diff options
Diffstat (limited to 'java/src')
| -rw-r--r-- | java/src/hdf/hdf5lib/H5.java | 121 | ||||
| -rw-r--r-- | java/src/hdf/hdf5lib/HDF5Constants.java | 24 | ||||
| -rw-r--r-- | java/src/jni/h5Constants.c | 12 | ||||
| -rw-r--r-- | java/src/jni/h5pImp.c | 115 | ||||
| -rw-r--r-- | java/src/jni/h5pImp.h | 51 |
5 files changed, 240 insertions, 83 deletions
diff --git a/java/src/hdf/hdf5lib/H5.java b/java/src/hdf/hdf5lib/H5.java index 02d35ba..5b35d17 100644 --- a/java/src/hdf/hdf5lib/H5.java +++ b/java/src/hdf/hdf5lib/H5.java @@ -5356,39 +5356,24 @@ public class H5 implements java.io.Serializable { throws HDF5LibraryException, IllegalArgumentException; /** - * H5Pset_file_space sets the file space management strategy for the file associated with fcpl_id to strategy. + * H5Pset_file_space_strategy sets the file space management strategy for the file associated with fcpl_id to strategy. * There are four strategies that applications can select and they are described in the Parameters section. * * @param fcpl_id * IN: File creation property list identifier * @param strategy * IN: The strategy for file space management. - * Passing a value of zero (0) indicates that the value of strategy is not to be modified. - * H5F_FILE_SPACE_ALL_PERSIST - * With this strategy, the free-space managers track the free space that results from the - * manipulation of HDF5 objects in the HDF5 file. The free space information is saved when the - * file is closed, and reloaded when the file is reopened. When space is needed for file metadata - * or raw data, the HDF5 library first requests space from the library's free-space managers. - * If the request is not satisfied, the library requests space from the aggregators. If the request - * is still not satisfied, the library requests space from the virtual file driver. That is, the - * library will use all of the mechanisms for allocating space. - * H5F_FILE_SPACE_ALL (Default file space management strategy) - * With this strategy, the free-space managers track the free space that results from the manipulation - * of HDF5 objects in the HDF5 file. The free space information is NOT saved when the file is closed - * and the free space that exists upon file closing becomes unaccounted space in the file. - * Like the previous strategy, the library will try all of the mechanisms for allocating space. When - * space is needed for file metadata or raw data, the library first requests space from the free-space - * managers. If the request is not satisfied, the library requests space from the aggregators. If the - * request is still not satisfied, the library requests space from the virtual file driver. - * H5F_FILE_SPACE_AGGR_VFD - * With this strategy, the library does not track free space that results from the manipulation of HDF5 - * obejcts in the HDF5 file and the free space becomes unaccounted space in the file. - * When space is needed for file metadata or raw data, the library first requests space from the - * aggregators. If the request is not satisfied, the library requests space from the virtual file driver. - * H5F_FILE_SPACE_VFD - * With this strategy, the library does not track free space that results from the manipulation of HDF5 - * obejcts in the HDF5 file and the free space becomes unaccounted space in the file. - * When space is needed for file metadata or raw data, the library requests space from the virtual file driver. + * H5F_FSPACE_STRATEGY_FSM_AGGR + * Mechanisms: free-space managers, aggregators, and virtual file drivers + * This is the library default when not set. + * H5F_FSPACE_STRATEGY_PAGE + * Mechanisms: free-space managers with embedded paged aggregation and virtual file drivers + * H5F_FSPACE_STRATEGY_AGGR + * Mechanisms: aggregators and virtual file drivers + * H5F_FSPACE_STRATEGY_NONE + * Mechanisms: virtual file drivers + * @param persist + * IN: True to persist free-space. * @param threshold * IN: The free-space section threshold. The library default is 1, which is to track all free-space sections. * Passing a value of zero (0) indicates that the value of threshold is not to be modified. @@ -5399,28 +5384,100 @@ public class H5 implements java.io.Serializable { * - Invalid values of max_list and min_btree. * **/ - public synchronized static native void H5Pset_file_space(long fcpl_id, int strategy, long threshold) + public synchronized static native void H5Pset_file_space_strategy(long fcpl_id, int strategy, boolean persist, long threshold) throws HDF5LibraryException, IllegalArgumentException; /** - * H5Pget_file_space provides the means for applications to manage the HDF5 file's file space for their specific needs. + * H5Pget_file_space_strategy provides the means for applications to manage the HDF5 file's file space strategy for their specific needs. * * @param fcpl_id * IN: File creation property list identifier - * @param strategy - * IN/OUT: The current file space management strategy in use for the file. NULL, strategy not queried. + * @param persist + * IN/OUT: The current free-space persistence. NULL, persist not queried. * @param threshold * IN/OUT: The current free-space section threshold. NULL, threshold not queried. * + * @return the current free-space strategy. + * + * @exception HDF5LibraryException + * - Error from the HDF-5 Library. + * @exception IllegalArgumentException + * - Invalid values of max_list and min_btree. + * + **/ + public synchronized static native int H5Pget_file_space_strategy(long fcpl_id, boolean[] persist, long[] threshold) + throws HDF5LibraryException, IllegalArgumentException; + + /** + * H5Pget_file_space_strategy_persist provides the means for applications to manage the HDF5 file's file space strategy for their specific needs. + * + * @param fcpl_id + * IN: File creation property list identifier + * + * @return the current free-space persistence. + * * @exception HDF5LibraryException * - Error from the HDF-5 Library. * @exception IllegalArgumentException * - Invalid values of max_list and min_btree. * **/ - public synchronized static native void H5Pget_file_space(long fcpl_id, int[] strategy, long[] threshold) + public synchronized static native boolean H5Pget_file_space_strategy_persist(long fcpl_id) throws HDF5LibraryException, IllegalArgumentException; + /** + * H5Pget_file_space_strategy_threshold provides the means for applications to manage the HDF5 file's file space strategy for their specific needs. + * + * @param fcpl_id + * IN: File creation property list identifier + * + * @return the current free-space section threshold. + * + * @exception HDF5LibraryException + * - Error from the HDF-5 Library. + * @exception IllegalArgumentException + * - Invalid values of max_list and min_btree. + * + **/ + public synchronized static native long H5Pget_file_space_strategy_threshold(long fcpl_id) + throws HDF5LibraryException, IllegalArgumentException; + + /** + * H5Pset_file_space_page_size retrieves the file space page size for aggregating small metadata or raw data. + * + * @param fcpl_id + * IN: File creation property list identifier + * @param page_size + * IN: the file space page size. + * + * + * @exception HDF5LibraryException + * - Error from the HDF-5 Library. + * @exception IllegalArgumentException + * - Invalid values of max_list and min_btree. + * + **/ + public synchronized static native void H5Pset_file_space_page_size(long fcpl_id, long page_size) + throws HDF5LibraryException, IllegalArgumentException; + + /** + * H5Pget_file_space_page_size Sets the file space page size for paged aggregation. + * + * @param fcpl_id + * IN: File creation property list identifier + * + * @return the current file space page size. + * + * @exception HDF5LibraryException + * - Error from the HDF-5 Library. + * @exception IllegalArgumentException + * - Invalid values of max_list and min_btree. + * + **/ + public synchronized static native long H5Pget_file_space_page_size(long fcpl_id) + throws HDF5LibraryException, IllegalArgumentException; + + // File access property list (FAPL) routines /** diff --git a/java/src/hdf/hdf5lib/HDF5Constants.java b/java/src/hdf/hdf5lib/HDF5Constants.java index acd3eb5..9773100 100644 --- a/java/src/hdf/hdf5lib/HDF5Constants.java +++ b/java/src/hdf/hdf5lib/HDF5Constants.java @@ -219,12 +219,12 @@ public class HDF5Constants { public static final int H5F_SCOPE_GLOBAL = H5F_SCOPE_GLOBAL(); public static final int H5F_SCOPE_LOCAL = H5F_SCOPE_LOCAL(); public static final int H5F_UNLIMITED = H5F_UNLIMITED(); - public static final int H5F_FILE_SPACE_DEFAULT = H5F_FILE_SPACE_DEFAULT(); - public static final int H5F_FILE_SPACE_ALL_PERSIST = H5F_FILE_SPACE_ALL_PERSIST(); - public static final int H5F_FILE_SPACE_ALL = H5F_FILE_SPACE_ALL(); - public static final int H5F_FILE_SPACE_AGGR_VFD = H5F_FILE_SPACE_AGGR_VFD(); - public static final int H5F_FILE_SPACE_VFD = H5F_FILE_SPACE_VFD(); - public static final int H5F_FILE_SPACE_NTYPES = H5F_FILE_SPACE_NTYPES(); + + public static final int H5F_FSPACE_STRATEGY_FSM_AGGR = H5F_FSPACE_STRATEGY_FSM_AGGR(); + public static final int H5F_FSPACE_STRATEGY_AGGR = H5F_FSPACE_STRATEGY_AGGR(); + public static final int H5F_FSPACE_STRATEGY_PAGE = H5F_FSPACE_STRATEGY_PAGE(); + public static final int H5F_FSPACE_STRATEGY_NONE = H5F_FSPACE_STRATEGY_NONE(); + public static final int H5F_FSPACE_STRATEGY_NTYPES = H5F_FSPACE_STRATEGY_NTYPES(); public static final long H5FD_CORE = H5FD_CORE(); public static final long H5FD_DIRECT = H5FD_DIRECT(); @@ -1024,17 +1024,15 @@ public class HDF5Constants { private static native final int H5F_UNLIMITED(); - private static native final int H5F_FILE_SPACE_DEFAULT(); - - private static native final int