A B C D E F G H I J K M N O P R S T U V W Z

A

addTypeAdapters(GsonBuilder) - Static method in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3KeyValueReader

addTypeAdapters(GsonBuilder) - Static method in class org.janelia.saalfeldlab.n5.zarr.ZarrKeyValueReader

allKeys - Static variable in class org.janelia.saalfeldlab.n5.zarr.ZArrayAttributes

asMap() - Method in class org.janelia.saalfeldlab.n5.zarr.ZArrayAttributes

asMap() - Method in class org.janelia.saalfeldlab.n5.zarr.ZarrDatasetAttributes

ATTRIBUTES_KEY - Static variable in interface org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3Node

B

blockCodecInfo(BlockCodecInfo) - Method in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3DatasetAttributes.Builder

Sets the block codec info.

blockSize(int[]) - Method in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3DatasetAttributes.Builder

Sets the chunk shape (block size).

Blosc() - Constructor for class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3Compressor.Blosc

Blosc(String, int, String, int, int, int) - Constructor for class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3Compressor.Blosc

Blosc(BloscCompression) - Constructor for class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3Compressor.Blosc

Blosc(String, int, int, int, int) - Constructor for class org.janelia.saalfeldlab.n5.zarr.ZarrCompressor.Blosc

Blosc(BloscCompression) - Constructor for class org.janelia.saalfeldlab.n5.zarr.ZarrCompressor.Blosc

build() - Method in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3DatasetAttributes.Builder

Builds the ZarrV3DatasetAttributes instance.

build(JsonObject, Gson) - Static method in class org.janelia.saalfeldlab.n5.zarr.ZarrKeyValueWriter

build(JsonObject, Gson, boolean) - Static method in class org.janelia.saalfeldlab.n5.zarr.ZarrKeyValueWriter

Creates a ZarrKeyValueWriter.ZarrJsonElements object from a JsonObject containing attributes.

builder(long[], DataType) - Static method in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3DatasetAttributes

builder(DatasetAttributes) - Static method in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3DatasetAttributes

Builder(long[], DataType) - Constructor for class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3DatasetAttributes.Builder

Creates a new builder with the required parameters.

Builder(long[], ZarrV3DataType) - Constructor for class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3DatasetAttributes.Builder

Creates a new builder with the required parameters.

Builder(DatasetAttributes) - Constructor for class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3DatasetAttributes.Builder

byteBlockFactory - Variable in class org.janelia.saalfeldlab.n5.zarr.DType

byteOrderAdapter - Static variable in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3DatasetAttributes

ByteOrderAdapter() - Constructor for class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3DatasetAttributes.ByteOrderAdapter

Bz2(int) - Constructor for class org.janelia.saalfeldlab.n5.zarr.ZarrCompressor.Bz2

Bz2(Bzip2Compression) - Constructor for class org.janelia.saalfeldlab.n5.zarr.ZarrCompressor.Bz2

C

cache - Variable in class org.janelia.saalfeldlab.n5.zarr.ZarrKeyValueReader

cacheAttributes(String, String) - Method in class org.janelia.saalfeldlab.n5.zarr.cache.ZarrJsonCache

cacheGroupAndDataset(String) - Method in class org.janelia.saalfeldlab.n5.zarr.cache.ZarrJsonCache

cacheMeta - Variable in class org.janelia.saalfeldlab.n5.zarr.ZarrKeyValueReader

cacheMeta() - Method in class org.janelia.saalfeldlab.n5.zarr.ZarrKeyValueReader

CHUNK_GRID - Static variable in class org.janelia.saalfeldlab.n5.zarr.chunks.ChunkAttributes

CHUNK_GRID_KEY - Static variable in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3DatasetAttributes

CHUNK_KEY_ENCODING - Static variable in class org.janelia.saalfeldlab.n5.zarr.chunks.ChunkAttributes

CHUNK_KEY_ENCODING_KEY - Static variable in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3DatasetAttributes

ChunkAttributes - Class in org.janelia.saalfeldlab.n5.zarr.chunks

ChunkAttributes(ChunkGrid, ChunkKeyEncoding) - Constructor for class org.janelia.saalfeldlab.n5.zarr.chunks.ChunkAttributes

chunkAttributes - Variable in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3DatasetAttributes

ChunkGrid - Interface in org.janelia.saalfeldlab.n5.zarr.chunks

ChunkKeyEncoding - Interface in org.janelia.saalfeldlab.n5.zarr.chunks

chunkKeyEncoding(DefaultChunkKeyEncoding) - Method in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3DatasetAttributes.Builder

Sets the chunk key encoding.

chunks - Variable in class org.janelia.saalfeldlab.n5.zarr.ZArrayAttributes

chunkSize(int[]) - Method in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3DatasetAttributes.Builder

Sets the chunk shape for sharded arrays.

chunksKey - Static variable in class org.janelia.saalfeldlab.n5.zarr.ZArrayAttributes

code() - Method in enum org.janelia.saalfeldlab.n5.zarr.DType.Primitive

CODECS_KEY - Static variable in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3DatasetAttributes

codecToCompression(DataCodecInfo) - Static method in interface org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3Compressor

combine(JsonElement, JsonElement) - Static method in class org.janelia.saalfeldlab.n5.zarr.ZarrKeyValueReader

Returns one JsonElement that combines two others.

combineAll(JsonElement...) - Static method in class org.janelia.saalfeldlab.n5.zarr.ZarrKeyValueReader

Returns one JsonElement that (attempts to) combine all passed json elements.

compression(Compression) - Method in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3DatasetAttributes.Builder

Sets the compression codec.

compressor - Variable in class org.janelia.saalfeldlab.n5.zarr.ZArrayAttributes

compressorKey - Static variable in class org.janelia.saalfeldlab.n5.zarr.ZArrayAttributes

concatenate(ZarrTransposeCodecInfo[]) - Static method in class org.janelia.saalfeldlab.n5.zarr.codec.transpose.ZarrTransposeCodecInfo

create(ZarrDatasetAttributes, DataCodec...) - Method in class org.janelia.saalfeldlab.n5.zarr.codec.PaddedRawBlockCodecInfo

create(DataType, int[], DataCodecInfo...) - Method in class org.janelia.saalfeldlab.n5.zarr.codec.PaddedRawBlockCodecInfo

create(DataType, ByteOrder, int[], DataCodec, byte[]) - Static method in class org.janelia.saalfeldlab.n5.zarr.codec.PaddedRawBlockCodecs

create(DatasetAttributes) - Method in class org.janelia.saalfeldlab.n5.zarr.codec.transpose.ZarrTransposeCodecInfo

create() - Method in interface org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3Compressor

createByteBlock(int[], long[], int) - Method in class org.janelia.saalfeldlab.n5.zarr.DType

