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HDFFV-10868 - add H5Sselect API java wrappers.

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Also added javadoc comments to H5E and H5s constants.
This commit is contained in:
Allen Byrne
2020-10-27 16:48:02 -05:00
parent 313a8c8546
commit f8b3f576ce
8 changed files with 1910 additions and 320 deletions
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738
java/src/hdf/hdf5lib/H5.java
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@@ -10047,7 +10047,7 @@ public class H5 implements java.io.Serializable {
throws HDF5LibraryException, NullPointerException;
/**
* H5Pget_fapl_direct queries properties set by the H5Pset_fapl_core.
* H5Pget_fapl_direct queries properties set by the H5Pset_fapl_direct.
*
* @param fapl_id
* IN: File access property list identifier
@@ -11028,50 +11028,7 @@ public class H5 implements java.io.Serializable {
// //
// ////////////////////////////////////////////////////////////
/**
* H5Sclose releases a dataspace.
*
* @param space_id
* Identifier of dataspace to release.
*
* @return a non-negative value if successful
*
* @exception HDF5LibraryException
* - Error from the HDF-5 Library.
**/
public static int H5Sclose(long space_id) throws HDF5LibraryException {
if (space_id < 0)
return 0; // throw new HDF5LibraryException("Negative ID");;
log.trace("OPEN_IDS: H5Sclose remove {}", space_id);
OPEN_IDS.remove(space_id);
log.trace("OPEN_IDS: {}", OPEN_IDS.size());
return _H5Sclose(space_id);
}
private synchronized static native int _H5Sclose(long space_id) throws HDF5LibraryException;
/**
* H5Scopy creates a new dataspace which is an exact copy of the dataspace identified by space_id.
*
* @param space_id
* Identifier of dataspace to copy.
* @return a dataspace identifier if successful
*
* @exception HDF5LibraryException
* - Error from the HDF-5 Library.
**/
public static long H5Scopy(long space_id) throws HDF5LibraryException {
long id = _H5Scopy(space_id);
if (id > 0) {
log.trace("OPEN_IDS: H5Scopy add {}", id);
OPEN_IDS.add(id);
log.trace("OPEN_IDS: {}", OPEN_IDS.size());
}
return id;
}
private synchronized static native long _H5Scopy(long space_id) throws HDF5LibraryException;
/**************** Operations on dataspaces ********************/
/**
* H5Screate creates a new dataspace of a particular type.
@@ -11127,6 +11084,111 @@ public class H5 implements java.io.Serializable {
private synchronized static native long _H5Screate_simple(int rank, long[] dims, long[] maxdims)
throws HDF5Exception, NullPointerException;
/**
* H5Sset_extent_simple sets or resets the size of an existing dataspace.
*
* @param space_id
* Dataspace identifier.
* @param rank
* Rank, or dimensionality, of the dataspace.
* @param current_size
* Array containing current size of dataspace.
* @param maximum_size
* Array containing maximum size of dataspace.
*
* @return a dataspace identifier if successful
*
* @exception HDF5LibraryException
* - Error from the HDF-5 Library.
**/
public synchronized static native long H5Sset_extent_simple(long space_id, int rank, long[] current_size,
long[] maximum_size) throws HDF5LibraryException, NullPointerException;
/**
* H5Sset_extent_simple sets or resets the size of an existing dataspace.
*
* @param space_id
* Dataspace identifier.
* @param rank
* Rank, or dimensionality, of the dataspace.
* @param current_size
* Array containing current size of dataspace.
* @param maximum_size
* Array containing maximum size of dataspace.
*
* @return a dataspace identifier if successful
*
* @exception HDF5LibraryException
* - Error from the HDF-5 Library.
**/
public synchronized static long H5Sset_extent_simple(long space_id, int rank, byte[] current_size,
byte[] maximum_size) throws HDF5LibraryException, NullPointerException {
ByteBuffer csbb = ByteBuffer.wrap(current_size);
long[] lacs = (csbb.asLongBuffer()).array();
ByteBuffer maxsbb = ByteBuffer.wrap(maximum_size);
long[] lamaxs = (maxsbb.asLongBuffer()).array();
return H5Sset_extent_simple(space_id, rank, lacs, lamaxs);
}
/**
* H5Scopy creates a new dataspace which is an exact copy of the dataspace identified by space_id.
*
* @param space_id
* Identifier of dataspace to copy.
* @return a dataspace identifier if successful
*
* @exception HDF5LibraryException
* - Error from the HDF-5 Library.
**/
public static long H5Scopy(long space_id) throws HDF5LibraryException {
long id = _H5Scopy(space_id);
if (id > 0) {
log.trace("OPEN_IDS: H5Scopy add {}", id);
OPEN_IDS.add(id);
log.trace("OPEN_IDS: {}", OPEN_IDS.size());
}
return id;
}
private synchronized static native long _H5Scopy(long space_id) throws HDF5LibraryException;
/**
* H5Sclose releases a dataspace.
*
* @param space_id
* Identifier of dataspace to release.
*
* @return a non-negative value if successful
*
* @exception HDF5LibraryException
* - Error from the HDF-5 Library.
**/
public static int H5Sclose(long space_id) throws HDF5LibraryException {
if (space_id < 0)
return 0; // throw new HDF5LibraryException("Negative ID");;
log.trace("OPEN_IDS: H5Sclose remove {}", space_id);
OPEN_IDS.remove(space_id);
log.trace("OPEN_IDS: {}", OPEN_IDS.size());
return _H5Sclose(space_id);
}
private synchronized static native int _H5Sclose(long space_id) throws HDF5LibraryException;
/**
* H5Sencode converts a data space description into binary form in a buffer.
*
* @param obj_id
* IN: Identifier of the object to be encoded.
*
* @return the buffer for the object to be encoded into.
*
* @exception HDF5LibraryException
* - Error from the HDF-5 Library.
**/
public synchronized static native byte[] H5Sencode(long obj_id) throws HDF5LibraryException, NullPointerException;
/**
* H5Sdecode reconstructs the HDF5 data space object and returns a new object handle for it.
*
@@ -11143,17 +11205,89 @@ public class H5 implements java.io.Serializable {
public synchronized static native long H5Sdecode(byte[] buf) throws HDF5LibraryException, NullPointerException;
/**
* H5Sencode converts a data space description into binary form in a buffer.
* H5Sget_simple_extent_npoints determines the number of elements in a dataspace.
*
* @param obj_id
* IN: Identifier of the object to be encoded.
*
* @return the buffer for the object to be encoded into.
* @param space_id
* ID of the dataspace object to query
* @return the number of elements in the dataspace if successful
*
* @exception HDF5LibraryException
* - Error from the HDF-5 Library.
**/
public synchronized static native byte[] H5Sencode(long obj_id) throws HDF5LibraryException, NullPointerException;
public synchronized static native long H5Sget_simple_extent_npoints(long space_id) throws HDF5LibraryException;
/**
* H5Sget_simple_extent_ndims determines the dimensionality (or rank) of a dataspace.
*
* @param space_id
* IN: Identifier of the dataspace
*
* @return the number of dimensions in the dataspace if successful
*
* @exception HDF5LibraryException
* - Error from the HDF-5 Library.
**/
public synchronized static native int H5Sget_simple_extent_ndims(long space_id) throws HDF5LibraryException;
/**
* H5Sget_simple_extent_dims returns the size and maximum sizes of each dimension of a dataspace through the dims
* and maxdims parameters.
*
* @param space_id
* IN: Identifier of the dataspace object to query
* @param dims
* OUT: Pointer to array to store the size of each dimension.
* @param maxdims
* OUT: Pointer to array to store the maximum size of each dimension.
*
* @return the number of dimensions in the dataspace if successful
*
* @exception HDF5LibraryException
* - Error from the HDF-5 Library.
* @exception NullPointerException
* - dims or maxdims is null.
**/
public synchronized static native int H5Sget_simple_extent_dims(long space_id, long[] dims, long[] maxdims)
throws HDF5LibraryException, NullPointerException;
/**
* H5Sis_simple determines whether a dataspace is a simple dataspace.
*
* @param space_id
* Identifier of the dataspace to query
*
* @return true if is a simple dataspace
*
* @exception HDF5LibraryException
* - Error from the HDF-5 Library.
**/
public synchronized static native boolean H5Sis_simple(long space_id) throws HDF5LibraryException;
/**
* H5Sget_simple_extent_type queries a dataspace to determine the current class of a dataspace.
*
* @param space_id
* Dataspace identifier.
*
* @return a dataspace class name if successful
*
* @exception HDF5LibraryException
* - Error from the HDF-5 Library.
**/
public synchronized static native int H5Sget_simple_extent_type(long space_id) throws HDF5LibraryException;
/**
* H5Sset_extent_none removes the extent from a dataspace and sets the type to H5S_NONE.
*
* @param space_id
* The identifier for the dataspace from which the extent is to be removed.
*
* @return a non-negative value if successful
*
* @exception HDF5LibraryException
* - Error from the HDF-5 Library.
