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/*
* Copyright 2007 - 2018 ETH Zuerich, CISD and SIS.
*
* Licensed under the Apache License, Version 2.0 (the "License");
* you may not use this file except in compliance with the License.
* You may obtain a copy of the License at
*
* http://www.apache.org/licenses/LICENSE-2.0
*
* Unless required by applicable law or agreed to in writing, software
* distributed under the License is distributed on an "AS IS" BASIS,
* WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
* See the License for the specific language governing permissions and
* limitations under the License.
*/
package ch.systemsx.cisd.hdf5;
import ch.systemsx.cisd.base.mdarray.MDArray;
/**
* An interface that provides methods for writing <code>String</code> values to HDF5 files.
* <p>
* Obtain an object implementing this interface by calling {@link IHDF5Writer#string()}.
*
* @author Bernd Rinn
*/
public interface IHDF5StringWriter extends IHDF5StringReader
{
// /////////////////////
// Attributes
// /////////////////////
/**
* Sets a string attribute on the referenced object.
* <p>
* The referenced object must exist, that is it need to have been written before by one of the
* <code>write()</code> methods.
*
* @param objectPath The name of the object to add the attribute to.
* @param name The name of the attribute.
* @param value The value of the attribute.
*/
public void setAttr(final String objectPath, final String name, final String value);
/**
* Sets a string attribute on the referenced object.
* <p>
* The referenced object must exist, that is it need to have been written before by one of the
* <code>write()</code> methods.
*
* @param objectPath The name of the object to add the attribute to.
* @param name The name of the attribute.
* @param value The value of the attribute.
* @param maxLength The maximal length of the value.
*/
public void setAttr(final String objectPath, final String name, final String value,
final int maxLength);
/**
* Sets a string array attribute on the referenced object. The length of the array is taken to
* be the longest string in <var>value</var>.
* <p>
* The referenced object must exist, that is it need to have been written before by one of the
* <code>write()</code> methods.
*
* @param objectPath The name of the object to add the attribute to.
* @param name The name of the attribute.
* @param value The value of the attribute.
*/
public void setArrayAttr(final String objectPath, final String name, final String[] value);
/**
* Sets a string array attribute on the referenced object.
* <p>
* The referenced object must exist, that is it need to have been written before by one of the
* <code>write()</code> methods.
*
* @param objectPath The name of the object to add the attribute to.
* @param name The name of the attribute.
* @param value The value of the attribute.
* @param maxLength The maximal length of any element in <var>value</var>.
*/
public void setArrayAttr(final String objectPath, final String name, final String[] value,
final int maxLength);
/**
* Sets a multi-dimensional string array attribute on the referenced object. The length of the
* array is taken to be the longest string in <var>value</var>.
* <p>
* The referenced object must exist, that is it need to have been written before by one of the
* <code>write()</code> methods.
*
* @param objectPath The name of the object to add the attribute to.
* @param name The name of the attribute.
* @param value The value of the attribute.
*/
public void setMDArrayAttr(final String objectPath, final String name,
final MDArray<String> value);
/**
* Sets a multi-dimensional string array attribute on the referenced object.
* <p>
* The referenced object must exist, that is it need to have been written before by one of the
* <code>write()</code> methods.
*
* @param objectPath The name of the object to add the attribute to.
* @param name The name of the attribute.
* @param value The value of the attribute.
* @param maxLength The maximal length of the value.
*/
public void setMDArrayAttr(final String objectPath, final String name,
final MDArray<String> value, final int maxLength);
/**
* Sets a string attribute with variable length on the referenced object.
* <p>
* The referenced object must exist, that is it need to have been written before by one of the
* <code>write()</code> methods.
*
* @param objectPath The name of the object to add the attribute to.
* @param name The name of the attribute.
* @param value The value of the attribute.
*/
public void setAttrVL(final String objectPath, final String name, final String value);
// /////////////////////
// Data Sets
// /////////////////////
/**
* Writes out a <code>String</code> with a fixed maximal length.
*
* @param objectPath The name (including path information) of the data set object in the file.
* @param data The data to write. Must not be <code>null</code>.
* @param maxLength The maximal length of the <var>data</var>.
*/
public void write(final String objectPath, final String data, final int maxLength);
/**
* Writes out a <code>String</code> with a fixed maximal length (which is the length of the
* string <var>data</var>).
*
* @param objectPath The name (including path information) of the data set object in the file.
* @param data The data to write. Must not be <code>null</code>.
*/
public void write(final String objectPath, final String data);
/**
* Writes out a <code>String</code> with a fixed maximal length.