Factory for ByteArrayDataBlocks.

createByteBlock(int[], long[]) - Method in class org.janelia.saalfeldlab.n5.zarr.DType

Factory for ByteArrayDataBlocks.

createDataBlock(int[], long[], int) - Method in class org.janelia.saalfeldlab.n5.zarr.DType

Factory for DataBlocks.

createDataBlock(int[], long[]) - Method in class org.janelia.saalfeldlab.n5.zarr.DType

Factory for DataBlocks with one data element for each block element (e.g. pixel image).

createDataset(String, long[], int[], DataType, Compression) - Method in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3KeyValueWriter

createDataset(String, DatasetAttributes) - Method in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3KeyValueWriter

createDataset(String, DatasetAttributes) - Method in class org.janelia.saalfeldlab.n5.zarr.ZarrKeyValueWriter

createDatasetAttributes(JsonElement) - Method in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3KeyValueReader

createDatasetAttributes(JsonElement) - Method in class org.janelia.saalfeldlab.n5.zarr.ZarrKeyValueReader

createFillBytes(String) - Method in class org.janelia.saalfeldlab.n5.zarr.DType

createFillBytes(String) - Method in enum org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3DataType

createGroup(String) - Method in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3KeyValueWriter

createGroup(String) - Method in class org.janelia.saalfeldlab.n5.zarr.ZarrKeyValueWriter

createZArrayAttributes(String, DatasetAttributes) - Static method in class org.janelia.saalfeldlab.n5.zarr.ZarrDatasetAttributes

createZArrayAttributes(DType, String, char, DatasetAttributes) - Static method in class org.janelia.saalfeldlab.n5.zarr.ZarrDatasetAttributes

D

DATA_TYPE_KEY - Static variable in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3DatasetAttributes

dataBlockFactory - Variable in class org.janelia.saalfeldlab.n5.zarr.DType

dataCodecInfos(DataCodecInfo...) - Method in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3DatasetAttributes.Builder

Sets the data codec infos (e.g., compression).

datasetAttributesMap - Variable in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3KeyValueReader

datasetAttributesMap - Variable in class org.janelia.saalfeldlab.n5.zarr.ZarrKeyValueReader

datasetCodecInfos(DatasetCodecInfo...) - Method in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3DatasetAttributes.Builder

Sets the dataset codec infos.

datasetExists(String) - Method in class org.janelia.saalfeldlab.n5.zarr.ZarrKeyValueReader

dataType - Variable in class org.janelia.saalfeldlab.n5.zarr.DType

decode(ReadData) - Method in interface org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3Compressor

deepestChunkShape(BlockCodecInfo) - Static method in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3DatasetAttributes

DEFAULT_DIMENSION_SEPARATOR - Static variable in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3KeyValueReader

DEFAULT_SEPARATOR - Static variable in class org.janelia.saalfeldlab.n5.zarr.chunks.DefaultChunkKeyEncoding

DEFAULT_SEPARATOR - Static variable in class org.janelia.saalfeldlab.n5.zarr.chunks.V2ChunkKeyEncoding

defaultBlockCodecInfo() - Method in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3DatasetAttributes

defaultBlockCodecInfo() - Method in class org.janelia.saalfeldlab.n5.zarr.ZarrDatasetAttributes

defaultChunkAttributes(int[]) - Static method in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3DatasetAttributes

DefaultChunkKeyEncoding - Class in org.janelia.saalfeldlab.n5.zarr.chunks

DefaultChunkKeyEncoding() - Constructor for class org.janelia.saalfeldlab.n5.zarr.chunks.DefaultChunkKeyEncoding

DefaultChunkKeyEncoding(String) - Constructor for class org.janelia.saalfeldlab.n5.zarr.chunks.DefaultChunkKeyEncoding

defaultChunkShape(long[]) - Static method in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3DatasetAttributes

defaultDimensionNames(int) - Static method in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3DatasetAttributes

defaultShardCodecInfo(int[], DataCodecInfo[], DataCodecInfo[]) - Static method in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3DatasetAttributes

defaultShardCodecInfo(int[], DataCodecInfo[]) - Static method in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3DatasetAttributes

deleteJsonResource(String, String) - Method in class org.janelia.saalfeldlab.n5.zarr.ZarrKeyValueWriter

deserialize(JsonElement, Type, JsonDeserializationContext) - Method in class org.janelia.saalfeldlab.n5.zarr.chunks.ChunkAttributes

deserialize(JsonElement, Type, JsonDeserializationContext) - Method in class org.janelia.saalfeldlab.n5.zarr.codec.transpose.ZarrTransposeCodecInfo.ZarrTransposeOrderAdapter

deserialize(JsonElement, Type, JsonDeserializationContext) - Method in class org.janelia.saalfeldlab.n5.zarr.Filter.JsonAdapter

deserialize(JsonElement, Type, JsonDeserializationContext) - Method in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3DatasetAttributes.ByteOrderAdapter

deserialize(JsonElement, Type, JsonDeserializationContext) - Method in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3DatasetAttributes.JsonAdapter

deserialize(JsonElement, Type, JsonDeserializationContext) - Method in class org.janelia.saalfeldlab.n5.zarr.ZArrayAttributes.JsonAdapter

deserialize(JsonElement, Type, JsonDeserializationContext) - Method in class org.janelia.saalfeldlab.n5.zarr.ZarrCompressor.JsonAdapter

DIMENSION_NAMES_KEY - Static variable in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3DatasetAttributes

dimensionNames(String[]) - Method in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3DatasetAttributes.Builder

Sets the dimension names.

dimensionNames - Variable in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3DatasetAttributes

dimensionSeparator(String) - Method in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3DatasetAttributes.Builder

Sets the dimension separator used in chunk keys.

dimensionSeparator - Variable in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3KeyValueReader

dimensionSeparator - Variable in class org.janelia.saalfeldlab.n5.zarr.ZArrayAttributes

dimensionSeparator - Variable in class org.janelia.saalfeldlab.n5.zarr.ZarrKeyValueReader

dimensionSeparatorKey - Static variable in class org.janelia.saalfeldlab.n5.zarr.ZArrayAttributes

DType - Class in org.janelia.saalfeldlab.n5.zarr

Enumerates available zarr data types as defined at https://docs.scipy.org/doc/numpy/reference/arrays.interface.html At this time, only primitive types are supported, no recursive structs.