**/
public synchronized static native int H5Sset_extent_none(long space_id) throws HDF5LibraryException;
/**
* H5Sextent_copy copies the extent from source_space_id to dest_space_id. This action may change the type of the
@@ -11188,122 +11322,7 @@ public class H5 implements java.io.Serializable {
public synchronized static native boolean H5Sextent_equal(long first_space_id, long second_space_id)
throws HDF5LibraryException;
/**
* H5Sget_select_bounds retrieves the coordinates of the bounding box containing the current selection and places
* them into user-supplied buffers.
* <P>
* The start and end buffers must be large enough to hold the dataspace rank number of coordinates.
*
* @param spaceid
* Identifier of dataspace to release.
* @param start
* coordinates of lowest corner of bounding box.
* @param end
* coordinates of highest corner of bounding box.
*
* @return a non-negative value if successful,with start and end initialized.
*
* @exception HDF5LibraryException
* - Error from the HDF-5 Library.
* @exception NullPointerException
* - start or end is null.
**/
public synchronized static native int H5Sget_select_bounds(long spaceid, long[] start, long[] end)
throws HDF5LibraryException, NullPointerException;
/**
* H5Sget_select_elem_npoints returns the number of element points in the current dataspace selection.
*
* @param spaceid
* Identifier of dataspace to release.
*
* @return a non-negative value if successful
*
* @exception HDF5LibraryException
* - Error from the HDF-5 Library.
**/
public synchronized static native long H5Sget_select_elem_npoints(long spaceid) throws HDF5LibraryException;
/**
* H5Sget_select_elem_pointlist returns an array of of element points in the current dataspace selection. The point
* coordinates have the same dimensionality (rank) as the dataspace they are located within, one coordinate per
* point.
*
* @param spaceid
* Identifier of dataspace to release.
* @param startpoint
* first point to retrieve
* @param numpoints
* number of points to retrieve
* @param buf
* returns points startblock to startblock+num-1, each points is <i>rank</i> longs.
*
* @return a non-negative value if successful
*
* @exception HDF5LibraryException
* - Error from the HDF-5 Library.
* @exception NullPointerException
* - buf is null.
**/
public synchronized static native int H5Sget_select_elem_pointlist(long spaceid, long startpoint, long numpoints,
long[] buf) throws HDF5LibraryException, NullPointerException;
/**
* H5Sget_select_hyper_blocklist returns an array of hyperslab blocks. The block coordinates have the same
* dimensionality (rank) as the dataspace they are located within. The list of blocks is formatted as follows:
*
* <pre>
* &lt;"start" coordinate&gt;, immediately followed by
* &lt;"opposite" corner coordinate&gt;, followed by
* the next "start" and "opposite" coordinates,
* etc.
* until all of the selected blocks have been listed.
* </pre>
*
* @param spaceid
* Identifier of dataspace to release.
* @param startblock
* first block to retrieve
* @param numblocks
* number of blocks to retrieve
* @param buf
* returns blocks startblock to startblock+num-1, each block is <i>rank</i> * 2 (corners) longs.
*
* @return a non-negative value if successful
*
* @exception HDF5LibraryException
* - Error from the HDF-5 Library.
* @exception NullPointerException
* - buf is null.
**/
public synchronized static native int H5Sget_select_hyper_blocklist(long spaceid, long startblock, long numblocks,
long[] buf) throws HDF5LibraryException, NullPointerException;
/**
* H5Sget_select_hyper_nblocks returns the number of hyperslab blocks in the current dataspace selection.
*
* @param spaceid
* Identifier of dataspace to release.
*
* @return a non-negative value if successful
*
* @exception HDF5LibraryException
* - Error from the HDF-5 Library.
**/
public synchronized static native long H5Sget_select_hyper_nblocks(long spaceid) throws HDF5LibraryException;
/**
* H5Sget_select_npoints determines the number of elements in the current selection of a dataspace.
*
* @param space_id
* IN: Identifier of the dataspace object to query
*
* @return the number of elements in the selection if successful
*
* @exception HDF5LibraryException
* - Error from the HDF-5 Library.
**/
public synchronized static native long H5Sget_select_npoints(long space_id) throws HDF5LibraryException;
/***************** Operations on dataspace selections *****************/
/**
* H5Sget_select_type retrieves the type of selection currently defined for the dataspace space_id.
@@ -11319,76 +11338,118 @@ public class H5 implements java.io.Serializable {
public synchronized static native int H5Sget_select_type(long space_id) throws HDF5LibraryException;
/**
* H5Sget_simple_extent_dims returns the size and maximum sizes of each dimension of a dataspace through the dims
* and maxdims parameters.
* H5Sget_select_npoints determines the number of elements in the current selection of a dataspace.
*
* @param space_id
* IN: Identifier of the dataspace object to query
* @param dims
* OUT: Pointer to array to store the size of each dimension.
* @param maxdims
* OUT: Pointer to array to store the maximum size of each dimension.
*
* @return the number of dimensions in the dataspace if successful
* @return the number of elements in the selection if successful
*
* @exception HDF5LibraryException
* - Error from the HDF-5 Library.
**/
public synchronized static native long H5Sget_select_npoints(long space_id) throws HDF5LibraryException;
/**
* H5Sselect_copy copies all the selection information (including offset) from the source
* dataspace to the destination dataspace.
* @param dst_id ID of the destination dataspace
* @param src_id ID of the source dataspace
*
* @exception HDF5LibraryException
* - Error from the HDF-5 Library.
**/
public synchronized static native void H5Sselect_copy(long dst_id, long src_id) throws HDF5LibraryException;
/**
* H5Sselect_valid verifies that the selection for the dataspace.
*
* @param space_id
* The identifier for the dataspace in which the selection is being reset.
*
* @return true if the selection is contained within the extent and FALSE if it is not or is an error.
*
* @exception HDF5LibraryException
* - Error from the HDF-5 Library.
**/
public synchronized static native boolean H5Sselect_valid(long space_id) throws HDF5LibraryException;
/**
* H5Sselect_adjust moves a selection by subtracting an offset from it.
*
* @param space_id
* ID of dataspace to adjust
* @param offset
* Offset to subtract
*
* @exception HDF5LibraryException
* - Error from the HDF-5 Library.
* @exception NullPointerException
* - dims or maxdims is null.
* - offset is null.
**/
public synchronized static native int H5Sget_simple_extent_dims(long space_id, long[] dims, long[] maxdims)
public synchronized static native void H5Sselect_adjust(long space_id, long[][] offset)
throws HDF5LibraryException, NullPointerException;
/**
* H5Sget_select_bounds retrieves the coordinates of the bounding box containing the current selection and places
* them into user-supplied buffers.
* <P>
* The start and end buffers must be large enough to hold the dataspace rank number of coordinates.
*
* @param space_id
* Identifier of dataspace to release.
* @param start
* coordinates of lowest corner of bounding box.
* @param end
* coordinates of highest corner of bounding box.
*
* @return a non-negative value if successful,with start and end initialized.
*
* @exception HDF5LibraryException
* - Error from the HDF-5 Library.
* @exception NullPointerException
* - start or end is null.
**/
public synchronized static native int H5Sget_select_bounds(long space_id, long[] start, long[] end)
throws HDF5LibraryException, NullPointerException;
/**
* H5Sget_simple_extent_ndims determines the dimensionality (or rank) of a dataspace.
* H5Sselect_shape_same checks to see if the current selection in the dataspaces are the same
* dimensionality and shape.
* This is primarily used for reading the entire selection in one swoop.
*
* @param space_id
* IN: Identifier of the dataspace
* @param space1_id ID of 1st Dataspace pointer to compare
* @param space2_id ID of 2nd Dataspace pointer to compare
*
* @return the number of dimensions in the dataspace if successful
* @return true if the selection is the same dimensionality and shape;
* false otherwise
*
* @exception HDF5LibraryException
* - Error from the HDF-5 Library.
**/
public synchronized static native int H5Sget_simple_extent_ndims(long space_id) throws HDF5LibraryException;
public synchronized static native boolean H5Sselect_shape_same(long space1_id, long space2_id) throws HDF5LibraryException;
/**
* H5Sget_simple_extent_npoints determines the number of elements in a dataspace.
* H5Sselect_intersect_block checks to see if the current selection in the
* dataspace intersects with the block given.
*
* @param space_id
* ID of the dataspace object to query
* @return the number of elements in the dataspace if successful
* ID of dataspace pointer to compare
* @param start
* Starting coordinate of block
* @param end
* Opposite ("ending") coordinate of block
*
* @return a TRUE if the current selection in the dataspace intersects with the block given
* FALSE otherwise
*
* @exception HDF5LibraryException
* - Error from the HDF-5 Library.
* @exception NullPointerException
* - offset is null.
**/
public synchronized static native long H5Sget_simple_extent_npoints(long space_id) throws HDF5LibraryException;
/**
* H5Sget_simple_extent_type queries a dataspace to determine the current class of a dataspace.
*
* @param space_id
* Dataspace identifier.
*
* @return a dataspace class name if successful
*
* @exception HDF5LibraryException
* - Error from the HDF-5 Library.
**/
public synchronized static native int H5Sget_simple_extent_type(long space_id) throws HDF5LibraryException;
/**
* H5Sis_simple determines whether a dataspace is a simple dataspace.
*
* @param space_id
* Identifier of the dataspace to query
*
* @return true if is a simple dataspace
*
* @exception HDF5LibraryException
* - Error from the HDF-5 Library.
