_hdf5lib_exceptions_HDFLibraryException
diff --git a/java/src/jni/exceptionImp.h b/java/src/jni/exceptionImp.h
index cb74602..423e537 100644
--- a/java/src/jni/exceptionImp.h
+++ b/java/src/jni/exceptionImp.h
@@ -31,6 +31,16 @@ JNIEXPORT jint JNICALL
Java_hdf_hdf5lib_H5_H5error_1off
(JNIEnv *env, jclass clss );
+/*
+ * Class: hdf_hdf5lib_exceptions_HDF5Library
+ * Method: H5error_on
+ * Signature: ()V
+ *
+ */
+JNIEXPORT void JNICALL
+Java_hdf_hdf5lib_H5_H5error_1on
+ (JNIEnv *env, jclass clss );
+
/*
* Class: hdf_hdf5lib_exceptions_HDFLibraryException
diff --git a/java/src/jni/h5Constants.c b/java/src/jni/h5Constants.c
index f6f8bfa..900316e 100644
--- a/java/src/jni/h5Constants.c
+++ b/java/src/jni/h5Constants.c
@@ -140,6 +140,8 @@ JNIEXPORT jint JNICALL
Java_hdf_hdf5lib_HDF5Constants_H5D_1VDS_1FIRST_1MISSING(JNIEnv *env, jclass cls) { return H5D_VDS_FIRST_MISSING; }
JNIEXPORT jint JNICALL
Java_hdf_hdf5lib_HDF5Constants_H5D_1VDS_1LAST_1AVAILABLE(JNIEnv *env, jclass cls) { return H5D_VDS_LAST_AVAILABLE; }
+JNIEXPORT jint JNICALL
+Java_hdf_hdf5lib_HDF5Constants_H5D_1CHUNK_1DONT_1FILTER_1PARTIAL_1CHUNKS(JNIEnv *env, jclass cls) { return H5D_CHUNK_DONT_FILTER_PARTIAL_CHUNKS; }
JNIEXPORT jlong JNICALL
Java_hdf_hdf5lib_HDF5Constants_H5E_1ALIGNMENT(JNIEnv *env, jclass cls) { return H5E_ALIGNMENT; }
@@ -378,8 +380,16 @@ Java_hdf_hdf5lib_HDF5Constants_H5F_1CLOSE_1STRONG(JNIEnv *env, jclass cls) { ret
JNIEXPORT jint JNICALL
Java_hdf_hdf5lib_HDF5Constants_H5F_1CLOSE_1WEAK(JNIEnv *env, jclass cls) { return H5F_CLOSE_WEAK; }
JNIEXPORT jint JNICALL
+Java_hdf_hdf5lib_HDF5Constants_H5F_1LIBVER_1ERROR(JNIEnv *env, jclass cls){return H5F_LIBVER_ERROR;}
+JNIEXPORT jint JNICALL
Java_hdf_hdf5lib_HDF5Constants_H5F_1LIBVER_1EARLIEST(JNIEnv *env, jclass cls){return H5F_LIBVER_EARLIEST;}
JNIEXPORT jint JNICALL
+Java_hdf_hdf5lib_HDF5Constants_H5F_1LIBVER_1V18(JNIEnv *env, jclass cls){return H5F_LIBVER_V18;}
+JNIEXPORT jint JNICALL
+Java_hdf_hdf5lib_HDF5Constants_H5F_1LIBVER_1V110(JNIEnv *env, jclass cls){return H5F_LIBVER_V110;}
+JNIEXPORT jint JNICALL
+Java_hdf_hdf5lib_HDF5Constants_H5F_1LIBVER_1NBOUNDS(JNIEnv *env, jclass cls){return H5F_LIBVER_NBOUNDS;}
+JNIEXPORT jint JNICALL
Java_hdf_hdf5lib_HDF5Constants_H5F_1LIBVER_1LATEST(JNIEnv *env, jclass cls){return H5F_LIBVER_LATEST;}
JNIEXPORT jint JNICALL
Java_hdf_hdf5lib_HDF5Constants_H5F_1OBJ_1ALL(JNIEnv *env, jclass cls) { return H5F_OBJ_ALL; }
diff --git a/java/src/jni/h5dImp.c b/java/src/jni/h5dImp.c
index 66efed0..9784055 100644
--- a/java/src/jni/h5dImp.c
+++ b/java/src/jni/h5dImp.c
@@ -1019,7 +1019,7 @@ Java_hdf_hdf5lib_H5_H5DreadVL
} /* end else */
return (jint)status;
-} /* end Java_hdf_hdf5lib_H5_H5Dread_1VLStrings */
+} /* end Java_hdf_hdf5lib_H5_H5Dread_1VL */
herr_t
H5DreadVL_asstr
diff --git a/java/src/jni/h5pImp.c b/java/src/jni/h5pImp.c
index dcfcd82..49cfeb9 100644
--- a/java/src/jni/h5pImp.c
+++ b/java/src/jni/h5pImp.c