*
* @param objectPath The name (including path information) of the data set object in the file.
* @param data The data to write. Must not be <code>null</code>.
* @param features The storage features of the data set.
*/
public void write(final String objectPath, final String data,
final HDF5GenericStorageFeatures features);
/**
* Writes out a <code>String</code> with a fixed maximal length.
*
* @param objectPath The name (including path information) of the data set object in the file.
* @param data The data to write. Must not be <code>null</code>.
* @param maxLength The maximal length of the <var>data</var>.
* @param features The storage features of the data set.
*/
public void write(final String objectPath, final String data, final int maxLength,
final HDF5GenericStorageFeatures features);
/**
* Writes out a <code>String</code> array (of rank 1).
*
* @param objectPath The name (including path information) of the data set object in the file.
* @param data The data to write. Must not be <code>null</code>.
* @param features The storage features of the data set.
*/
public void writeArray(final String objectPath, final String[] data,
final HDF5GenericStorageFeatures features);
/**
* Writes out a <code>String</code> array (of rank 1). Each element of the array will have a
* fixed maximal length which is defined by the longest string in <var>data</var>.
*
* @param objectPath The name (including path information) of the data set object in the file.
* @param data The data to write. Must not be <code>null</code>.
*/
public void writeArray(final String objectPath, final String[] data);
/**
* Writes out a <code>String</code> array (of rank 1). Each element of the array will have a
* fixed maximal length which is given by <var>maxLength</var>.
*
* @param objectPath The name (including path information) of the data set object in the file.
* @param data The data to write. Must not be <code>null</code>.
* @param maxLength The maximal length of any of the strings in <var>data</var>.
*/
public void writeArray(final String objectPath, final String[] data, final int maxLength);
/**
* Writes out a <code>String</code> array (of rank 1). Each element of the array will have a
* fixed maximal length which is given by <var>maxLength</var>.
*
* @param objectPath The name (including path information) of the data set object in the file.
* @param data The data to write. Must not be <code>null</code>.
* @param maxLength The maximal length of any of the strings in <var>data</var>.
* @param features The storage features of the data set.
*/
public void writeArray(final String objectPath, final String[] data, final int maxLength,
final HDF5GenericStorageFeatures features);
/**
* Writes out a <code>String</code> array (of rank N). Each element of the array will have a
* fixed maximal length which is defined by the longest string in <var>data</var>.
*
* @param objectPath The name (including path information) of the data set object in the file.
* @param data The data to write. Must not be <code>null</code>.
*/
public void writeMDArray(final String objectPath, final MDArray<String> data);
/**
* Writes out a <code>String</code> array (of rank N). Each element of the array will have a
* fixed maximal length which is defined by the longest string in <var>data</var>.
*
* @param objectPath The name (including path information) of the data set object in the file.
* @param data The data to write. Must not be <code>null</code>.
* @param features The storage features of the data set.
*/
public void writeMDArray(final String objectPath, final MDArray<String> data,
final HDF5GenericStorageFeatures features);
/**
* Writes out a <code>String</code> array (of rank N). Each element of the array will have a
* fixed maximal length which is given by <var>maxLength</var>.
*
* @param objectPath The name (including path information) of the data set object in the file.
* @param data The data to write. Must not be <code>null</code>.
* @param maxLength The maximal length of any of the strings in <var>data</var>.
*/
public void writeMDArray(final String objectPath, final MDArray<String> data,
final int maxLength);
/**
* Writes out a <code>String</code> array (of rank N). Each element of the array will have a
* fixed maximal length which is given by <var>maxLength</var>.
*
* @param objectPath The name (including path information) of the data set object in the file.
* @param data The data to write. Must not be <code>null</code>.
* @param maxLength The maximal length of any of the strings in <var>data</var>.
* @param features The storage features of the data set.
*/
public void writeMDArray(final String objectPath, final MDArray<String> data,
final int maxLength, final HDF5GenericStorageFeatures features);
/**
* Creates a <code>String</code> array (of rank 1) for Strings of length <var>maxLength</var>.
*
* @param objectPath The name (including path information) of the data set object in the file.
* @param maxLength The maximal length of one String in the array.
* @param size The size of the byte array to create. This will be the total size for
* non-extendable data sets and the size of one chunk for extendable (chunked) data
* sets. For extendable data sets the initial size of the array will be 0, see
* {@link ch.systemsx.cisd.hdf5.IHDF5WriterConfigurator#dontUseExtendableDataTypes}.
*/
public void createArray(final String objectPath, final int maxLength, final int size);
/**
* Creates a <code>String</code> array (of rank 1) for Strings of length <var>maxLength</var>.