**/
public synchronized static native boolean H5Sis_simple(long space_id) throws HDF5LibraryException;
public synchronized static native boolean H5Sselect_intersect_block(long space_id, long[] start, long[] end)
throws HDF5LibraryException, NullPointerException;
/**
* H5Soffset_simple sets the offset of a simple dataspace space_id.
@@ -11452,6 +11513,18 @@ public class H5 implements java.io.Serializable {
**/
public synchronized static native int H5Sselect_all(long space_id) throws HDF5LibraryException;
/**
* H5Sselect_none resets the selection region for the dataspace space_id to include no elements.
*
* @param space_id
* IN: The identifier of the dataspace to be reset.
* @return a non-negative value if successful
*
* @exception HDF5LibraryException
* - Error from the HDF-5 Library.
**/
public synchronized static native int H5Sselect_none(long space_id) throws HDF5LibraryException;
/**
* H5Sselect_elements selects array elements to be included in the selection for the space_id dataspace.
*
@@ -11509,6 +11582,43 @@ public class H5 implements java.io.Serializable {
return retVal;
}
/**
* H5Sget_select_elem_npoints returns the number of element points in the current dataspace selection.
*
* @param spaceid
* Identifier of dataspace to release.
*
* @return a non-negative value if successful
*
* @exception HDF5LibraryException
* - Error from the HDF-5 Library.
**/
public synchronized static native long H5Sget_select_elem_npoints(long spaceid) throws HDF5LibraryException;
/**
* H5Sget_select_elem_pointlist returns an array of of element points in the current dataspace selection. The point
* coordinates have the same dimensionality (rank) as the dataspace they are located within, one coordinate per
* point.
*
* @param spaceid
* Identifier of dataspace to release.
* @param startpoint
* first point to retrieve
* @param numpoints
* number of points to retrieve
* @param buf
* returns points startblock to startblock+num-1, each points is <i>rank</i> longs.
*
* @return a non-negative value if successful
*
* @exception HDF5LibraryException
* - Error from the HDF-5 Library.
* @exception NullPointerException
* - buf is null.
**/
public synchronized static native int H5Sget_select_elem_pointlist(long spaceid, long startpoint, long numpoints,
long[] buf) throws HDF5LibraryException, NullPointerException;
/**
* H5Sselect_hyperslab selects a hyperslab region to add to the current selected region for the dataspace specified
* by space_id. The start, stride, count, and block arrays must be the same size as the rank of the dataspace.
@@ -11578,90 +11688,89 @@ public class H5 implements java.io.Serializable {
public synchronized static native int H5Sselect_hyperslab(long space_id, int op, long[] start, long[] stride,
long[] count, long[] block) throws HDF5LibraryException, NullPointerException, IllegalArgumentException;
/**
* H5Sselect_none resets the selection region for the dataspace space_id to include no elements.
* H5Scombine_hyperslab combines a hyperslab selection with the current selection for a dataspace,
* creating a new dataspace to return the generated selection.
* If the current selection is not a hyperslab, it is freed and the hyperslab
* parameters passed in are combined with the H5S_SEL_ALL hyperslab (ie. a
* selection composing the entire current extent). If STRIDE or BLOCK is
* NULL, they are assumed to be set to all '1'.
*
* @param space_id
* IN: The identifier of the dataspace to be reset.
* @return a non-negative value if successful
* IN: Dataspace ID of selection to use
* @param op
* IN: Operation to perform on current selection.
* @param start
* IN: Offset of start of hyperslab
* @param stride
* IN: Hyperslab stride.
* @param count
* IN: Number of blocks included in hyperslab.
* @param block
* IN: Size of block in hyperslab.
*
* @return a dataspace ID on success / H5I_INVALID_HID on failure
*
* @exception HDF5LibraryException
* - Error from the HDF-5 Library.
* @exception NullPointerException
* - an input array is null.
* @exception IllegalArgumentException
* - an input array is invalid.
**/
public synchronized static native long H5Scombine_hyperslab(long space_id, int op, long[] start, long[] stride,
long[] count, long[] block) throws HDF5LibraryException, NullPointerException, IllegalArgumentException;
/**
* H5Smodify_select refine an existing hyperslab selection with an operation, using a second
* hyperslab. The first selection is modified to contain the result of
* space1 operated on by space2.
*
* @param space1_id
* ID of the destination dataspace
* @param op
* Operation to perform on current selection.
* @param space2_id
* ID of the source dataspace
*
* @exception HDF5LibraryException
* - Error from the HDF-5 Library.
**/
public synchronized static native int H5Sselect_none(long space_id) throws HDF5LibraryException;
public synchronized static native void H5Smodify_select(long space1_id, int op, long space2_id) throws HDF5LibraryException;
/**
* H5Sselect_valid verifies that the selection for the dataspace.
* H5Scombine_select combines two existing hyperslab selections with an operation, returning
* a new dataspace with the resulting selection. The dataspace extent from
* space1 is copied for the dataspace extent of the newly created dataspace.
*
* @param space_id
* The identifier for the dataspace in which the selection is being reset.
* @param space1_id
* ID of the first dataspace
* @param op
* Operation to perform on current selection.
* @param space2_id
* ID of the second dataspace
*
* @return true if the selection is contained within the extent and FALSE if it is not or is an error.
* @return a dataspace ID on success / H5I_INVALID_HID on failure
*
* @exception HDF5LibraryException
* - Error from the HDF-5 Library.
**/
public synchronized static native boolean H5Sselect_valid(long space_id) throws HDF5LibraryException;
public synchronized static native long H5Scombine_select(long space1_id, int op, long space2_id) throws HDF5LibraryException;
/**
* H5Sset_extent_none removes the extent from a dataspace and sets the type to H5S_NONE.
* H5Sis_regular_hyperslab retrieves a regular hyperslab selection for the dataspace specified
* by space_id.
*
* @param space_id
* The identifier for the dataspace from which the extent is to be removed.
* IN: Identifier of dataspace selection to query
*
* @return a non-negative value if successful
* @return a TRUE/FALSE for hyperslab selection if successful
*
* @exception HDF5LibraryException
* - Error from the HDF-5 Library.
**/
public synchronized static native int H5Sset_extent_none(long space_id) throws HDF5LibraryException;
/**
* H5Sset_extent_simple sets or resets the size of an existing dataspace.
*
* @param space_id
* Dataspace identifier.
* @param rank
* Rank, or dimensionality, of the dataspace.
* @param current_size
* Array containing current size of dataspace.
* @param maximum_size
* Array containing maximum size of dataspace.
*
* @return a dataspace identifier if successful
*
* @exception HDF5LibraryException
* - Error from the HDF-5 Library.
**/
public synchronized static native long H5Sset_extent_simple(long space_id, int rank, long[] current_size,
long[] maximum_size) throws HDF5LibraryException, NullPointerException;
/**
* H5Sset_extent_simple sets or resets the size of an existing dataspace.
*
* @param space_id
* Dataspace identifier.
* @param rank
* Rank, or dimensionality, of the dataspace.
* @param current_size
* Array containing current size of dataspace.
* @param maximum_size
* Array containing maximum size of dataspace.
*
* @return a dataspace identifier if successful
*
* @exception HDF5LibraryException
* - Error from the HDF-5 Library.
**/
public synchronized static long H5Sset_extent_simple(long space_id, int rank, byte[] current_size,
byte[] maximum_size) throws HDF5LibraryException, NullPointerException {
ByteBuffer csbb = ByteBuffer.wrap(current_size);
long[] lacs = (csbb.asLongBuffer()).array();
ByteBuffer maxsbb = ByteBuffer.wrap(maximum_size);
long[] lamaxs = (maxsbb.asLongBuffer()).array();
return H5Sset_extent_simple(space_id, rank, lacs, lamaxs);
}
public synchronized static native boolean H5Sis_regular_hyperslab(long space_id) throws HDF5LibraryException;
/**
* H5Sget_regular_hyperslab determines if a hyperslab selection is regular for the dataspace specified
@@ -11687,33 +11796,82 @@ public class H5 implements java.io.Serializable {
**/
public synchronized static native void H5Sget_regular_hyperslab(long space_id, long[] start, long[] stride, long[] count, long[] block) throws HDF5LibraryException, NullPointerException, IllegalArgumentException;
/**
* H5Sget_select_hyper_nblocks returns the number of hyperslab blocks in the current dataspace selection.
*
* @param spaceid
* Identifier of dataspace to release.
*
* @return a non-negative value if successful
*
* @exception HDF5LibraryException
* - Error from the HDF-5 Library.
**/
public synchronized static native long H5Sget_select_hyper_nblocks(long spaceid) throws HDF5LibraryException;
/**
* H5Sis_regular_hyperslab retrieves a regular hyperslab selection for the dataspace specified
* by space_id.
* H5Sget_select_hyper_blocklist returns an array of hyperslab blocks. The block coordinates have the same
* dimensionality (rank) as the dataspace they are located within. The list of blocks is formatted as follows:
*
* @param space_id
* IN: Identifier of dataspace selection to query
* <pre>
* &lt;"start" coordinate&gt;, immediately followed by
* &lt;"opposite" corner coordinate&gt;, followed by
* the next "start" and "opposite" coordinates,
* etc.
* until all of the selected blocks have been listed.