DType(String, Collection<Filter>) - Constructor for class org.janelia.saalfeldlab.n5.zarr.DType

DType(DataType, int) - Constructor for class org.janelia.saalfeldlab.n5.zarr.DType

DType(DataType) - Constructor for class org.janelia.saalfeldlab.n5.zarr.DType

dtype - Variable in class org.janelia.saalfeldlab.n5.zarr.ZArrayAttributes

DType.Primitive - Enum in org.janelia.saalfeldlab.n5.zarr

dTypeKey - Static variable in class org.janelia.saalfeldlab.n5.zarr.ZArrayAttributes

E

EmptyZarrFilters() - Constructor for class org.janelia.saalfeldlab.n5.zarr.ZArrayAttributes.EmptyZarrFilters

encode(ReadData) - Method in interface org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3Compressor

equals(Object) - Method in class org.janelia.saalfeldlab.n5.zarr.codec.transpose.ZarrTransposeCodecInfo

exists(String) - Method in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3KeyValueReader

exists(String) - Method in class org.janelia.saalfeldlab.n5.zarr.ZarrKeyValueReader

existsFromContainer(String) - Method in class org.janelia.saalfeldlab.n5.zarr.ZarrKeyValueReader

Tests whether the key at normalPathName exists for the backend.

F

FILL_VALUE_KEY - Static variable in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3DatasetAttributes

fillBytes - Variable in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3DatasetAttributes

fillBytes - Variable in class org.janelia.saalfeldlab.n5.zarr.ZarrDatasetAttributes

fillValue(String) - Method in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3DatasetAttributes.Builder

Sets the fill value for uninitialized chunks.

fillValue - Variable in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3DatasetAttributes

fillValue - Variable in class org.janelia.saalfeldlab.n5.zarr.ZArrayAttributes

fillValueKey - Static variable in class org.janelia.saalfeldlab.n5.zarr.ZArrayAttributes

Filter - Interface in org.janelia.saalfeldlab.n5.zarr

Filter types TODO implement some

Filter.JsonAdapter - Class in org.janelia.saalfeldlab.n5.zarr

Filter.VLenStringFilter - Class in org.janelia.saalfeldlab.n5.zarr

filters - Variable in class org.janelia.saalfeldlab.n5.zarr.ZArrayAttributes

filtersKey - Static variable in class org.janelia.saalfeldlab.n5.zarr.ZArrayAttributes

forceAddNewCacheInfo(String, String, JsonElement, boolean, boolean) - Method in class org.janelia.saalfeldlab.n5.zarr.cache.ZarrJsonCache

Deprecated.

FORMAT - Static variable in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3DatasetAttributes

from(DatasetAttributes, String, String) - Static method in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3DatasetAttributes

fromCode(char) - Static method in enum org.janelia.saalfeldlab.n5.zarr.DType.Primitive

fromCompression(DataCodecInfo) - Static method in interface org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3Compressor

fromCompression(Compression) - Static method in interface org.janelia.saalfeldlab.n5.zarr.ZarrCompressor

fromDataType(DataType) - Static method in enum org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3DataType

fromString(String) - Static method in interface org.janelia.saalfeldlab.n5.zarr.Filter

G

getAttribute(String, String, Type) - Method in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3KeyValueReader

getAttribute(String, String, Class<T>) - Method in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3KeyValueReader

getAttribute(String, String, Class<T>) - Method in class org.janelia.saalfeldlab.n5.zarr.ZarrKeyValueReader

getAttribute(String, String, Type) - Method in class org.janelia.saalfeldlab.n5.zarr.ZarrKeyValueReader

getAttributes(String, String) - Method in class org.janelia.saalfeldlab.n5.zarr.cache.ZarrJsonCache

getAttributes(String) - Method in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3KeyValueReader

getAttributes(String) - Method in class org.janelia.saalfeldlab.n5.zarr.ZarrKeyValueReader

Returns the attributes at the given path.

getAttributesFromContainer(String, String) - Method in class org.janelia.saalfeldlab.n5.zarr.ZarrKeyValueReader

getAttributesKey() - Method in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3KeyValueReader

getAttributesKey() - Method in class org.janelia.saalfeldlab.n5.zarr.ZarrKeyValueReader

getAttributesUnmapped(String) - Method in class org.janelia.saalfeldlab.n5.zarr.ZarrKeyValueReader

getByteOrder() - Method in class org.janelia.saalfeldlab.n5.zarr.codec.PaddedRawBlockCodecInfo

getCache() - Method in class org.janelia.saalfeldlab.n5.zarr.ZarrKeyValueReader

getChunkAttributes() - Method in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3DatasetAttributes

getChunkPath(long[]) - Method in class org.janelia.saalfeldlab.n5.zarr.chunks.ChunkAttributes

getChunkPath(long[]) - Method in interface org.janelia.saalfeldlab.n5.zarr.chunks.ChunkKeyEncoding

getChunkPath(long[]) - Method in class org.janelia.saalfeldlab.n5.zarr.chunks.DefaultChunkKeyEncoding

getChunkPath(long[]) - Method in class org.janelia.saalfeldlab.n5.zarr.chunks.V2ChunkKeyEncoding

getChunks() - Method in class org.janelia.saalfeldlab.n5.zarr.ZArrayAttributes

getCompression() - Method in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3Compressor.Blosc

getCompression() - Method in interface org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3Compressor

getCompression() - Method in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3Compressor.Gzip

getCompression() - Method in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3Compressor.Zlib

getCompression() - Method in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3Compressor.Zstandard

getCompression() - Method in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3DatasetAttributes