*
* @param objectPath The name (including path information) of the data set object in the file.
* @param maxLength The maximal length of one String in the array.
* @param size The size of the String array to create. When using extendable data sets ((see
* {@link IHDF5WriterConfigurator#dontUseExtendableDataTypes()})), then no data set
* smaller than this size can be created, however data sets may be larger.
* @param blockSize The size of one block (for block-wise IO). Ignored if no extendable data
* sets are used (see {@link IHDF5WriterConfigurator#dontUseExtendableDataTypes()}).
*/
public void createArray(final String objectPath, final int maxLength, final long size,
final int blockSize);
/**
* Creates a <code>String</code> array (of rank 1) for Strings of length <var>maxLength</var>.
*
* @param objectPath The name (including path information) of the data set object in the file.
* @param maxLength The maximal length of one String in the array.
* @param size The size of the array to create. This will be the total size for non-extendable
* data sets and the size of one chunk for extendable (chunked) data sets. For
* extendable data sets the initial size of the array will be 0, see
* {@link HDF5GenericStorageFeatures}.
*/
public void createArray(final String objectPath, final int maxLength, final int size,
final HDF5GenericStorageFeatures features);
/**
* Creates a <code>String</code> array (of rank 1) for Strings of length <var>maxLength</var>.
*
* @param objectPath The name (including path information) of the data set object in the file.
* @param maxLength The maximal length of one String in the array.
* @param size The size of the String array to create. When using extendable data sets ((see
* {@link IHDF5WriterConfigurator#dontUseExtendableDataTypes()})), then no data set
* smaller than this size can be created, however data sets may be larger.
* @param blockSize The size of one block (for block-wise IO). Ignored if no extendable data
* sets are used (see {@link IHDF5WriterConfigurator#dontUseExtendableDataTypes()}).
* @param features The storage features of the data set.
*/
public void createArray(final String objectPath, final int maxLength, final long size,
final int blockSize, final HDF5GenericStorageFeatures features);
/**
* Writes out a block of a <code>String</code> array (of rank 1). The data set needs to have
* been created by
* {@link #createArray(String, int, long, int, HDF5GenericStorageFeatures)} beforehand.
* <p>
* <i>Note:</i> For best performance, the block size in this method should be chosen to be equal
* to the <var>blockSize</var> argument of the
* {@link #createArray(String, int, long, int, HDF5GenericStorageFeatures)} call that was
* used to create the data set.
*
* @param objectPath The name (including path information) of the data set object in the file.
* @param data The data to write. The length defines the block size. Must not be
* <code>null</code> or of length 0.
* @param blockNumber The number of the block to write.
*/
public void writeArrayBlock(final String objectPath, final String[] data,
final long blockNumber);
/**
* Writes out a block of a <code>String</code> array (of rank 1). The data set needs to have
* been created by
* {@link #createArray(String, int, long, int, HDF5GenericStorageFeatures)} beforehand.
* <p>
* Use this method instead of {@link #writeArrayBlock(String, String[], long)} if the
* total size of the data set is not a multiple of the block size.
* <p>
* <i>Note:</i> For best performance, the block size in this method should be chosen to be equal
* to the <var>blockSize</var> argument of the
* {@link #createArray(String, int, long, int, HDF5GenericStorageFeatures)} call that was
* used to create the data set.
*
* @param objectPath The name (including path information) of the data set object in the file.
* @param data The data to write. The length defines the block size. Must not be
* <code>null</code> or of length 0.
* @param dataSize The (real) size of <code>data</code> (needs to be <code><= data.length</code>
* )
* @param offset The offset in the data set to start writing to.
*/
public void writeArrayBlockWithOffset(final String objectPath, final String[] data,
final int dataSize, final long offset);
/**
* Creates a <code>String</code> array (of rank N) for Strings of length <var>maxLength</var>.
*
* @param objectPath The name (including path information) of the data set object in the file.
* @param maxLength The maximal length of one String in the array.
* @param dimensions The size of the String array to create. When using extendable data sets
* ((see {@link IHDF5WriterConfigurator#dontUseExtendableDataTypes()})), then no data
* set smaller than this size can be created, however data sets may be larger.
*/
public void createMDArray(final String objectPath, final int maxLength,
final int[] dimensions);
/**
* Creates a <code>String</code> array (of rank N) for Strings of length <var>maxLength</var>.
*
* @param objectPath The name (including path information) of the data set object in the file.
* @param maxLength The maximal length of one String in the array.