H5F_FILE_SPACE_ALL_PERSIST(); + private static native final int H5F_FSPACE_STRATEGY_FSM_AGGR(); - private static native final int H5F_FILE_SPACE_ALL(); + private static native final int H5F_FSPACE_STRATEGY_AGGR(); - private static native final int H5F_FILE_SPACE_AGGR_VFD(); + private static native final int H5F_FSPACE_STRATEGY_PAGE(); - private static native final int H5F_FILE_SPACE_VFD(); + private static native final int H5F_FSPACE_STRATEGY_NONE(); - private static native final int H5F_FILE_SPACE_NTYPES(); + private static native final int H5F_FSPACE_STRATEGY_NTYPES(); private static native final long H5FD_CORE(); diff --git a/java/src/jni/h5Constants.c b/java/src/jni/h5Constants.c index ccd0b91..c6aa16c 100644 --- a/java/src/jni/h5Constants.c +++ b/java/src/jni/h5Constants.c @@ -403,17 +403,15 @@ JNIEXPORT jint JNICALL Java_hdf_hdf5lib_HDF5Constants_H5F_1UNLIMITED(JNIEnv *env, jclass cls) { return (jint)H5F_UNLIMITED; } JNIEXPORT jint JNICALL -Java_hdf_hdf5lib_HDF5Constants_H5F_1FILE_1SPACE_1DEFAULT(JNIEnv *env, jclass cls) { return H5F_FILE_SPACE_DEFAULT; } +Java_hdf_hdf5lib_HDF5Constants_H5F_1FSPACE_1STRATEGY_1FSM_1AGGR(JNIEnv *env, jclass cls) { return H5F_FSPACE_STRATEGY_FSM_AGGR; } JNIEXPORT jint JNICALL -Java_hdf_hdf5lib_HDF5Constants_H5F_1FILE_1SPACE_1ALL_1PERSIST(JNIEnv *env, jclass cls) { return H5F_FILE_SPACE_ALL_PERSIST; } +Java_hdf_hdf5lib_HDF5Constants_H5F_1FSPACE_1STRATEGY_1AGGR(JNIEnv *env, jclass cls) { return H5F_FSPACE_STRATEGY_AGGR; } JNIEXPORT jint JNICALL -Java_hdf_hdf5lib_HDF5Constants_H5F_1FILE_1SPACE_1ALL(JNIEnv *env, jclass cls) { return H5F_FILE_SPACE_ALL; } +Java_hdf_hdf5lib_HDF5Constants_H5F_1FSPACE_1STRATEGY_1PAGE(JNIEnv *env, jclass cls) { return H5F_FSPACE_STRATEGY_PAGE; } JNIEXPORT jint JNICALL -Java_hdf_hdf5lib_HDF5Constants_H5F_1FILE_1SPACE_1AGGR_1VFD(JNIEnv *env, jclass cls) { return H5F_FILE_SPACE_AGGR_VFD; } +Java_hdf_hdf5lib_HDF5Constants_H5F_1FSPACE_1STRATEGY_1NONE(JNIEnv *env, jclass cls) { return H5F_FSPACE_STRATEGY_NONE; } JNIEXPORT jint JNICALL -Java_hdf_hdf5lib_HDF5Constants_H5F_1FILE_1SPACE_1VFD(JNIEnv *env, jclass cls) { return H5F_FILE_SPACE_VFD; } -JNIEXPORT jint JNICALL -Java_hdf_hdf5lib_HDF5Constants_H5F_1FILE_1SPACE_1NTYPES(JNIEnv *env, jclass cls) { return H5F_FILE_SPACE_NTYPES; } +Java_hdf_hdf5lib_HDF5Constants_H5F_1FSPACE_1STRATEGY_1NTYPES(JNIEnv *env, jclass cls) { return H5F_FSPACE_STRATEGY_NTYPES; } JNIEXPORT jlong JNICALL Java_hdf_hdf5lib_HDF5Constants_H5FD_1CORE(JNIEnv *env, jclass cls) { return H5FD_CORE; } diff --git a/java/src/jni/h5pImp.c b/java/src/jni/h5pImp.c index 1368139..f39f0e6 100644 --- a/java/src/jni/h5pImp.c +++ b/java/src/jni/h5pImp.c @@ -4883,61 +4883,130 @@ Java_hdf_hdf5lib_H5_H5Pset_1virtual_1printf_1gap /* * Class: hdf_hdf5lib_H5 - * Method: H5Pget_file_space - * Signature: (J[I[J)V + * Method: H5Pget_file_space_strategy + * Signature: (J[Z[J)I */ -JNIEXPORT void JNICALL -Java_hdf_hdf5lib_H5_H5Pget_1file_1space - (JNIEnv *env, jclass clss, jlong fcpl_id, jintArray strategy, jlongArray threshold) +JNIEXPORT jint JNICALL +Java_hdf_hdf5lib_H5_H5Pget_1file_1space_1strategy + (JNIEnv *env, jclass clss, jlong fcpl_id, jbooleanArray persist, jlongArray threshold) { herr_t status = -1; - jint *thestrategyArray = NULL; + H5F_fspace_strategy_t thestrategy = H5F_FSPACE_STRATEGY_FSM_AGGR; /* Library default */ jlong *thethresholdArray = NULL; + jboolean *thepersistArray = NULL; jboolean isCopy; - if (strategy) { - thestrategyArray = (jint*)ENVPTR->GetIntArrayElements(ENVPAR strategy, &isCopy); - if (thestrategyArray == NULL) { - h5JNIFatalError(env, "H5Pget_file_space: strategy not pinned"); - return; + if (persist) { + thepersistArray = (jboolean*)ENVPTR->GetBooleanArrayElements(ENVPAR persist, &isCopy); + if (thepersistArray == NULL) { + h5JNIFatalError(env, "H5Pget_file_space: persist not pinned"); + return -1; } } if (threshold) { thethresholdArray = (jlong*)ENVPTR->GetLongArrayElements(ENVPAR threshold, &isCopy); if (thethresholdArray == NULL) { - if (strategy) ENVPTR->ReleaseIntArrayElements(ENVPAR strategy, thestrategyArray, JNI_ABORT); + if (persist) ENVPTR->ReleaseBooleanArrayElements(ENVPAR persist, thepersistArray, JNI_ABORT); h5JNIFatalError(env, "H5Pget_file_space: threshold not pinned"); - return; + return -1; } /* end if */ } /* end if */ - status = H5Pget_file_space((hid_t)fcpl_id, (H5F_file_space_type_t*)thestrategyArray, (hsize_t*)thethresholdArray); + status = H5Pget_file_space_strategy((hid_t)fcpl_id, &thestrategy, (hbool_t*)thepersistArray, (hsize_t*)thethresholdArray); if (status < 0) { - if (strategy) ENVPTR->ReleaseIntArrayElements(ENVPAR strategy, thestrategyArray, JNI_ABORT); + if (persist) ENVPTR->ReleaseBooleanArrayElements(ENVPAR persist, thepersistArray, JNI_ABORT); if (threshold) ENVPTR->ReleaseLongArrayElements(ENVPAR threshold, thethresholdArray, JNI_ABORT); h5libraryError(env); } /* end if */ else { - if (strategy) ENVPTR->ReleaseIntArrayElements(ENVPAR strategy, thestrategyArray, 0); + if (persist) ENVPTR->ReleaseBooleanArrayElements(ENVPAR persist, thepersistArray, 0); if (threshold) ENVPTR->ReleaseLongArrayElements(ENVPAR threshold, thethresholdArray, 0); } /* end else */ -} /* end Java_hdf_hdf5lib_H5_H5Pget_1file_1space */ + return (jint)thestrategy; +} /* end Java_hdf_hdf5lib_H5_H5Pget_1file_1space_1strategy */ + +/* + * Class: hdf_hdf5lib_H5 + * Method: H5Pget_file_space_strategy_persist + * Signature: (J)Z + */ +JNIEXPORT jboolean JNICALL +Java_hdf_hdf5lib_H5_H5Pget_1file_1space_1strategy_1persist + (JNIEnv *env, jclass clss, jlong fcpl_id) +{ + herr_t status = -1; + hbool_t thepersist = FALSE; + + status = H5Pget_file_space_strategy((hid_t)fcpl_id, NULL, &thepersist, NULL); + + if (status < 0) + h5libraryError(env); + + return (jboolean)thepersist; +} /* end Java_hdf_hdf5lib_H5_H5Pget_1file_1space_1strategy_1persist */ + +/* + * Class: hdf_hdf5lib_H5 + * Method: H5Pget_file_space_strategy_threshold + * Signature: (J)J + */ +JNIEXPORT jlong JNICALL +Java_hdf_hdf5lib_H5_H5Pget_1file_1space_1strategy_1threshold + (JNIEnv *env, jclass clss, jlong fcpl_id) +{ + herr_t status = -1; + hsize_t thethreshold; + + status = H5Pget_file_space_strategy((hid_t)fcpl_id, NULL, NULL, &thethreshold); + + if (status < 0) + h5libraryError(env); + + return (jlong)thethreshold; +} /* end Java_hdf_hdf5lib_H5_H5Pget_1file_1space_1threshold */ /* * Class: hdf_hdf5lib_H5 - * Method: H5Pset_file_space - * Signature: (JIJ)V + * Method: H5Pset_file_space_strategy + * Signature: (JIZJ)V */ JNIEXPORT void JNICALL -Java_hdf_hdf5lib_H5_H5Pset_1file_1space - (JNIEnv *env, jclass clss, jlong fcpl_id, jint strategy, jlong threshold) +Java_hdf_hdf5lib_H5_H5Pset_1file_1space_1strategy + (JNIEnv *env, jclass clss, jlong fcpl_id, jint strategy, jboolean persist, jlong threshold) { - if (H5Pset_file_space((hid_t)fcpl_id, (H5F_file_space_type_t)strategy, (hsize_t)threshold) < 0) + if (H5Pset_file_space_strategy((hid_t)fcpl_id, (H5F_fspace_strategy_t)strategy, (hbool_t)persist, (hsize_t)threshold) < 0) h5libraryError(env); -} /* end Java_hdf_hdf5lib_H5_H5Pset_1file_1space */ +} /* end Java_hdf_hdf5lib_H5_H5Pset_file_space_strategy */ +/* + * Class: hdf_hdf5lib_H5 + * Method: H5Pset_file_space_page_size + * Signature: (JJ)V + */ +JNIEXPORT void JNICALL +Java_hdf_hdf5lib_H5_H5Pset_1file_1space_1page_1size + (JNIEnv *env, jclass clss, jlong fcpl_id, jlong fsp_size) +{ + if (H5Pset_file_space_page_size((hid_t)fcpl_id, (hsize_t)fsp_size) < 0) + h5libraryError(env); +} + +/* + * Class: hdf_hdf5lib_H5 + * Method: H5Pget_file_space_page_size + * Signature: (J)J + */ +JNIEXPORT jlong JNICALL +Java_hdf_hdf5lib_H5_H5Pget_1file_1space_1page_1size + (JNIEnv *env, jclass clss, jlong fcpl_id) +{ + hsize_t fsp_size = 0; + if (H5Pget_file_space_page_size((hid_t)fcpl_id, &fsp_size) < 0) + h5libraryError(env); + return (jlong)fsp_size; +} static herr_t H5P_cls_create_cb diff --git a/java/src/jni/h5pImp.h b/java/src/jni/h5pImp.h index 927501e..03b0e03 100644 --- a/java/src/jni/h5pImp.h +++ b/java/src/jni/h5pImp.h @@ -1385,22 +1385,57 @@ Java_hdf_hdf5lib_H5_H5Pset_1virtual_1printf_1gap /* * Class: hdf_hdf5lib_H5 - * Method: H5Pget_file_space - * Signature: (J[I[J)V + * Method: H5Pget_file_space_strategy + * Signature: (J[Z[J)I + */ +JNIEXPORT jint JNICALL +Java_hdf_hdf5lib_H5_H5Pget_1file_1space_1strategy +(JNIEnv *, jclass, jlong, jbooleanArray, jlongArray); + +/* + * Class: hdf_hdf5lib_H5 + * Method: H5Pget_file_space_strategy_persist + * Signature: (J)Z + */ +JNIEXPORT jboolean JNICALL +Java_hdf_hdf5lib_H5_H5Pget_1file_1space_1strategy_1persist +(JNIEnv *, jclass, jlong); + +/* + * Class: hdf_hdf5lib_H5 + * Method: H5Pget_file_space_strategy_threshold + * Signature: (J)J + */ +JNIEXPORT jlong JNICALL +Java_hdf_hdf5lib_H5_H5Pget_1file_1space_1strategy_1threshold +(JNIEnv *, jclass, jlong); + +/* + * Class: hdf_hdf5lib_H5 + * Method: H5Pset_file_space_strategy + * Signature: (JIZJ)V */ JNIEXPORT void JNICALL -Java_hdf_hdf5lib_H5_H5Pget_1file_1space -(JNIEnv *, jclass, jlong, jintArray, jlongArray); +Java_hdf_hdf5lib_H5_H5Pset_1file_1space_1strategy +(JNIEnv *, jclass, jlong, jint, jboolean, jlong); +/* + * Class: hdf_hdf5lib_H5 + * Method: H5Pget_file_space_page_size + * Signature: (J)J + */ +JNIEXPORT jlong JNICALL +Java_hdf_hdf5lib_H5_H5Pget_1file_1space_1page_1size +(JNIEnv *, jclass, jlong); /* * Class: hdf_hdf5lib_H5 - * Method: H5Pset_file_space - * Signature: (JIJ)V + * Method: H5Pset_file_space_page_size + * Signature: (JJ)V */ JNIEXPORT void JNICALL -Java_hdf_hdf5lib_H5_H5Pset_1file_1space -(JNIEnv *, jclass, jlong, jint, jlong); +Java_hdf_hdf5lib_H5_H5Pset_1file_1space_1page_1size +(JNIEnv *, jclass, jlong, jlong); /* * Class: hdf_hdf5lib_H5 |