Deprecated.

getCompression() - Method in class org.janelia.saalfeldlab.n5.zarr.ZarrCompressor.Blosc

getCompression() - Method in class org.janelia.saalfeldlab.n5.zarr.ZarrCompressor.Bz2

getCompression() - Method in interface org.janelia.saalfeldlab.n5.zarr.ZarrCompressor

getCompression() - Method in class org.janelia.saalfeldlab.n5.zarr.ZarrCompressor.Gzip

getCompression() - Method in class org.janelia.saalfeldlab.n5.zarr.ZarrCompressor.Raw

getCompression() - Method in class org.janelia.saalfeldlab.n5.zarr.ZarrCompressor.Zlib

getCompression() - Method in class org.janelia.saalfeldlab.n5.zarr.ZarrCompressor.Zstandard

getCompressor() - Method in class org.janelia.saalfeldlab.n5.zarr.ZArrayAttributes

getConvertedDatasetAttributes(DatasetAttributes) - Method in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3KeyValueReader

getConvertedDatasetAttributes(DatasetAttributes) - Method in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3KeyValueWriter

getConvertedDatasetAttributes(DatasetAttributes) - Method in class org.janelia.saalfeldlab.n5.zarr.ZarrKeyValueReader

getDatasetAttributes(String) - Method in class org.janelia.saalfeldlab.n5.zarr.ZarrKeyValueReader

Returns the ZarrDatasetAttributes located at the given path, if present.

getDataType() - Method in class org.janelia.saalfeldlab.n5.zarr.DType

getDataType(DType.Primitive, int, Collection<Filter>) - Static method in class org.janelia.saalfeldlab.n5.zarr.DType

getDataType() - Method in enum org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3DataType

getDimensionNames() - Method in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3DatasetAttributes

getDimensionSeparator() - Method in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3KeyValueReader

getDimensionSeparator() - Method in class org.janelia.saalfeldlab.n5.zarr.ZArrayAttributes

getDimensionSeparator() - Method in class org.janelia.saalfeldlab.n5.zarr.ZarrDatasetAttributes

getDType() - Method in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3DatasetAttributes

getDType() - Method in class org.janelia.saalfeldlab.n5.zarr.ZArrayAttributes

getDType() - Method in class org.janelia.saalfeldlab.n5.zarr.ZarrDatasetAttributes

getFillBytes() - Method in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3DatasetAttributes

getFillBytes() - Method in class org.janelia.saalfeldlab.n5.zarr.ZarrDatasetAttributes

getFillValue() - Method in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3DatasetAttributes

getFillValue() - Method in class org.janelia.saalfeldlab.n5.zarr.ZArrayAttributes

getFillValueJson() - Method in class org.janelia.saalfeldlab.n5.zarr.ZArrayAttributes

getFilters() - Method in class org.janelia.saalfeldlab.n5.zarr.DType

Returns a list of filters for the corresponding DType.

getFilters() - Method in class org.janelia.saalfeldlab.n5.zarr.ZArrayAttributes

getGrid() - Method in class org.janelia.saalfeldlab.n5.zarr.chunks.ChunkAttributes

getGson() - Method in class org.janelia.saalfeldlab.n5.zarr.ZarrKeyValueReader

getId() - Method in interface org.janelia.saalfeldlab.n5.zarr.Filter

getId() - Method in class org.janelia.saalfeldlab.n5.zarr.Filter.VLenStringFilter

getJsonAdapter() - Static method in class org.janelia.saalfeldlab.n5.zarr.chunks.ChunkAttributes

getJsonResource(String, String) - Method in class org.janelia.saalfeldlab.n5.zarr.ZarrKeyValueReader

Returns a JsonElement representing the contents of a JSON file located at the given path if present, and null if not.

getKeyEncoding() - Method in class org.janelia.saalfeldlab.n5.zarr.chunks.ChunkAttributes

getKeyValueAccess() - Method in class org.janelia.saalfeldlab.n5.zarr.ZarrKeyValueReader

getNBits() - Method in class org.janelia.saalfeldlab.n5.zarr.DType

Returns the number of bits of this type.

getNBytes() - Method in class org.janelia.saalfeldlab.n5.zarr.DType

Returns the number of bytes of this type.

getNBytes() - Method in enum org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3DataType

Returns the number of bytes of this type.

getNumDimensions() - Method in class org.janelia.saalfeldlab.n5.zarr.ZArrayAttributes

getOrder() - Method in class org.janelia.saalfeldlab.n5.zarr.codec.transpose.ZarrTransposeCodecInfo

getOrder() - Method in class org.janelia.saalfeldlab.n5.zarr.DType

getOrder() - Method in class org.janelia.saalfeldlab.n5.zarr.ZArrayAttributes

getOrMakeZarray() - Method in class org.janelia.saalfeldlab.n5.zarr.ZarrKeyValueWriter.ZarrJsonElements

getOrMakeZattrs() - Method in class org.janelia.saalfeldlab.n5.zarr.ZarrKeyValueWriter.ZarrJsonElements

getOrMakeZgroup() - Method in class org.janelia.saalfeldlab.n5.zarr.ZarrKeyValueWriter.ZarrJsonElements

getRawAttribute(String, String, Class<T>) - Method in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3KeyValueReader

getRawAttributes(String) - Method in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3KeyValueReader

getSeparator() - Method in class org.janelia.saalfeldlab.n5.zarr.chunks.DefaultChunkKeyEncoding

getSeparator() - Method in class org.janelia.saalfeldlab.n5.zarr.chunks.V2ChunkKeyEncoding

getShape() - Method in interface org.janelia.saalfeldlab.n5.zarr.chunks.ChunkGrid

getShape() - Method in class org.janelia.saalfeldlab.n5.zarr.chunks.RegularChunkGrid

getShape() - Method in class org.janelia.saalfeldlab.n5.zarr.ZArrayAttributes

getType() - Method in class org.janelia.saalfeldlab.n5.zarr.codec.PaddedRawBlockCodecInfo

getType() - Method in class org.janelia.saalfeldlab.n5.zarr.codec.transpose.ZarrTransposeCodecInfo

getType() - Method in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3Compressor.Blosc

getType() - Method in interface org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3Compressor

getType() - Method in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3Compressor.Gzip

getType() - Method in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3Compressor.Zlib

getType() - Method in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3Compressor.Zstandard

getType() - Method in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3DatasetAttributes

getType() - Method in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3Group

getType() - Method in interface org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3Node

getTypeStr(String) - Static method in class org.janelia.saalfeldlab.n5.zarr.DType

getURI() - Method in class org.janelia.saalfeldlab.n5.zarr.ZarrKeyValueReader

getVersion() - Method in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3KeyValueReader

getVersion(String) - Method in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3KeyValueReader

getVersion(JsonElement) - Static method in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3KeyValueReader

getVersion() - Method in class org.janelia.saalfeldlab.n5.zarr.ZarrKeyValueReader