@@ -2794,17 +2794,9 @@ Java_hdf_hdf5lib_H5_H5Pset_1libver_1bounds
{
herr_t retVal = -1;
- if ((H5F_libver_t)high != H5F_LIBVER_LATEST) {
- h5badArgument(env, "H5Pset_libver_bounds: invalid high library version bound");
- } /* end if */
- else if(((H5F_libver_t)low !=H5F_LIBVER_EARLIEST) && ((H5F_libver_t)low != H5F_LIBVER_LATEST)) {
- h5badArgument(env, "H5Pset_libver_bounds: invalid low library version bound");
- } /* end else if */
- else {
- retVal = H5Pset_libver_bounds((hid_t)fapl_id, (H5F_libver_t)low, (H5F_libver_t)high);
- if(retVal < 0)
- h5libraryError(env);
- } /* end else */
+ retVal = H5Pset_libver_bounds((hid_t)fapl_id, (H5F_libver_t)low, (H5F_libver_t)high);
+ if(retVal < 0)
+ h5libraryError(env);
return (jint)retVal;
} /* end Java_hdf_hdf5lib_H5_H5Pset_1libver_1bounds */
@@ -5733,6 +5725,217 @@ Java_hdf_hdf5lib_H5_H5Pset_1metadata_1read_1attempts
} /* end else */
} /* end Java_hdf_hdf5lib_H5_H5Pset_1metadata_1read_1attempts */
+
+/*
+ * Class: hdf_hdf5lib_H5
+ * Method: H5Pset_virtual_prefix
+ * Signature: (JLjava/lang/String;)V
+ */
+JNIEXPORT void JNICALL
+Java_hdf_hdf5lib_H5_H5Pset_1virtual_1prefix
+ (JNIEnv *env, jclass clss, jlong dapl_id, jstring prefix)
+{
+ herr_t retVal = -1;
+ const char *aName;
+
+ PIN_JAVA_STRING(prefix, aName);
+ if (aName != NULL) {
+ retVal = H5Pset_virtual_prefix((hid_t)dapl_id, aName);
+
+ UNPIN_JAVA_STRING(prefix, aName);
+
+ if(retVal < 0)
+ h5libraryError(env);
+ }
+} /* end Java_hdf_hdf5lib_H5_H5Pset_1virtual_1prefix */
+
+/*
+ * Class: hdf_hdf5lib_H5
+ * Method: H5Pget_virtual_prefix
+ * Signature: (J)Ljava/lang/String;
+ */
+JNIEXPORT jstring JNICALL
+Java_hdf_hdf5lib_H5_H5Pget_1virtual_1prefix
+ (JNIEnv *env, jclass clss, jlong dapl_id)
+{
+ size_t size = 0;
+ char *pre;
+ jlong prefix_size = -1;
+ jstring str = NULL;
+
+ prefix_size = (jlong)H5Pget_virtual_prefix((hid_t)dapl_id, (char*)NULL, size);
+ if(prefix_size < 0) {
+ h5libraryError(env);
+ } /* end if */
+ else {
+ size = (size_t)prefix_size + 1;/* add extra space for the null terminator */
+ pre = (char*)HDmalloc(sizeof(char)*size);
+ if (pre == NULL) {
+ h5outOfMemory(env, "H5Pget_virtual_prefix: malloc failed ");
+ } /* end if */
+ else {
+ prefix_size = (jlong)H5Pget_virtual_prefix((hid_t)dapl_id, (char*)pre, size);
+
+ if (prefix_size >= 0) {
+ str = ENVPTR->NewStringUTF(ENVPAR pre);
+ HDfree(pre);
+ if (str == NULL)
+ h5JNIFatalError( env, "H5Pget_virtual_prefix: return string not allocated");
+ } /* end if */
+ else {
+ HDfree(pre);
+ h5libraryError(env);
+ } /* end else */
+ } /* end else */
+ } /* end else */
+
+ return (jstring)str;
+} /* end Java_hdf_hdf5lib_H5_H5Pget_1virtual_1prefix */
+
+/*
+ * Class: hdf_hdf5lib_H5
+ * Method: H5Pset_efile_prefix
+ * Signature: (JLjava/lang/String;)V
+ */
+JNIEXPORT void JNICALL
+Java_hdf_hdf5lib_H5_H5Pset_1efile_1prefix
+ (JNIEnv *env, jclass clss, jlong dapl_id, jstring prefix)
+{
+ herr_t retVal = -1;
+ const char *aName;
+