* </pre>
*
* @return a TRUE/FALSE for hyperslab selection if successful
* @param spaceid
* Identifier of dataspace to release.
* @param startblock
* first block to retrieve
* @param numblocks
* number of blocks to retrieve
* @param buf
* returns blocks startblock to startblock+num-1, each block is <i>rank</i> * 2 (corners) longs.
*
* @return a non-negative value if successful
*
* @exception HDF5LibraryException
* - Error from the HDF-5 Library.
* @exception NullPointerException
* - buf is null.
**/
public synchronized static native int H5Sget_select_hyper_blocklist(long spaceid, long startblock, long numblocks,
long[] buf) throws HDF5LibraryException, NullPointerException;
/**
* H5Sselect_project_intersection projects the intersection of the selections of src_space_id and
* src_intersect_space_id within the selection of src_space_id as a
* selection within the selection of dst_space_id.
*
* @param src_space_id
* Selection that is mapped to dst_space_id, and intersected with src_intersect_space_id
* @param dst_space_id
* Selection that is mapped to src_space_id
* @param src_intersect_space_id
* Selection whose intersection with src_space_id is projected to dst_space_id to obtain the result
*
* @return a dataspace with a selection equal to the intersection of
* src_intersect_space_id and src_space_id projected from src_space to dst_space on success
*
* @exception HDF5LibraryException
* - Error from the HDF-5 Library.
**/
public synchronized static native boolean H5Sis_regular_hyperslab(long space_id) throws HDF5LibraryException;
public synchronized static native long H5Sselect_project_intersection(long src_space_id, long dst_space_id,
long src_intersect_space_id) throws HDF5LibraryException;
// /////// unimplemented ////////
// #ifdef NEW_HYPERSLAB_API
// hid_t H5Scombine_hyperslab(hid_t space_id, H5S_seloper_t op,
// const hsize_t start[],
// const hsize_t _stride[],
// const hsize_t count[],
// const hsize_t _block[]);
// herr_t H5Sselect_select(hid_t space1_id, H5S_seloper_t op,
// hid_t space2_id);
// hid_t H5Scombine_select(hid_t space1_id, H5S_seloper_t op,
// hid_t space2_id);
// #endif /* NEW_HYPERSLAB_API */
// herr_t H5Sselect_copy(hid_t dst_id, hid_t src_id);
// /////// unimplemented ////////
///// Operations on dataspace selections /////
//
///// Operations on dataspace selection iterators /////
//public synchronized static native H5Ssel_iter_create(hid_t spaceid, size_t elmt_size, unsigned flags);
//public synchronized static native H5Ssel_iter_get_seq_list(hid_t sel_iter_id, size_t maxseq, size_t maxbytes, size_t *nseq,
// size_t *nbytes, hsize_t *off, size_t *len);
//public synchronized static native H5Ssel_iter_reset(hid_t sel_iter_id, hid_t space_id);
//public synchronized static native H5Ssel_iter_close(hid_t sel_iter_id);

518
java/src/hdf/hdf5lib/HDF5Constants.java
View File

@@ -35,12 +35,17 @@ public class HDF5Constants {
// Get the HDF5 constants from the library //
// /////////////////////////////////////////////////////////////////////////
public static final long H5_QUARTER_HADDR_MAX = H5_QUARTER_HADDR_MAX();
//public static final long H5_QUARTER_HADDR_MAX = H5_QUARTER_HADDR_MAX();
/** Special parameters for szip compression */
public static final int H5_SZIP_MAX_PIXELS_PER_BLOCK = H5_SZIP_MAX_PIXELS_PER_BLOCK();
/** Special parameters for szip compression */
public static final int H5_SZIP_NN_OPTION_MASK = H5_SZIP_NN_OPTION_MASK();
/** Special parameters for szip compression */
public static final int H5_SZIP_EC_OPTION_MASK = H5_SZIP_EC_OPTION_MASK();
/** Special parameters for szip compression */
public static final int H5_SZIP_ALLOW_K13_OPTION_MASK = H5_SZIP_ALLOW_K13_OPTION_MASK();
/** Special parameters for szip compression */
public static final int H5_SZIP_CHIP_OPTION_MASK = H5_SZIP_CHIP_OPTION_MASK();
public static final int H5_INDEX_UNKNOWN = H5_INDEX_UNKNOWN();
public static final int H5_INDEX_NAME = H5_INDEX_NAME();
@@ -92,110 +97,359 @@ public class HDF5Constants {
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();
/** Different kinds of error information - H5E_type_t */
public static final int H5E_MAJOR = H5E_MAJOR();
/** Different kinds of error information - H5E_type_t */
public static final int H5E_MINOR = H5E_MINOR();
/** Minor error codes - Object header related errors - Alignment error */
public static final long H5E_ALIGNMENT = H5E_ALIGNMENT();
/** Minor error codes - Resource errors - Object already exists */
public static final long H5E_ALREADYEXISTS = H5E_ALREADYEXISTS();
/** Minor error codes - Function entry/exit interface - Object already initialized */
public static final long H5E_ALREADYINIT = H5E_ALREADYINIT();
/** Major error codes - Invalid arguments to routine */
public static final long H5E_ARGS = H5E_ARGS();
/** Major error codes - Object atom */
public static final long H5E_ATOM = H5E_ATOM();
/** Major error codes - Attribute */
public static final long H5E_ATTR = H5E_ATTR();
/** Minor error codes - Object atom related errors - Unable to find atom information (already closed?) */
public static final long H5E_BADATOM = H5E_BADATOM();
/** Minor error codes - File accessibility errors - Bad file ID accessed */
public static final long H5E_BADFILE = H5E_BADFILE();
/** Minor error codes - Object atom related errors - Unable to find ID group information */
public static final long H5E_BADGROUP = H5E_BADGROUP();
/** Minor error codes - Object header related errors - Iteration failed */
public static final long H5E_BADITER = H5E_BADITER();
/** Minor error codes - Object header related errors - Unrecognized message */
public static final long H5E_BADMESG = H5E_BADMESG();
/** Minor error codes - Argument errors - Out of range */
public static final long H5E_BADRANGE = H5E_BADRANGE();
/** Minor error codes - Dataspace errors - Invalid selection */
public static final long H5E_BADSELECT = H5E_BADSELECT();
/** Datatype conversion errors - Bad size for object */
public static final long H5E_BADSIZE = H5E_BADSIZE();
/** Minor error codes - Argument errors - Inappropriate type */
public static final long H5E_BADTYPE = H5E_BADTYPE();
/** Minor error codes - Argument errors - Bad value */
public static final long H5E_BADVALUE = H5E_BADVALUE();
/** Major error codes - B-Tree node */
public static final long H5E_BTREE = H5E_BTREE();
/** Major error codes - Object cache */
public static final long H5E_CACHE = H5E_CACHE();
/** I/O pipeline errors - Callback failed */
public static final long H5E_CALLBACK = H5E_CALLBACK();
/** I/O pipeline errors - Error from filter 'can apply' callback */
public static final long H5E_CANAPPLY = H5E_CANAPPLY();
// public static final long H5E_CANTALLOC = H5E_CANTALLOC();
/** Minor error codes - Resource errors - Can't allocate space */
public static final long H5E_CANTALLOC = H5E_CANTALLOC();
/** Minor error codes - Dataspace errors - Can't append object */
public static final long H5E_CANTAPPEND = H5E_CANTAPPEND();
/** Minor error codes - Heap errors - Can't attach object */
public static final long H5E_CANTATTACH = H5E_CANTATTACH();
/** Minor error codes - Cache related errors - Unable to mark metadata as clean */
public static final long H5E_CANTCLEAN = H5E_CANTCLEAN();
/** Minor error codes - Dataspace errors - Can't clip hyperslab region */
public static final long H5E_CANTCLIP = H5E_CANTCLIP();
/** Minor error codes - File accessibility errors - Unable to close file */
public static final long H5E_CANTCLOSEFILE = H5E_CANTCLOSEFILE();
/** Minor error codes - Group related errors - Can't close object */
public static final long H5E_CANTCLOSEOBJ = H5E_CANTCLOSEOBJ();
/** Minor error codes - Dataspace errors - Can't compare objects */
public static final long H5E_CANTCOMPARE = H5E_CANTCOMPARE();
/** Minor error codes - Heap errors - Can't compute value */
public static final long H5E_CANTCOMPUTE = H5E_CANTCOMPUTE();
/** Datatype conversion errors - Can't convert datatypes */
public static final long H5E_CANTCONVERT = H5E_CANTCONVERT();
/** Minor error codes - Resource errors - Unable to copy object */
public static final long H5E_CANTCOPY = H5E_CANTCOPY();
/** Minor error codes - Cache related errors - Unable to cork an object */
public static final long H5E_CANTCORK = H5E_CANTCORK();
/** Minor error codes - Dataspace errors - Can't count elements */
public static final long H5E_CANTCOUNT = H5E_CANTCOUNT();
/** Minor error codes - File accessibility errors - Unable to create file */
public static final long H5E_CANTCREATE = H5E_CANTCREATE();
/** Minor error codes - Object atom related errors - Unable to decrement reference count */
public static final long H5E_CANTDEC = H5E_CANTDEC();
/** Minor error codes - B-tree related errors - Unable to decode value */