Returns the version of this zarr container.

getVersion(JsonElement) - Static method in class org.janelia.saalfeldlab.n5.zarr.ZarrKeyValueReader

getZArray(String) - Method in class org.janelia.saalfeldlab.n5.zarr.ZarrKeyValueReader

Returns a JsonElement representing the contents of .zarray located at the given path if present, and null if not.

getZArrayAttributes() - Method in class org.janelia.saalfeldlab.n5.zarr.ZarrDatasetAttributes

getZArrayAttributes(String) - Method in class org.janelia.saalfeldlab.n5.zarr.ZarrKeyValueReader

Returns the ZArrayAttributes located at the given path, if present.

getZArrayAttributes(JsonElement) - Method in class org.janelia.saalfeldlab.n5.zarr.ZarrKeyValueReader

Constructs ZArrayAttributes from a JsonElement.

getZarrFormat() - Method in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3DatasetAttributes

getZarrFormat() - Method in class org.janelia.saalfeldlab.n5.zarr.ZArrayAttributes

getZAttributes(String) - Method in class org.janelia.saalfeldlab.n5.zarr.ZarrKeyValueReader

Returns a JsonElement representing the contents of .zattrs located at the given path if present, and null if not. public static JsonObject serialize(JsonSerializationContext context, final DefaultChunkKeyEncoding cke) { final JsonObject out = new JsonObject(); out.addProperty("name", "default"); final JsonObject config = new JsonObject(); config.addProperty("separator", cke.separator); out.add("configuration", config); return out; }

getZGroup(String) - Method in class org.janelia.saalfeldlab.n5.zarr.ZarrKeyValueReader

Returns a JsonElement representing the contents of .zgroup located at the given path if present, and null if not.

groupExists(String) - Method in class org.janelia.saalfeldlab.n5.zarr.ZarrKeyValueReader

gson - Variable in class org.janelia.saalfeldlab.n5.zarr.ZarrKeyValueReader

Gzip() - Constructor for class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3Compressor.Gzip

Gzip(int) - Constructor for class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3Compressor.Gzip

Gzip(GzipCompression) - Constructor for class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3Compressor.Gzip

Gzip(int) - Constructor for class org.janelia.saalfeldlab.n5.zarr.ZarrCompressor.Gzip

Gzip(GzipCompression) - Constructor for class org.janelia.saalfeldlab.n5.zarr.ZarrCompressor.Gzip

H

hasRequiredArrayKeys(JsonObject) - Static method in class org.janelia.saalfeldlab.n5.zarr.ZarrKeyValueWriter

I

initializeGroup(String) - Method in class org.janelia.saalfeldlab.n5.zarr.ZarrKeyValueWriter

Creates a .zgroup file containing the zarr_format at the given path and all parent paths.

isArray(String) - Static method in enum org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3Node.NodeType

isAttributes(String) - Method in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3KeyValueReader

isCompatible(N5Reader.Version) - Method in class org.janelia.saalfeldlab.n5.zarr.ZarrKeyValueWriter

isDataset(String, String) - Method in class org.janelia.saalfeldlab.n5.zarr.cache.ZarrJsonCache

isDatasetFromAttributes(String, JsonElement) - Method in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3KeyValueReader

isDatasetFromAttributes(String, JsonElement) - Method in class org.janelia.saalfeldlab.n5.zarr.ZarrKeyValueReader

isDatasetFromContainer(String) - Method in class org.janelia.saalfeldlab.n5.zarr.ZarrKeyValueReader

isGroup(String, String) - Method in class org.janelia.saalfeldlab.n5.zarr.cache.ZarrJsonCache

isGroup(String) - Static method in enum org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3Node.NodeType

isGroupFromAttributes(String, JsonElement) - Method in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3KeyValueReader

isGroupFromAttributes(String, JsonElement) - Method in class org.janelia.saalfeldlab.n5.zarr.ZarrKeyValueReader

isGroupFromContainer(String) - Method in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3KeyValueReader

isGroupFromContainer(String) - Method in class org.janelia.saalfeldlab.n5.zarr.ZarrKeyValueReader

isRowMajor() - Method in class org.janelia.saalfeldlab.n5.zarr.ZarrDatasetAttributes

J

jsonAdapter - Static variable in interface org.janelia.saalfeldlab.n5.zarr.Filter

JsonAdapter() - Constructor for class org.janelia.saalfeldlab.n5.zarr.Filter.JsonAdapter

jsonAdapter - Static variable in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3DatasetAttributes

JsonAdapter() - Constructor for class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3DatasetAttributes.JsonAdapter

jsonAdapter - Static variable in class org.janelia.saalfeldlab.n5.zarr.ZArrayAttributes

JsonAdapter() - Constructor for class org.janelia.saalfeldlab.n5.zarr.ZArrayAttributes.JsonAdapter

jsonAdapter - Static variable in interface org.janelia.saalfeldlab.n5.zarr.ZarrCompressor

JsonAdapter() - Constructor for class org.janelia.saalfeldlab.n5.zarr.ZarrCompressor.JsonAdapter

K

key() - Static method in enum org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3Node.NodeType

keyValueAccess - Variable in class org.janelia.saalfeldlab.n5.zarr.ZarrKeyValueReader

M

mapAttributeKey(String) - Method in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3KeyValueReader

Converts an attribute path

mapN5DatasetAttributes - Variable in class org.janelia.saalfeldlab.n5.zarr.ZarrKeyValueReader

mergeAttributes - Variable in class org.janelia.saalfeldlab.n5.zarr.ZarrKeyValueReader

move(JsonObject, Supplier<JsonObject>, String...) - Static method in class org.janelia.saalfeldlab.n5.zarr.ZarrKeyValueWriter

N

n5ToZarrDatasetAttributes(JsonElement) - Method in class org.janelia.saalfeldlab.n5.zarr.ZarrKeyValueReader

N5ZarrReader - Class in org.janelia.saalfeldlab.n5.zarr

N5ZarrReader(String, GsonBuilder, boolean, boolean, boolean) - Constructor for class org.janelia.saalfeldlab.n5.zarr.N5ZarrReader

Opens an N5ZarrReader at a given base path with a custom GsonBuilder to support custom attributes.