+ PIN_JAVA_STRING(prefix, aName);
+ if (aName != NULL) {
+ retVal = H5Pset_efile_prefix((hid_t)dapl_id, aName);
+
+ UNPIN_JAVA_STRING(prefix, aName);
+
+ if(retVal < 0)
+ h5libraryError(env);
+ }
+} /* end Java_hdf_hdf5lib_H5_H5Pset_1efile_1prefix */
+
+/*
+ * Class: hdf_hdf5lib_H5
+ * Method: H5Pget_efile_prefix
+ * Signature: (J)Ljava/lang/String;
+ */
+JNIEXPORT jstring JNICALL
+Java_hdf_hdf5lib_H5_H5Pget_1efile_1prefix
+ (JNIEnv *env, jclass clss, jlong dapl_id)
+{
+ size_t size = 0;
+ char *pre;
+ jlong prefix_size = -1;
+ jstring str = NULL;
+
+ prefix_size = (jlong)H5Pget_efile_prefix((hid_t)dapl_id, (char*)NULL, size);
+ if(prefix_size < 0) {
+ h5libraryError(env);
+ } /* end if */
+ else {
+ size = (size_t)prefix_size + 1;/* add extra space for the null terminator */
+ pre = (char*)HDmalloc(sizeof(char)*size);
+ if (pre == NULL) {
+ h5outOfMemory(env, "H5Pget_efile_prefix: malloc failed ");
+ } /* end if */
+ else {
+ prefix_size = (jlong)H5Pget_efile_prefix((hid_t)dapl_id, (char*)pre, size);
+
+ if (prefix_size >= 0) {
+ str = ENVPTR->NewStringUTF(ENVPAR pre);
+ HDfree(pre);
+ if (str == NULL)
+ h5JNIFatalError( env, "H5Pget_efile_prefix: return string not allocated");
+ } /* end if */
+ else {
+ HDfree(pre);
+ h5libraryError(env);
+ } /* end else */
+ } /* end else */
+ } /* end else */
+
+ return (jstring)str;
+} /* end Java_hdf_hdf5lib_H5_H5Pget_1efile_1prefix */
+
+/*
+ * Class: hdf_hdf5lib_H5
+ * Method: H5Pset_evict_on_close
+ * Signature: (JZ)V
+ */
+JNIEXPORT void JNICALL
+Java_hdf_hdf5lib_H5_H5Pset_1evict_1on_1close
+ (JNIEnv *env, jclass clss, jlong fapl_id, jboolean evict_on_close)
+{
+ herr_t retVal = -1;
+ hbool_t evict_on_close_val;
+
+ if (evict_on_close == JNI_TRUE)
+ evict_on_close_val = TRUE;
+ else
+ evict_on_close_val = FALSE;
+
+ retVal = H5Pset_evict_on_close((hid_t)fapl_id, (hbool_t)evict_on_close_val);
+ if (retVal < 0)
+ h5libraryError(env);
+} /* end Java_hdf_hdf5lib_H5_H5Pset_1evict_1on_1close */
+
+/*
+ * Class: hdf_hdf5lib_H5
+ * Method: H5Pget_evict_on_close
+ * Signature: (J)Z
+ */
+JNIEXPORT jboolean JNICALL
+Java_hdf_hdf5lib_H5_H5Pget_1evict_1on_1close
+ (JNIEnv *env, jclass clss, jlong fapl_id)
+{
+ hbool_t evict_on_close_val = FALSE;
+ jboolean bval = JNI_FALSE;
+
+ if (H5Pget_evict_on_close((hid_t)fapl_id, (hbool_t *)&evict_on_close_val) < 0) {
+ h5libraryError(env);
+ } /* end if */
+ else {
+ if (evict_on_close_val == TRUE)
+ bval = JNI_TRUE;
+ } /* end else */
+
+ return bval;
+} /* end Java_hdf_hdf5lib_H5_H5Pget_1evict_1on_1close */
+
+/*
+ * Class: hdf_hdf5lib_H5
+ * Method: H5Pset_chunk_opts
+ * Signature: (JI)V
+ */
+JNIEXPORT void JNICALL
+Java_hdf_hdf5lib_H5_H5Pset_1chunk_1opts
+ (JNIEnv *env, jclass clss, jlong dcpl_id, jint opts)
+{
+ herr_t retVal = -1;
+
+ retVal = H5Pset_chunk_opts((hid_t)dcpl_id, (unsigned)opts);
+ if (retVal < 0)
+ h5libraryError(env);
+} /* end Java_hdf_hdf5lib_H5_H5Pset_1chunk_1opts */
+
+/*