public static final long H5E_CANTDECODE = H5E_CANTDECODE();
/** Minor error codes - Object header related errors - Can't delete message */
public static final long H5E_CANTDELETE = H5E_CANTDELETE();
/** Minor error codes - File accessibility errors - Unable to delete file */
public static final long H5E_CANTDELETEFILE = H5E_CANTDELETEFILE();
/** Minor error codes - Cache related errors - Unable to create a flush dependency */
public static final long H5E_CANTDEPEND = H5E_CANTDEPEND();
/** Minor error codes - Cache related errors - Unable to mark metadata as dirty */
public static final long H5E_CANTDIRTY = H5E_CANTDIRTY();
/** Minor error codes - B-tree related errors - Unable to encode value */
public static final long H5E_CANTENCODE = H5E_CANTENCODE();
/** Minor error codes - Cache related errors - Unable to expunge a metadata cache entry */
public static final long H5E_CANTEXPUNGE = H5E_CANTEXPUNGE();
/** Minor error codes - Heap errors - Can't extend heap's space */
public static final long H5E_CANTEXTEND = H5E_CANTEXTEND();
/** I/O pipeline errors - Filter operation failed */
public static final long H5E_CANTFILTER = H5E_CANTFILTER();
/** Minor error codes - Cache related errors - Unable to flush data from cache */
public static final long H5E_CANTFLUSH = H5E_CANTFLUSH();
/** Minor error codes - Resource errors - Unable to free object */
public static final long H5E_CANTFREE = H5E_CANTFREE();
/** Minor error codes - Parallel MPI - Can't gather data */
public static final long H5E_CANTGATHER = H5E_CANTGATHER();
/** Minor error codes - Resource errors - Unable to garbage collect */
public static final long H5E_CANTGC = H5E_CANTGC();
/** Minor error codes - Property list errors - Can't get value */
public static final long H5E_CANTGET = H5E_CANTGET();
/** Minor error codes - Resource errors - Unable to compute size */
public static final long H5E_CANTGETSIZE = H5E_CANTGETSIZE();
/** Minor error codes - Object atom related errors - Unable to increment reference count */
public static final long H5E_CANTINC = H5E_CANTINC();
/** Minor error codes - Function entry/exit interface - Unable to initialize object */
public static final long H5E_CANTINIT = H5E_CANTINIT();
/** Minor error codes - Cache related errors - Unable to insert metadata into cache */
public static final long H5E_CANTINS = H5E_CANTINS();
/** Minor error codes - B-tree related errors - Unable to insert object */
public static final long H5E_CANTINSERT = H5E_CANTINSERT();
/** Minor error codes - B-tree related errors - Unable to list node */
public static final long H5E_CANTLIST = H5E_CANTLIST();
/** Minor error codes - Cache related errors - Unable to load metadata into cache */
public static final long H5E_CANTLOAD = H5E_CANTLOAD();
/** Minor error codes - Resource errors - Unable to lock object */
public static final long H5E_CANTLOCK = H5E_CANTLOCK();
/** Minor error codes - File accessibility errors Unable to lock file */
public static final long H5E_CANTLOCKFILE = H5E_CANTLOCKFILE();
/** Minor error codes - Cache related errors - Unable to mark a pinned entry as clean */
public static final long H5E_CANTMARKCLEAN = H5E_CANTMARKCLEAN();
/** Minor error codes - Cache related errors - Unable to mark a pinned entry as dirty */
public static final long H5E_CANTMARKDIRTY = H5E_CANTMARKDIRTY();
/** Minor error codes - Cache related errors - Unable to mark an entry as unserialized */
public static final long H5E_CANTMARKSERIALIZED = H5E_CANTMARKSERIALIZED();
/** Minor error codes - Cache related errors - Unable to mark an entry as serialized */
public static final long H5E_CANTMARKUNSERIALIZED = H5E_CANTMARKUNSERIALIZED();
/** Minor error codes - Free space errors - Can't merge objects */
public static final long H5E_CANTMERGE = H5E_CANTMERGE();
/** Minor error codes - B-tree related errors - Unable to modify record */
public static final long H5E_CANTMODIFY = H5E_CANTMODIFY();
/** Minor error codes - Link related errors - Can't move object */
public static final long H5E_CANTMOVE = H5E_CANTMOVE();
/** Minor error codes - Dataspace errors - Can't move to next iterator location */
public static final long H5E_CANTNEXT = H5E_CANTNEXT();
/** Minor error codes - Cache related errors - Unable to notify object about action */
public static final long H5E_CANTNOTIFY = H5E_CANTNOTIFY();
/** Minor error codes - File accessibility errors - Unable to open file */
public static final long H5E_CANTOPENFILE = H5E_CANTOPENFILE();
/** Minor error codes - Group related errors - Can't open object */
public static final long H5E_CANTOPENOBJ = H5E_CANTOPENOBJ();
// public static final long H5E_CANTRECV = H5E_CANTRECV();
/** Minor error codes - Heap errors - Can't operate on object */
public static final long H5E_CANTOPERATE = H5E_CANTOPERATE();
/** Minor error codes - Object header related errors - Can't pack messages */
public static final long H5E_CANTPACK = H5E_CANTPACK();
/** Minor error codes - Cache related errors - Unable to pin cache entry */
public static final long H5E_CANTPIN = H5E_CANTPIN();
/** Minor error codes - Cache related errors - Unable to protect metadata */
public static final long H5E_CANTPROTECT = H5E_CANTPROTECT();
/** Minor error codes - Parallel MPI - Can't receive data */
public static final long H5E_CANTRECV = H5E_CANTRECV();
/** Minor error codes - B-tree related errors - Unable to redistribute records */
public static final long H5E_CANTREDISTRIBUTE = H5E_CANTREDISTRIBUTE();
/** Minor error codes - Object atom related errors - Unable to register new atom */
public static final long H5E_CANTREGISTER = H5E_CANTREGISTER();
/** Minor error codes - Function entry/exit interface - Unable to release object */
public static final long H5E_CANTRELEASE = H5E_CANTRELEASE();
/** Minor error codes - B-tree related errors - Unable to remove object */
public static final long H5E_CANTREMOVE = H5E_CANTREMOVE();
/** Minor error codes - Object header related errors - Unable to rename object */
public static final long H5E_CANTRENAME = H5E_CANTRENAME();
/** Minor error codes - Object header related errors - Can't reset object */
public static final long H5E_CANTRESET = H5E_CANTRESET();
/** Minor error codes - Cache related errors - Unable to resize a metadata cache entry */
public static final long H5E_CANTRESIZE = H5E_CANTRESIZE();
/** Minor error codes - Heap errors - Can't restore condition */
public static final long H5E_CANTRESTORE = H5E_CANTRESTORE();
/** Minor error codes - Free space errors - Can't revive object */
public static final long H5E_CANTREVIVE = H5E_CANTREVIVE();
/** Minor error codes - Free space errors - Can't shrink container */
public static final long H5E_CANTSHRINK = H5E_CANTSHRINK();
/** Minor error codes - Dataspace errors - Can't select hyperslab */
public static final long H5E_CANTSELECT = H5E_CANTSELECT();
/** Minor error codes - Cache related errors - Unable to serialize data from cache */
public static final long H5E_CANTSERIALIZE = H5E_CANTSERIALIZE();
/** Minor error codes - Property list errors - Can't set value */
public static final long H5E_CANTSET = H5E_CANTSET();
/** Minor error codes - Link related errors - Can't sort objects */
public static final long H5E_CANTSORT = H5E_CANTSORT();
/** Minor error codes - B-tree related errors - Unable to split node */
public static final long H5E_CANTSPLIT = H5E_CANTSPLIT();
/** Minor error codes - B-tree related errors - Unable to swap records */
public static final long H5E_CANTSWAP = H5E_CANTSWAP();
/** Minor error codes - Cache related errors - Unable to tag metadata in the cache */
public static final long H5E_CANTTAG = H5E_CANTTAG();
/** Minor error codes - Cache related errors - Unable to uncork an object */
public static final long H5E_CANTUNCORK = H5E_CANTUNCORK();
/** Minor error codes - Cache related errors - Unable to destroy a flush dependency */
public static final long H5E_CANTUNDEPEND = H5E_CANTUNDEPEND();
/** Minor error codes - Resource errors - Unable to unlock object */
public static final long H5E_CANTUNLOCK = H5E_CANTUNLOCK();
/** Minor error codes - File accessibility errors Unable to unlock file */
public static final long H5E_CANTUNLOCKFILE = H5E_CANTUNLOCKFILE();
/** Minor error codes - Cache related errors - Unable to un-pin cache entry */
public static final long H5E_CANTUNPIN = H5E_CANTUNPIN();
/** Minor error codes - Cache related errors - Unable to unprotect metadata */
public static final long H5E_CANTUNPROTECT = H5E_CANTUNPROTECT();
/** Minor error codes - Cache related errors - Unable to mark metadata as unserialized */
public static final long H5E_CANTUNSERIALIZE = H5E_CANTUNSERIALIZE();
/** Minor error codes - Heap errors - Can't update object */