* @param dimensions The size of the String array to create. When using extendable data sets
* ((see {@link IHDF5WriterConfigurator#dontUseExtendableDataTypes()})), then no data
* set smaller than this size can be created, however data sets may be larger.
* @param blockSize The size of one block in each dimension (for block-wise IO). Ignored if no
* extendable data sets are used (see
* {@link IHDF5WriterConfigurator#dontUseExtendableDataTypes()}).
*/
public void createMDArray(final String objectPath, final int maxLength,
final long[] dimensions, final int[] blockSize);
/**
* Creates a <code>String</code> array (of rank N) for Strings of length <var>maxLength</var>.
*
* @param objectPath The name (including path information) of the data set object in the file.
* @param maxLength The maximal length of one String in the array.
* @param dimensions The size of the String array to create. When using extendable data sets
* ((see {@link IHDF5WriterConfigurator#dontUseExtendableDataTypes()})), then no data
* set smaller than this size can be created, however data sets may be larger.
* @param features The storage features of the data set.
*/
public void createMDArray(final String objectPath, final int maxLength,
final int[] dimensions, final HDF5GenericStorageFeatures features);
/**
* Creates a <code>String</code> array (of rank N) for Strings of length <var>maxLength</var>.
*
* @param objectPath The name (including path information) of the data set object in the file.
* @param maxLength The maximal length of one String in the array.
* @param dimensions The size of the String array to create. When using extendable data sets
* ((see {@link IHDF5WriterConfigurator#dontUseExtendableDataTypes()})), then no data
* set smaller than this size can be created, however data sets may be larger.
* @param blockSize The size of one block in each dimension (for block-wise IO). Ignored if no
* extendable data sets are used (see
* {@link IHDF5WriterConfigurator#dontUseExtendableDataTypes()}).
* @param features The storage features of the data set.
*/
public void createMDArray(final String objectPath, final int maxLength,
final long[] dimensions, final int[] blockSize,
final HDF5GenericStorageFeatures features);
/**
* Writes out a block of a <code>String</code> array (of rank N). The data set needs to have
* been created by
* {@link #createMDArray(String, int, long[], int[], HDF5GenericStorageFeatures)}
* beforehand.
* <p>
* <i>Note:</i> For best performance, the block size in this method should be chosen to be equal
* to the <var>blockSize</var> argument of the
* {@link #createMDArray(String, int, long[], int[], HDF5GenericStorageFeatures)} call
* that was used to create the data set.
*
* @param objectPath The name (including path information) of the data set object in the file.
* @param data The data to write. The length defines the block size. Must not be
* <code>null</code> or of length 0.
* @param blockNumber The number of the block to write in each dimension.
*/
public void writeMDArrayBlock(final String objectPath, final MDArray<String> data,
final long[] blockNumber);
/**
* Writes out a block of a <code>String</code> array (of rank N). The data set needs to have
* been created by
* {@link #createMDArray(String, int, long[], int[], HDF5GenericStorageFeatures)}
* beforehand.
* <p>
* <i>Note:</i> For best performance, the block size in this method should be chosen to be equal
* to the <var>blockSize</var> argument of the
* {@link #createMDArray(String, int, long[], int[], HDF5GenericStorageFeatures)} call
* that was used to create the data set.
*
* @param objectPath The name (including path information) of the data set object in the file.
* @param data The data to write. The length defines the block size. Must not be
* <code>null</code> or of length 0.
* @param offset The offset in the data set to start writing to.
*/
public void writeMDArrayBlockWithOffset(final String objectPath,
final MDArray<String> data, final long[] offset);
/**
* Writes out a <code>String</code> with variable maximal length.
* <p>
* The advantage of this method over {@link #write(String, String)} is that when writing a
* new string later it can have a different (also greater) length. The disadvantage is that it
* it is more time consuming to read and write this kind of string and that it can't be
* compressed.
*
* @param objectPath The name (including path information) of the data set object in the file.
* @param data The data to write. Must not be <code>null</code>.
*/
public void writeVL(final String objectPath, final String data);
/**
* Writes out a <code>String[]</code> where each String of the array has a variable maximal
* length.
* <p>
* The advantage of this method over {@link #writeArray(String, String[])} is that when
* writing a new string later it can have a different (also greater) length. The disadvantage is
* that it it is more time consuming to read and write this kind of string and that it can't be
* compressed.
*
* @param objectPath The name (including path information) of the data set object in the file.
* @param data The data to write. Must not be <code>null</code>.
*/
public void writeArrayVL(final String objectPath, final String[] data);
/**
* Writes out a <code>String[]</code> where each String of the array has a variable maximal
* length.