N5ZarrReader(String, GsonBuilder, boolean) - Constructor for class org.janelia.saalfeldlab.n5.zarr.N5ZarrReader

Opens an N5ZarrReader at a given base path with a custom GsonBuilder to support custom attributes.

N5ZarrReader(String, boolean) - Constructor for class org.janelia.saalfeldlab.n5.zarr.N5ZarrReader

Opens an N5ZarrReader at a given base path.

N5ZarrReader(String, GsonBuilder) - Constructor for class org.janelia.saalfeldlab.n5.zarr.N5ZarrReader

Opens an N5ZarrReader at a given base path with a custom GsonBuilder to support custom attributes.

N5ZarrReader(String) - Constructor for class org.janelia.saalfeldlab.n5.zarr.N5ZarrReader

Opens an N5ZarrReader at a given base path.

N5ZarrWriter - Class in org.janelia.saalfeldlab.n5.zarr

N5ZarrWriter(String, GsonBuilder, String, boolean, boolean) - Constructor for class org.janelia.saalfeldlab.n5.zarr.N5ZarrWriter

Opens an N5ZarrWriter at a given base path with a custom GsonBuilder to support custom attributes.

N5ZarrWriter(String, String, boolean) - Constructor for class org.janelia.saalfeldlab.n5.zarr.N5ZarrWriter

Opens an N5ZarrWriter at a given base path.

N5ZarrWriter(String, boolean) - Constructor for class org.janelia.saalfeldlab.n5.zarr.N5ZarrWriter

Opens an N5ZarrWriter at a given base path.

N5ZarrWriter(String, GsonBuilder, boolean) - Constructor for class org.janelia.saalfeldlab.n5.zarr.N5ZarrWriter

Opens an N5ZarrWriter at a given base path with a custom GsonBuilder to support custom attributes.

N5ZarrWriter(String, GsonBuilder) - Constructor for class org.janelia.saalfeldlab.n5.zarr.N5ZarrWriter

Opens an N5ZarrWriter at a given base path with a custom GsonBuilder to support custom attributes.

N5ZarrWriter(String) - Constructor for class org.janelia.saalfeldlab.n5.zarr.N5ZarrWriter

Opens an N5ZarrWriter at a given base path.

nBits - Variable in class org.janelia.saalfeldlab.n5.zarr.DType

nBytes - Variable in class org.janelia.saalfeldlab.n5.zarr.DType

newCache() - Method in class org.janelia.saalfeldlab.n5.zarr.ZarrKeyValueReader

NODE_TYPE_KEY - Static variable in interface org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3Node

O

order - Variable in class org.janelia.saalfeldlab.n5.zarr.DType

order - Variable in class org.janelia.saalfeldlab.n5.zarr.ZArrayAttributes

orderKey - Static variable in class org.janelia.saalfeldlab.n5.zarr.ZArrayAttributes

org.janelia.saalfeldlab.n5.zarr - package org.janelia.saalfeldlab.n5.zarr

Zarr backends for N5

org.janelia.saalfeldlab.n5.zarr.cache - package org.janelia.saalfeldlab.n5.zarr.cache

org.janelia.saalfeldlab.n5.zarr.chunks - package org.janelia.saalfeldlab.n5.zarr.chunks

org.janelia.saalfeldlab.n5.zarr.codec - package org.janelia.saalfeldlab.n5.zarr.codec

org.janelia.saalfeldlab.n5.zarr.codec.transpose - package org.janelia.saalfeldlab.n5.zarr.codec.transpose

org.janelia.saalfeldlab.n5.zarr.v3 - package org.janelia.saalfeldlab.n5.zarr.v3

P

padCrop(byte[], int[], int[], int, int, byte[]) - Static method in class org.janelia.saalfeldlab.n5.zarr.ZarrKeyValueWriter

PaddedRawBlockCodecInfo - Class in org.janelia.saalfeldlab.n5.zarr.codec

PaddedRawBlockCodecInfo() - Constructor for class org.janelia.saalfeldlab.n5.zarr.codec.PaddedRawBlockCodecInfo

PaddedRawBlockCodecInfo(ByteOrder, byte[]) - Constructor for class org.janelia.saalfeldlab.n5.zarr.codec.PaddedRawBlockCodecInfo

PaddedRawBlockCodecs - Class in org.janelia.saalfeldlab.n5.zarr.codec

PaddedRawBlockCodecs() - Constructor for class org.janelia.saalfeldlab.n5.zarr.codec.PaddedRawBlockCodecs

R

Raw() - Constructor for class org.janelia.saalfeldlab.n5.zarr.ZarrCompressor.Raw

redirectCompression(JsonObject, Gson, JsonObject) - Static method in class org.janelia.saalfeldlab.n5.zarr.ZarrKeyValueWriter

redirectDatasetAttribute(JsonObject, String, ZarrKeyValueWriter.ZarrJsonElements, ZarrDatasetAttributes) - Method in class org.janelia.saalfeldlab.n5.zarr.ZarrKeyValueWriter

redirectDatasetAttribute(JsonObject, String, JsonObject, String) - Static method in class org.janelia.saalfeldlab.n5.zarr.ZarrKeyValueWriter

redirectDatasetAttribute(JsonObject, String, ZarrKeyValueWriter.ZarrJsonElements, String, ZarrDatasetAttributes) - Method in class org.janelia.saalfeldlab.n5.zarr.ZarrKeyValueWriter

redirectDataType(JsonObject, JsonObject) - Static method in class org.janelia.saalfeldlab.n5.zarr.ZarrKeyValueWriter

redirectGroupDatasetAttribute(JsonObject, String, ZarrKeyValueWriter.ZarrJsonElements, String, ZarrDatasetAttributes) - Method in class org.janelia.saalfeldlab.n5.zarr.ZarrKeyValueWriter

registry - Static variable in interface org.janelia.saalfeldlab.n5.zarr.ZarrCompressor