public static final long H5E_CANTUPDATE = H5E_CANTUPDATE();
/** Generic low-level file I/O errors - Close failed */
public static final long H5E_CLOSEERROR = H5E_CLOSEERROR();
/** Minor error codes - Group related errors - Name component is too long */
public static final long H5E_COMPLEN = H5E_COMPLEN();
/** Major error codes - API Context */
public static final long H5E_CONTEXT = H5E_CONTEXT();
/** Major error codes - Dataset */
public static final long H5E_DATASET = H5E_DATASET();
/** Major error codes - Dataspace */
public static final long H5E_DATASPACE = H5E_DATASPACE();
/** Major error codes - Datatype */
public static final long H5E_DATATYPE = H5E_DATATYPE();
/** Value for the default error stack */
public static final long H5E_DEFAULT = H5E_DEFAULT();
/** Minor error codes - Property list errors - Duplicate class name in parent class */
public static final long H5E_DUPCLASS = H5E_DUPCLASS();
/** Major error codes - Extensible Array */
public static final long H5E_EARRAY = H5E_EARRAY();
/** Major error codes - External file list */
public static final long H5E_EFL = H5E_EFL();
/** Major error codes - Error API */
public static final long H5E_ERROR = H5E_ERROR();
/** Minor error codes - B-tree related errors - Object already exists */
public static final long H5E_EXISTS = H5E_EXISTS();
/** Major error codes - Fixed Array */
public static final long H5E_FARRAY = H5E_FARRAY();
/** Generic low-level file I/O errors - File control (fcntl) failed */
public static final long H5E_FCNTL = H5E_FCNTL();
/** Major error codes - File accessibility */
public static final long H5E_FILE = H5E_FILE();
/** Minor error codes - File accessibility errors - File already exists */
public static final long H5E_FILEEXISTS = H5E_FILEEXISTS();
/** Minor error codes - File accessibility errors - File already open */
public static final long H5E_FILEOPEN = H5E_FILEOPEN();
/** Major error codes - Free Space Manager */
public static final long H5E_FSPACE = H5E_FSPACE();
/** Major error codes - Function entry/exit */
public static final long H5E_FUNC = H5E_FUNC();
/** Major error codes - Heap */
public static final long H5E_HEAP = H5E_HEAP();
/** Minor error codes - Dataspace errors - Internal states are inconsistent */
public static final long H5E_INCONSISTENTSTATE = H5E_INCONSISTENTSTATE();
/** Major error codes - Internal error (too specific to document in detail) */
public static final long H5E_INTERNAL = H5E_INTERNAL();
/** Major error codes - Low-level I/O */
public static final long H5E_IO = H5E_IO();
/** Major error codes - Links */
public static final long H5E_LINK = H5E_LINK();
/** Minor error codes - Object header related errors - Bad object header link count */
public static final long H5E_LINKCOUNT = H5E_LINKCOUNT();
/** Minor error codes - Cache related errors - Failure in the cache logging framework */
public static final long H5E_LOGGING = H5E_LOGGING();
/** Major error codes - Map */
public static final long H5E_MAP = H5E_MAP();
/** Minor error codes - File accessibility errors - File mount error */
public static final long H5E_MOUNT = H5E_MOUNT();
/** Minor error codes - Parallel MPI - Some MPI function failed */
public static final long H5E_MPI = H5E_MPI();
/** Minor error codes - Parallel MPI - MPI Error String */
public static final long H5E_MPIERRSTR = H5E_MPIERRSTR();
/** Minor error codes - Link related errors - Too many soft links in path */
public static final long H5E_NLINKS = H5E_NLINKS();
/** Minor error codes - Parallel MPI - Can't perform independent IO */
public static final long H5E_NO_INDEPENDENT = H5E_NO_INDEPENDENT();
/** I/O pipeline errors - Filter present but encoding disabled */
public static final long H5E_NOENCODER = H5E_NOENCODER();
/** I/O pipeline errors - Requested filter is not available */
public static final long H5E_NOFILTER = H5E_NOFILTER();
/** Minor error codes - Object atom related errors - Out of IDs for group */
public static final long H5E_NOIDS = H5E_NOIDS();
/** Major error codes - No error */
public static final long H5E_NONE_MAJOR = H5E_NONE_MAJOR();
/** No error */
public static final long H5E_NONE_MINOR = H5E_NONE_MINOR();
/** Minor error codes - Resource errors - No space available for allocation */
public static final long H5E_NOSPACE = H5E_NOSPACE();
/** Minor error codes - Cache related errors - Metadata not currently cached */
public static final long H5E_NOTCACHED = H5E_NOTCACHED();
/** Minor error codes - B-tree related errors - Object not found */
public static final long H5E_NOTFOUND = H5E_NOTFOUND();
/** Minor error codes - File accessibility errors - Not an HDF5 file */
public static final long H5E_NOTHDF5 = H5E_NOTHDF5();
/** Minor error codes - Link related errors - Link class not registered */
public static final long H5E_NOTREGISTERED = H5E_NOTREGISTERED();
/** Minor error codes - Resource errors - Object is already open */
public static final long H5E_OBJOPEN = H5E_OBJOPEN();
/** Major error codes - Object header */
public static final long H5E_OHDR = H5E_OHDR();
/** Minor error codes - Plugin errors - Can't open directory or file */
public static final long H5E_OPENERROR = H5E_OPENERROR();
/** Generic low-level file I/O errors - Address overflowed */
public static final long H5E_OVERFLOW = H5E_OVERFLOW();
/** Major error codes - Page Buffering */
public static final long H5E_PAGEBUF = H5E_PAGEBUF();
/** Minor error codes - Group related errors - Problem with path to object */
public static final long H5E_PATH = H5E_PATH();
/** Major error codes - Data filters */
public static final long H5E_PLINE = H5E_PLINE();
/** Major error codes - Property lists */
public static final long H5E_PLIST = H5E_PLIST();
/** Major error codes - Plugin for dynamically loaded library */
public static final long H5E_PLUGIN = H5E_PLUGIN();
/** Minor error codes - Cache related errors - Protected metadata error */
public static final long H5E_PROTECT = H5E_PROTECT();
/** Generic low-level file I/O errors - Read failed */
public static final long H5E_READERROR = H5E_READERROR();
/** Major error codes - References */
public static final long H5E_REFERENCE = H5E_REFERENCE();
/** Major error codes - Resource unavailable */
public static final long H5E_RESOURCE = H5E_RESOURCE();
/** Major error codes - Reference Counted Strings */
public static final long H5E_RS = H5E_RS();
/** Generic low-level file I/O errors - Seek failed */
public static final long H5E_SEEKERROR = H5E_SEEKERROR();
/** Minor error codes - Property list errors - Disallowed operation */
public static final long H5E_SETDISALLOWED = H5E_SETDISALLOWED();
/** I/O pipeline errors - Error from filter 'set local' callback */
public static final long H5E_SETLOCAL = H5E_SETLOCAL();
/** Major error codes - Skip Lists */
public static final long H5E_SLIST = H5E_SLIST();
/** Major error codes - Shared Object Header Messages */
public static final long H5E_SOHM = H5E_SOHM();
/** Major error codes - Data storage */
public static final long H5E_STORAGE = H5E_STORAGE();
/** Major error codes - Symbol table */
public static final long H5E_SYM = H5E_SYM();
/** Minor error codes - System level errors - System error message */
public static final long H5E_SYSERRSTR = H5E_SYSERRSTR();
/** Minor error codes - Cache related errors - Internal error detected */
public static final long H5E_SYSTEM = H5E_SYSTEM();
/** Minor error codes - Link related errors - Link traversal failure */
public static final long H5E_TRAVERSE = H5E_TRAVERSE();
/** Minor error codes - File accessibility errors - File has been truncated */
public static final long H5E_TRUNCATED = H5E_TRUNCATED();
/** Major error codes - Ternary Search Trees */
public static final long H5E_TST = H5E_TST();
/** Minor error codes - Argument errors - Information is uinitialized */
public static final long H5E_UNINITIALIZED = H5E_UNINITIALIZED();
/** Minor error codes - Argument errors - Feature is unsupported */
public static final long H5E_UNSUPPORTED = H5E_UNSUPPORTED();
/** Minor error codes - Object header related errors - Wrong version number */
public static final long H5E_VERSION = H5E_VERSION();
/** Major error codes - Virtual File Layer */
public static final long H5E_VFL = H5E_VFL();
/** Major error codes - Virtual Object Layer */
public static final long H5E_VOL = H5E_VOL();
/** Error stack traversal direction - begin at API function, end deep */
public static final long H5E_WALK_DOWNWARD = H5E_WALK_DOWNWARD();
/** Error stack traversal direction - begin deep, end at API function */
public static final long H5E_WALK_UPWARD = H5E_WALK_UPWARD();
/** Generic low-level file I/O errors - Write failed */
public static final long H5E_WRITEERROR = H5E_WRITEERROR();