* <p>
* The advantage of this method over {@link #writeArray(String, String[])} is that when
* writing a new string later it can have a different (also greater) length. The disadvantage is
* that it it is more time consuming to read and write this kind of string and that it can't be
* compressed.
*
* @param objectPath The name (including path information) of the data set object in the file.
* @param data The data to write. Must not be <code>null</code>.
* @param features The storage features of the data set.
*/
public void writeArrayVL(final String objectPath, final String[] data,
final HDF5GenericStorageFeatures features);
/**
* Creates a <code>String[]</code> where each String of the array has a variable maximal length.
*
* @param objectPath The name (including path information) of the data set object in the file.
* @param size The size of the byte array to create. This will be the total size for
* non-extendable data sets and the size of one chunk for extendable (chunked) data
* sets. For extendable data sets the initial size of the array will be 0, see
* {@link ch.systemsx.cisd.hdf5.IHDF5WriterConfigurator#dontUseExtendableDataTypes}.
*/
public void createArrayVL(final String objectPath, final int size);
/**
* Creates a <code>String[]</code> where each String of the array has a variable maximal length.
*
* @param objectPath The name (including path information) of the data set object in the file.
* @param size The intial size of the array.
* @param blockSize The size of block in the array.
*/
public void createArrayVL(final String objectPath, final long size,
final int blockSize);
/**
* Creates a <code>String[]</code> where each String of the array has a variable maximal length.
*
* @param objectPath The name (including path information) of the data set object in the file.
* @param size The initial size of the array.
* @param blockSize The size of block in the array.
* @param features The storage features of the data set.
*/
public void createArrayVL(final String objectPath, final long size,
final int blockSize, final HDF5GenericStorageFeatures features);
/**
* Creates a <code>String[]</code> where each String of the array has a variable maximal length.
*
* @param objectPath The name (including path information) of the data set object in the file.
* @param size The size of the byte array to create. This will be the total size for
* non-extendable data sets and the size of one chunk for extendable (chunked) data
* sets. For extendable data sets the initial size of the array will be 0, see
* {@link HDF5GenericStorageFeatures}.
* @param features The storage features of the data set.
*/
public void createArrayVL(final String objectPath, final int size,
final HDF5GenericStorageFeatures features);
/**
* Creates a multi-dimensional <code>String</code> array where each String of the array has a
* variable maximal length.
*
* @param objectPath The name (including path information) of the data set object in the file.
* @param dimensions The initial dimensions (along each axis) of the array.
* @param features The storage features of the data set.
*/
public void createMDArrayVL(final String objectPath, final int[] dimensions,
final HDF5GenericStorageFeatures features);
/**
* Creates a multi-dimensional <code>String</code> array where each String of the array has a
* variable maximal length.
*
* @param objectPath The name (including path information) of the data set object in the file.
* @param dimensions The initial dimensions (along each axis) of the array.
*/
public void createMDArrayVL(final String objectPath, final int[] dimensions);
/**
* Creates a multi-dimensional <code>String</code> array where each String of the array has a
* variable maximal length.
*
* @param objectPath The name (including path information) of the data set object in the file.
* @param dimensions The initial dimensions (along each axis) of the array.
* @param blockSize The size of a contiguously stored block (along each axis) in the array.
* @param features The storage features of the data set.
*/
public void createMDArrayVL(final String objectPath, final long[] dimensions,
final int[] blockSize, final HDF5GenericStorageFeatures features);
/**
* Creates a multi-dimensional <code>String</code> array where each String of the array has a
* variable maximal length.
*
* @param objectPath The name (including path information) of the data set object in the file.
* @param dimensions The initial dimensions (along each axis) of the array.
* @param blockSize The size of a contiguously stored block (along each axis) in the array.
*/
public void createMDArrayVL(final String objectPath, final long[] dimensions,
final int[] blockSize);
/**
* Writes out a <code>String</code> array (of rank N). Each element of the array will have a
* variable maximal length.
*
* @param objectPath The name (including path information) of the data set object in the file.
* @param data The data to write. Must not be <code>null</code>.
*/
public void writeMDArrayVL(final String objectPath, final MDArray<String> data);
/**
* Writes out a <code>String</code> array (of rank N). Each element of the array will have a
* variable maximal length.
*
* @param objectPath The name (including path information) of the data set object in the file.
* @param data The data to write. Must not be <code>null</code>.
* @param features The storage features of the data set.
*/
public void writeMDArrayVL(final String objectPath,
final MDArray<String> data, final HDF5GenericStorageFeatures features);
}
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