RegularChunkGrid - Class in org.janelia.saalfeldlab.n5.zarr.chunks

RegularChunkGrid() - Constructor for class org.janelia.saalfeldlab.n5.zarr.chunks.RegularChunkGrid

RegularChunkGrid(int[]) - Constructor for class org.janelia.saalfeldlab.n5.zarr.chunks.RegularChunkGrid

relativeBlockPath(long...) - Method in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3DatasetAttributes

relativeBlockPath(long...) - Method in class org.janelia.saalfeldlab.n5.zarr.ZarrDatasetAttributes

removeAttribute(String, String, Class<T>) - Method in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3KeyValueWriter

removeAttribute(String, String) - Method in class org.janelia.saalfeldlab.n5.zarr.ZarrKeyValueWriter

removeAttribute(String, String, Class<T>) - Method in class org.janelia.saalfeldlab.n5.zarr.ZarrKeyValueWriter

REQUIRED_KEYS - Static variable in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3DatasetAttributes

requiredKeys - Static variable in class org.janelia.saalfeldlab.n5.zarr.ZArrayAttributes

reverseAttrsWhenCOrder(JsonElement) - Static method in class org.janelia.saalfeldlab.n5.zarr.ZarrKeyValueReader

S

serialize(ChunkAttributes, Type, JsonSerializationContext) - Method in class org.janelia.saalfeldlab.n5.zarr.chunks.ChunkAttributes

serialize(ZarrTransposeCodecInfo.ZarrTransposeOrder, Type, JsonSerializationContext) - Method in class org.janelia.saalfeldlab.n5.zarr.codec.transpose.ZarrTransposeCodecInfo.ZarrTransposeOrderAdapter

serialize(Filter, Type, JsonSerializationContext) - Method in class org.janelia.saalfeldlab.n5.zarr.Filter.JsonAdapter

serialize(ByteOrder, Type, JsonSerializationContext) - Method in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3DatasetAttributes.ByteOrderAdapter

serialize(ZarrV3DatasetAttributes, Type, JsonSerializationContext) - Method in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3DatasetAttributes.JsonAdapter

serialize(ZArrayAttributes, Type, JsonSerializationContext) - Method in class org.janelia.saalfeldlab.n5.zarr.ZArrayAttributes.JsonAdapter

setAttribute(String, String, T) - Method in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3KeyValueWriter

setAttributes(String, Map<String, ?>) - Method in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3KeyValueWriter

setAttributes(String, JsonElement) - Method in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3KeyValueWriter

setAttributes(String, Map<String, ?>) - Method in class org.janelia.saalfeldlab.n5.zarr.ZarrKeyValueWriter

setDatasetAttributes(String, DatasetAttributes) - Method in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3KeyValueWriter

setDatasetAttributes(String, DatasetAttributes) - Method in class org.janelia.saalfeldlab.n5.zarr.ZarrKeyValueWriter

setDimensionSeparator(String) - Method in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3KeyValueReader

setRawAttribute(String, String, T) - Method in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3KeyValueWriter

setRawAttributes(String, Map<String, ?>) - Method in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3KeyValueWriter

setRawAttributes(String, JsonElement) - Method in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3KeyValueWriter

setVersion(String) - Method in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3KeyValueWriter

setVersion(String) - Method in class org.janelia.saalfeldlab.n5.zarr.ZarrKeyValueWriter

setVersion(String, boolean) - Method in class org.janelia.saalfeldlab.n5.zarr.ZarrKeyValueWriter

setZArrayAttributes(String, ZArrayAttributes) - Method in class org.janelia.saalfeldlab.n5.zarr.ZarrKeyValueWriter

Write the contents of the attributes argument to the .zarray file at the given pathName.

setZGroup(String, N5Reader.Version) - Method in class org.janelia.saalfeldlab.n5.zarr.ZarrKeyValueWriter

shape - Variable in class org.janelia.saalfeldlab.n5.zarr.ZArrayAttributes

SHAPE_KEY - Static variable in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3DatasetAttributes

shapeKey - Static variable in class org.janelia.saalfeldlab.n5.zarr.ZArrayAttributes

shardIndexDataCodecInfos(DataCodecInfo...) - Method in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3DatasetAttributes.Builder

Sets the data codec infos for the shard index;

T

toString() - Method in class org.janelia.saalfeldlab.n5.zarr.chunks.ChunkAttributes

toString() - Method in class org.janelia.saalfeldlab.n5.zarr.chunks.DefaultChunkKeyEncoding

toString() - Method in class org.janelia.saalfeldlab.n5.zarr.chunks.RegularChunkGrid

toString() - Method in class org.janelia.saalfeldlab.n5.zarr.DType

toString() - Method in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3KeyValueReader

toString() - Method in enum org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3Node.NodeType

toString() - Method in class org.janelia.saalfeldlab.n5.zarr.ZarrKeyValueReader

toZarrV3(DataCodecInfo[]) - Static method in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3DatasetAttributes

TYPE - Static variable in class org.janelia.saalfeldlab.n5.zarr.codec.PaddedRawBlockCodecInfo

TYPE - Static variable in class org.janelia.saalfeldlab.n5.zarr.codec.transpose.ZarrTransposeCodecInfo

typestr - Variable in class org.janelia.saalfeldlab.n5.zarr.DType

U

updateCacheInfo(String, String, JsonElement) - Method in class org.janelia.saalfeldlab.n5.zarr.cache.ZarrJsonCache

uri - Variable in class org.janelia.saalfeldlab.n5.zarr.ZarrKeyValueReader

V

V2ChunkKeyEncoding - Class in org.janelia.saalfeldlab.n5.zarr.chunks

V2ChunkKeyEncoding(String) - Constructor for class org.janelia.saalfeldlab.n5.zarr.chunks.V2ChunkKeyEncoding