private static final int H5ES_STATUS_IN_PROGRESS = H5ES_STATUS_IN_PROGRESS();
@@ -424,29 +678,53 @@ public class HDF5Constants {
public static final int H5R_OBJECT1 = H5R_OBJECT1();
public static final int H5R_OBJECT2 = H5R_OBJECT2();
/** Define atomic datatypes */
public static final int H5S_ALL = H5S_ALL();
/** Define user-level maximum number of dimensions */
public static final int H5S_MAX_RANK = H5S_MAX_RANK();
/** Different types of dataspaces - error */
public static final int H5S_NO_CLASS = H5S_NO_CLASS();
/** Different types of dataspaces - null dataspace */
public static final int H5S_NULL = H5S_NULL();
/** Different types of dataspaces - scalar variable */
public static final int H5S_SCALAR = H5S_SCALAR();
/** Enumerated type for the type of selection - Entire extent selected */
public static final int H5S_SEL_ALL = H5S_SEL_ALL();
/** Enumerated type for the type of selection - Error */
public static final int H5S_SEL_ERROR = H5S_SEL_ERROR();
/** Enumerated type for the type of selection - Hyperslab selected */
public static final int H5S_SEL_HYPERSLABS = H5S_SEL_HYPERSLABS();
/** Enumerated type for the type of selection - LAST */
public static final int H5S_SEL_N = H5S_SEL_N();
/** Enumerated type for the type of selection - Nothing selected */
public static final int H5S_SEL_NONE = H5S_SEL_NONE();
/** Enumerated type for the type of selection - Points / elements selected */
public static final int H5S_SEL_POINTS = H5S_SEL_POINTS();
/** Different ways of combining selections - Binary "and" operation for hyperslabs */
public static final int H5S_SELECT_AND = H5S_SELECT_AND();
/** Different ways of combining selections - Append elements to end of point selection */
public static final int H5S_SELECT_APPEND = H5S_SELECT_APPEND();
/** Different ways of combining selections - Invalid upper bound on selection operations */
public static final int H5S_SELECT_INVALID = H5S_SELECT_INVALID();
/** Different ways of combining selections - error */
public static final int H5S_SELECT_NOOP = H5S_SELECT_NOOP();
/** Different ways of combining selections - Binary "not" operation for hyperslabs */
public static final int H5S_SELECT_NOTA = H5S_SELECT_NOTA();
/** Different ways of combining selections - Binary "not" operation for hyperslabs */
public static final int H5S_SELECT_NOTB = H5S_SELECT_NOTB();
/** Different ways of combining selections - Binary "or" operation for hyperslabs */
public static final int H5S_SELECT_OR = H5S_SELECT_OR();
/** Different ways of combining selections - Prepend elements to beginning of point selection */
public static final int H5S_SELECT_PREPEND = H5S_SELECT_PREPEND();
/** Different ways of combining selections - Select "set" operation */
public static final int H5S_SELECT_SET = H5S_SELECT_SET();
/** Different ways of combining selections - Binary "xor" operation for hyperslabs */
public static final int H5S_SELECT_XOR = H5S_SELECT_XOR();
/** Different types of dataspaces - simple dataspace */
public static final int H5S_SIMPLE = H5S_SIMPLE();
/** Define atomic datatypes */
public static final int H5S_UNLIMITED = H5S_UNLIMITED();
public static final long H5T_ALPHA_B16 = H5T_ALPHA_B16();
public static final long H5T_ALPHA_B32 = H5T_ALPHA_B32();
public static final long H5T_ALPHA_B64 = H5T_ALPHA_B64();
@@ -665,48 +943,96 @@ public class HDF5Constants {
public static final int H5_VOL_RESERVED = H5_VOL_RESERVED();
public static final int H5_VOL_MAX = H5_VOL_MAX();
/** Return values for filter callback function */
public static final int H5Z_CB_CONT = H5Z_CB_CONT();
/** Return values for filter callback function */
public static final int H5Z_CB_ERROR = H5Z_CB_ERROR();
/** Return values for filter callback function */
public static final int H5Z_CB_FAIL = H5Z_CB_FAIL();
/** Return values for filter callback function */
public static final int H5Z_CB_NO = H5Z_CB_NO();
/** Values to decide if EDC is enabled for reading data */
public static final int H5Z_DISABLE_EDC = H5Z_DISABLE_EDC();
/** Values to decide if EDC is enabled for reading data */
public static final int H5Z_ENABLE_EDC = H5Z_ENABLE_EDC();
/** Values to decide if EDC is enabled for reading data */
public static final int H5Z_ERROR_EDC = H5Z_ERROR_EDC();
/** Filter IDs - deflation like gzip */
public static final int H5Z_FILTER_DEFLATE = H5Z_FILTER_DEFLATE();
/** Filter IDs - no filter */
public static final int H5Z_FILTER_ERROR = H5Z_FILTER_ERROR();
/** Filter IDs - fletcher32 checksum of EDC */
public static final int H5Z_FILTER_FLETCHER32 = H5Z_FILTER_FLETCHER32();
/** Filter IDs - maximum filter id */
public static final int H5Z_FILTER_MAX = H5Z_FILTER_MAX();
/** Filter IDs - nbit compression */
public static final int H5Z_FILTER_NBIT = H5Z_FILTER_NBIT();
/** Filter IDs - reserved indefinitely */
public static final int H5Z_FILTER_NONE = H5Z_FILTER_NONE();
/** Filter IDs - filter ids below this value are reserved for library use */
public static final int H5Z_FILTER_RESERVED = H5Z_FILTER_RESERVED();
/** Filter IDs - scale+offset compression */
public static final int H5Z_FILTER_SCALEOFFSET = H5Z_FILTER_SCALEOFFSET();
/** Filter IDs - shuffle the data */
public static final int H5Z_FILTER_SHUFFLE = H5Z_FILTER_SHUFFLE();
/** Filter IDs - szip compression */
public static final int H5Z_FILTER_SZIP = H5Z_FILTER_SZIP();
/** Flags for filter definition (stored)
* definition flag mask */
public static final int H5Z_FLAG_DEFMASK = H5Z_FLAG_DEFMASK();
/** Additional flags for filter invocation (not stored)
* invocation flag mask */
public static final int H5Z_FLAG_INVMASK = H5Z_FLAG_INVMASK();
/** Flags for filter definition (stored)
* filter is mandatory */
public static final int H5Z_FLAG_MANDATORY = H5Z_FLAG_MANDATORY();
/** Flags for filter definition (stored)
* filter is optional */
public static final int H5Z_FLAG_OPTIONAL = H5Z_FLAG_OPTIONAL();
/** Additional flags for filter invocation (not stored)
* reverse direction; read */
public static final int H5Z_FLAG_REVERSE = H5Z_FLAG_REVERSE();
/** Additional flags for filter invocation (not stored)
* skip EDC filters for read */
public static final int H5Z_FLAG_SKIP_EDC = H5Z_FLAG_SKIP_EDC();
public static final int H5Z_MAX_NFILTERS = H5Z_MAX_NFILTERS();
public static final int H5Z_NO_EDC = H5Z_NO_EDC();
public static final int H5Z_FILTER_CONFIG_ENCODE_ENABLED = H5Z_FILTER_CONFIG_ENCODE_ENABLED();
public static final int H5Z_FILTER_CONFIG_DECODE_ENABLED = H5Z_FILTER_CONFIG_DECODE_ENABLED();
public static final int H5Z_SO_INT_MINBITS_DEFAULT = H5Z_SO_INT_MINBITS_DEFAULT();
public static final int H5Z_SO_FLOAT_DSCALE = H5Z_SO_FLOAT_DSCALE();
public static final int H5Z_SO_FLOAT_ESCALE = H5Z_SO_FLOAT_ESCALE();
public static final int H5Z_SO_INT = H5Z_SO_INT();
public static final int H5Z_SHUFFLE_USER_NPARMS = H5Z_SHUFFLE_USER_NPARMS();
public static final int H5Z_SHUFFLE_TOTAL_NPARMS = H5Z_SHUFFLE_TOTAL_NPARMS();
public static final int H5Z_SZIP_USER_NPARMS = H5Z_SZIP_USER_NPARMS();
public static final int H5Z_SZIP_TOTAL_NPARMS = H5Z_SZIP_TOTAL_NPARMS();
public static final int H5Z_SZIP_PARM_MASK = H5Z_SZIP_PARM_MASK();
public static final int H5Z_SZIP_PARM_PPB = H5Z_SZIP_PARM_PPB();
public static final int H5Z_SZIP_PARM_BPP = H5Z_SZIP_PARM_BPP();
public static final int H5Z_SZIP_PARM_PPS = H5Z_SZIP_PARM_PPS();
public static final int H5Z_NBIT_USER_NPARMS = H5Z_NBIT_USER_NPARMS();
public static final int H5Z_SCALEOFFSET_USER_NPARMS = H5Z_SCALEOFFSET_USER_NPARMS();
/** Symbol to remove all filters in H5Premove_filter */
public static final int H5Z_FILTER_ALL = H5Z_FILTER_ALL();
/** Maximum number of filters allowed in a pipeline */
public static final int H5Z_MAX_NFILTERS = H5Z_MAX_NFILTERS();
/** Values to decide if EDC is enabled for reading data */
public static final int H5Z_NO_EDC = H5Z_NO_EDC();
/** Bit flags for H5Zget_filter_info */
public static final int H5Z_FILTER_CONFIG_ENCODE_ENABLED = H5Z_FILTER_CONFIG_ENCODE_ENABLED();
/** Bit flags for H5Zget_filter_info */
public static final int H5Z_FILTER_CONFIG_DECODE_ENABLED = H5Z_FILTER_CONFIG_DECODE_ENABLED();
/** Special parameters for ScaleOffset filter*/
public static final int H5Z_SO_INT_MINBITS_DEFAULT = H5Z_SO_INT_MINBITS_DEFAULT();
/** Special parameters for ScaleOffset filter*/
public static final int H5Z_SO_FLOAT_DSCALE = H5Z_SO_FLOAT_DSCALE();
/** Special parameters for ScaleOffset filter*/
public static final int H5Z_SO_FLOAT_ESCALE = H5Z_SO_FLOAT_ESCALE();
/** Special parameters for ScaleOffset filter*/
public static final int H5Z_SO_INT = H5Z_SO_INT();
/** shuffle filter - Number of parameters that users can set */
public static final int H5Z_SHUFFLE_USER_NPARMS = H5Z_SHUFFLE_USER_NPARMS();
/** shuffle filter - Total number of parameters for filter */