+ * Class: hdf_hdf5lib_H5
+ * Method: H5Pget_chunk_opts
+ * Signature: (J)I
+ */
+JNIEXPORT jint JNICALL
+Java_hdf_hdf5lib_H5_H5Pget_1chunk_1opts
+ (JNIEnv *env, jclass clss, jlong dcpl_id)
+{
+ unsigned opts = 0;
+
+ if (H5Pget_chunk_opts((hid_t)dcpl_id, opts) < 0)
+ h5libraryError(env);
+
+ return (jint)opts;
+} /* end Java_hdf_hdf5lib_H5_H5Pget_1chunk_1opts */
+
#ifdef __cplusplus
} /* end extern "C" */
#endif /* __cplusplus */
diff --git a/java/src/jni/h5pImp.h b/java/src/jni/h5pImp.h
index d413f69..1d12e3d 100644
--- a/java/src/jni/h5pImp.h
+++ b/java/src/jni/h5pImp.h
@@ -1533,7 +1533,6 @@ JNIEXPORT jlong JNICALL
Java_hdf_hdf5lib_H5_H5Pget_1metadata_1read_1attempts
(JNIEnv *, jclass, jlong);
-
/*
* Class: hdf_hdf5lib_H5
* Method: H5Pset_metadata_read_attempts
@@ -1543,6 +1542,78 @@ JNIEXPORT void JNICALL
Java_hdf_hdf5lib_H5_H5Pset_1metadata_1read_1attempts
(JNIEnv *, jclass, jlong, jlong);
+/*
+ * Class: hdf_hdf5lib_H5
+ * Method: H5Pset_virtual_prefix
+ * Signature: (JLjava/lang/String;)V
+ */
+JNIEXPORT void JNICALL
+Java_hdf_hdf5lib_H5_H5Pset_1virtual_1prefix
+(JNIEnv *, jclass, jlong, jstring);
+
+/*
+ * Class: hdf_hdf5lib_H5
+ * Method: H5Pget_virtual_prefix
+ * Signature: (J)Ljava/lang/String;
+ */
+JNIEXPORT jstring JNICALL
+Java_hdf_hdf5lib_H5_H5Pget_1virtual_1prefix
+(JNIEnv *, jclass, jlong);
+
+/*
+ * Class: hdf_hdf5lib_H5
+ * Method: H5Pset_efile_prefix
+ * Signature: (JLjava/lang/String;)V
+ */
+JNIEXPORT void JNICALL
+Java_hdf_hdf5lib_H5_H5Pset_1efile_1prefix
+(JNIEnv *, jclass, jlong, jstring);
+
+/*
+ * Class: hdf_hdf5lib_H5
+ * Method: H5Pget_efile_prefix
+ * Signature: (J)Ljava/lang/String;
+ */
+JNIEXPORT jstring JNICALL
+Java_hdf_hdf5lib_H5_H5Pget_1efile_1prefix
+(JNIEnv *, jclass, jlong);
+
+/*
+ * Class: hdf_hdf5lib_H5
+ * Method: H5Pset_evict_on_close
+ * Signature: (JZ)V
+ */
+JNIEXPORT void JNICALL
+Java_hdf_hdf5lib_H5_H5Pset_1evict_1on_1close
+(JNIEnv *, jclass, jlong, jboolean);
+
+/*
+ * Class: hdf_hdf5lib_H5
+ * Method: H5Pget_evict_on_close
+ * Signature: (J)Z
+ */
+JNIEXPORT jboolean JNICALL
+Java_hdf_hdf5lib_H5_H5Pget_1evict_1on_1close
+(JNIEnv *, jclass, jlong);
+
+/*
+ * Class: hdf_hdf5lib_H5
+ * Method: H5Pset_chunk_opts
+ * Signature: (JI)V
+ */
+JNIEXPORT void JNICALL
+Java_hdf_hdf5lib_H5_H5Pset_1chunk_1opts
+(JNIEnv *, jclass, jlong, jint);
+
+/*
+ * Class: hdf_hdf5lib_H5
+ * Method: H5Pget_chunk_opts
+ * Signature: (J)I
+ */
+JNIEXPORT jint JNICALL
+Java_hdf_hdf5lib_H5_H5Pget_1chunk_1opts
+(JNIEnv *, jclass, jlong);
+
#ifdef __cplusplus
} /* end extern "C" */
diff --git a/java/src/jni/h5util.c b/java/src/jni/h5util.c
index bd9fc0f..fdabd76 100644
--- a/java/src/jni/h5util.c
+++ b/java/src/jni/h5util.c
@@ -41,6 +41,9 @@ jobject get_callback;
jobject set_callback;
jobject delete_callback;
+H5E_auto2_t efunc;
+void *edata;
+
/********************/
/* Local Prototypes */
/********************/
generated by cgit v0.12 at 2024-08-26 20:27:51 (GMT)