public static final int H5Z_SHUFFLE_TOTAL_NPARMS = H5Z_SHUFFLE_TOTAL_NPARMS();
/** szip filter - Number of parameters that users can set */
public static final int H5Z_SZIP_USER_NPARMS = H5Z_SZIP_USER_NPARMS();
/** szip filter - Total number of parameters for filter */
public static final int H5Z_SZIP_TOTAL_NPARMS = H5Z_SZIP_TOTAL_NPARMS();
/** szip filter - "User" parameter for option mask */
public static final int H5Z_SZIP_PARM_MASK = H5Z_SZIP_PARM_MASK();
/** szip filter - "User" parameter for pixels-per-block */
public static final int H5Z_SZIP_PARM_PPB = H5Z_SZIP_PARM_PPB();
/** szip filter - "Local" parameter for bits-per-pixel */
public static final int H5Z_SZIP_PARM_BPP = H5Z_SZIP_PARM_BPP();
/** szip filter - "Local" parameter for pixels-per-scanline */
public static final int H5Z_SZIP_PARM_PPS = H5Z_SZIP_PARM_PPS();
/** nbit filter - Number of parameters that users can set */
public static final int H5Z_NBIT_USER_NPARMS = H5Z_NBIT_USER_NPARMS();
/** scale offset filter - Number of parameters that users can set */
public static final int H5Z_SCALEOFFSET_USER_NPARMS = H5Z_SCALEOFFSET_USER_NPARMS();
// /////////////////////////////////////////////////////////////////////////
// List of private native variables to get constant values from C //
@@ -841,6 +1167,8 @@ public class HDF5Constants {
private static native final long H5E_BADGROUP();
private static native final long H5E_BADITER();
private static native final long H5E_BADMESG();
private static native final long H5E_BADRANGE();
@@ -861,15 +1189,30 @@ public class HDF5Constants {
private static native final long H5E_CANAPPLY();
// private static native final long H5E_CANTALLOC();
private static native final long H5E_CANTALLOC();
private static native final long H5E_CANTAPPEND();
private static native final long H5E_CANTATTACH();
private static native final long H5E_CANTCLEAN();
private static native final long H5E_CANTCLIP();
private static native final long H5E_CANTCLOSEFILE();
private static native final long H5E_CANTCLOSEOBJ();
private static native final long H5E_CANTCOMPARE();
private static native final long H5E_CANTCOMPUTE();
private static native final long H5E_CANTCONVERT();
private static native final long H5E_CANTCOPY();
private static native final long H5E_CANTCORK();
private static native final long H5E_CANTCOUNT();
private static native final long H5E_CANTCREATE();
@@ -882,18 +1225,36 @@ public class HDF5Constants {
private static native final long H5E_CANTDELETEFILE();
private static native final long H5E_CANTDEPEND();
private static native final long H5E_CANTDIRTY();
private static native final long H5E_CANTENCODE();
private static native final long H5E_CANTEXPUNGE();
private static native final long H5E_CANTEXTEND();
private static native final long H5E_CANTFILTER();
private static native final long H5E_CANTFLUSH();
private static native final long H5E_CANTFREE();
private static native final long H5E_CANTGATHER();
private static native final long H5E_CANTGC();
private static native final long H5E_CANTGET();
private static native final long H5E_CANTGETSIZE();
private static native final long H5E_CANTINC();
private static native final long H5E_CANTINIT();
private static native final long H5E_CANTINS();
private static native final long H5E_CANTINSERT();
private static native final long H5E_CANTLIST();
@@ -902,29 +1263,96 @@ public class HDF5Constants {
private static native final long H5E_CANTLOCK();
private static native final long H5E_CANTLOCKFILE();
private static native final long H5E_CANTMARKCLEAN();
private static native final long H5E_CANTMARKDIRTY();
private static native final long H5E_CANTMARKSERIALIZED();
private static native final long H5E_CANTMARKUNSERIALIZED();
private static native final long H5E_CANTMERGE();
private static native final long H5E_CANTMOVE();
private static native final long H5E_CANTMODIFY();
private static native final long H5E_CANTNEXT();
private static native final long H5E_CANTNOTIFY();
private static native final long H5E_CANTOPENFILE();
private static native final long H5E_CANTOPENOBJ();
// private static native final long H5E_CANTRECV();
private static native final long H5E_CANTOPERATE();
private static native final long H5E_CANTPACK();
private static native final long H5E_CANTPIN();
private static native final long H5E_CANTPROTECT();
private static native final long H5E_CANTRECV();
private static native final long H5E_CANTREDISTRIBUTE();
private static native final long H5E_CANTREGISTER();
private static native final long H5E_CANTRELEASE();
private static native final long H5E_CANTREMOVE();
private static native final long H5E_CANTRENAME();
private static native final long H5E_CANTRESET();
private static native final long H5E_CANTRESIZE();
private static native final long H5E_CANTRESTORE();
private static native final long H5E_CANTREVIVE();
private static native final long H5E_CANTSHRINK();
private static native final long H5E_CANTSELECT();
private static native final long H5E_CANTSET();
private static native final long H5E_CANTSERIALIZE();
private static native final long H5E_CANTSORT();
private static native final long H5E_CANTSPLIT();
private static native final long H5E_CANTSWAP();
private static native final long H5E_CANTTAG();
private static native final long H5E_CANTUNCORK();
private static native final long H5E_CANTUNDEPEND();
private static native final long H5E_CANTUNLOCK();
private static native final long H5E_CANTUNLOCKFILE();
private static native final long H5E_CANTUNPIN();
private static native final long H5E_CANTUNPROTECT();
private static native final long H5E_CANTUNSERIALIZE();
private static native final long H5E_CANTUPDATE();
private static native final long H5E_CLOSEERROR();
private static native final long H5E_COMPLEN();
private static native final long H5E_CONTEXT();
private static native final long H5E_DATASET();
private static native final long H5E_DATASPACE();
@@ -935,10 +1363,16 @@ public class HDF5Constants {
private static native final long H5E_DUPCLASS();
private static native final long H5E_EARRAY();
private static native final long H5E_EFL();
private static native final long H5E_ERROR();
private static native final long H5E_EXISTS();
private static native final long H5E_FARRAY();
private static native final long H5E_FCNTL();
private static native final long H5E_FILE();
@@ -947,10 +1381,14 @@ public class HDF5Constants {
private static native final long H5E_FILEOPEN();
private static native final long H5E_FSPACE();
private static native final long H5E_FUNC();
private static native final long H5E_HEAP();
private static native final long H5E_INCONSISTENTSTATE();
private static native final long H5E_INTERNAL();
private static native final long H5E_IO();
@@ -959,8 +1397,12 @@ public class HDF5Constants {
private static native final long H5E_LINKCOUNT();
private static native final long H5E_LOGGING();
private static native final int H5E_MAJOR();
private static native final long H5E_MAP();
private static native final int H5E_MINOR();
private static native final long H5E_MOUNT();
@@ -969,6 +1411,12 @@ public class HDF5Constants {
private static native final long H5E_MPIERRSTR();
private static native final long H5E_NLINKS();
private static native final long H5E_NO_INDEPENDENT();
private static native final long H5E_NOENCODER();
private static native final long H5E_NOFILTER();
private static native final long H5E_NOIDS();
@@ -985,14 +1433,26 @@ public class HDF5Constants {
private static native final long H5E_NOTHDF5();
private static native final long H5E_NOTREGISTERED();
private static native final long H5E_OBJOPEN();
private static native final long H5E_OHDR();
private static native final long H5E_OPENERROR();
private static native final long H5E_OVERFLOW();
private static native final long H5E_PAGEBUF();
private static native final long H5E_PATH();
private static native final long H5E_PLINE();
private static native final long H5E_PLIST();
private static native final long H5E_PLUGIN();
private static native final long H5E_PROTECT();
private static native final long H5E_READERROR();
@@ -1005,12 +1465,24 @@ public class HDF5Constants {
private static native final long H5E_SEEKERROR();
private static native final long H5E_SETDISALLOWED();
private static native final long H5E_SETLOCAL();
private static native final long H5E_SLIST();
private static native final long H5E_SOHM();
private static native final long H5E_STORAGE();
private static native final long H5E_SYM();
private static native final long H5E_SYSERRSTR();
private static native final long H5E_SYSTEM();
private static native final long H5E_TRAVERSE();
private static native final long H5E_TRUNCATED();
private static native final long H5E_TST();