VALID_SEPARATORS - Static variable in class org.janelia.saalfeldlab.n5.zarr.chunks.DefaultChunkKeyEncoding

VALID_SEPARATORS - Static variable in class org.janelia.saalfeldlab.n5.zarr.chunks.V2ChunkKeyEncoding

valueOf(String) - Static method in enum org.janelia.saalfeldlab.n5.zarr.DType.Primitive

Returns the enum constant of this type with the specified name.

valueOf(String) - Static method in enum org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3DataType

Returns the enum constant of this type with the specified name.

valueOf(String) - Static method in enum org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3Node.NodeType

Returns the enum constant of this type with the specified name.

values() - Static method in enum org.janelia.saalfeldlab.n5.zarr.DType.Primitive

Returns an array containing the constants of this enum type, in the order they are declared.

values() - Static method in enum org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3DataType

Returns an array containing the constants of this enum type, in the order they are declared.

values() - Static method in enum org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3Node.NodeType

Returns an array containing the constants of this enum type, in the order they are declared.

VERSION - Static variable in class org.janelia.saalfeldlab.n5.zarr.N5ZarrReader

VERSION - Static variable in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3KeyValueReader

VERSION - Static variable in class org.janelia.saalfeldlab.n5.zarr.ZarrKeyValueReader

VERSION_ZERO - Static variable in class org.janelia.saalfeldlab.n5.zarr.ZarrKeyValueReader

VLEN_UTF8 - Static variable in interface org.janelia.saalfeldlab.n5.zarr.Filter

VLenStringFilter() - Constructor for class org.janelia.saalfeldlab.n5.zarr.Filter.VLenStringFilter

W

writeAttributes(String, Map<String, ?>) - Method in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3KeyValueWriter

writeJson(String, String, JsonElement) - Method in class org.janelia.saalfeldlab.n5.zarr.ZarrKeyValueWriter

writeJsonResource(String, String, Object) - Method in class org.janelia.saalfeldlab.n5.zarr.ZarrKeyValueWriter

writeZArray(String, JsonElement) - Method in class org.janelia.saalfeldlab.n5.zarr.ZarrKeyValueWriter

writeZAttrs(String, JsonElement) - Method in class org.janelia.saalfeldlab.n5.zarr.ZarrKeyValueWriter

writeZGroup(String, JsonElement) - Method in class org.janelia.saalfeldlab.n5.zarr.ZarrKeyValueWriter

Z

zarr_format - Variable in class org.janelia.saalfeldlab.n5.zarr.ZArrayAttributes

ZARR_FORMAT_KEY - Static variable in interface org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3Node

ZARR_FORMAT_KEY - Static variable in class org.janelia.saalfeldlab.n5.zarr.ZarrKeyValueReader

ZARR_KEY - Static variable in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3KeyValueReader

zarray - Variable in class org.janelia.saalfeldlab.n5.zarr.ZarrDatasetAttributes

zarray - Variable in class org.janelia.saalfeldlab.n5.zarr.ZarrKeyValueWriter.ZarrJsonElements

ZARRAY_FILE - Static variable in class org.janelia.saalfeldlab.n5.zarr.ZarrKeyValueReader

ZArrayAttributes - Class in org.janelia.saalfeldlab.n5.zarr

ZArrayAttributes(int, long[], int[], DType, ZarrCompressor, JsonElement, char, String, Collection<Filter>) - Constructor for class org.janelia.saalfeldlab.n5.zarr.ZArrayAttributes

ZArrayAttributes(int, long[], int[], DType, ZarrCompressor, String, char, String, Collection<Filter>) - Constructor for class org.janelia.saalfeldlab.n5.zarr.ZArrayAttributes

ZArrayAttributes(int, long[], int[], DType, ZarrCompressor, String, char, Collection<Filter>) - Constructor for class org.janelia.saalfeldlab.n5.zarr.ZArrayAttributes

ZArrayAttributes.EmptyZarrFilters - Class in org.janelia.saalfeldlab.n5.zarr

ZArrayAttributes.JsonAdapter - Class in org.janelia.saalfeldlab.n5.zarr

ZarrCompressor - Interface in org.janelia.saalfeldlab.n5.zarr

ZarrCompressor.Blosc - Class in org.janelia.saalfeldlab.n5.zarr

ZarrCompressor.Bz2 - Class in org.janelia.saalfeldlab.n5.zarr

ZarrCompressor.Gzip - Class in org.janelia.saalfeldlab.n5.zarr

ZarrCompressor.JsonAdapter - Class in org.janelia.saalfeldlab.n5.zarr

ZarrCompressor.Raw - Class in org.janelia.saalfeldlab.n5.zarr

ZarrCompressor.Zlib - Class in org.janelia.saalfeldlab.n5.zarr

ZarrCompressor.Zstandard - Class in org.janelia.saalfeldlab.n5.zarr

ZarrDatasetAttributes - Class in org.janelia.saalfeldlab.n5.zarr

ZarrDatasetAttributes(ZArrayAttributes) - Constructor for class org.janelia.saalfeldlab.n5.zarr.ZarrDatasetAttributes

ZarrDatasetAttributes(long[], int[], DType, Compression, boolean, String, String) - Constructor for class org.janelia.saalfeldlab.n5.zarr.ZarrDatasetAttributes

ZarrDatasetAttributes(long[], int[], DType, Compression, boolean, String) - Constructor for class org.janelia.saalfeldlab.n5.zarr.ZarrDatasetAttributes

zarrDataType - Variable in class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3DatasetAttributes

zarrFormatKey - Static variable in class org.janelia.saalfeldlab.n5.zarr.ZArrayAttributes

ZarrJsonCache - Class in org.janelia.saalfeldlab.n5.zarr.cache

ZarrJsonCache(N5JsonCacheableContainer) - Constructor for class org.janelia.saalfeldlab.n5.zarr.cache.ZarrJsonCache

ZarrJsonElements() - Constructor for class org.janelia.saalfeldlab.n5.zarr.ZarrKeyValueWriter.ZarrJsonElements

ZarrKeyValueReader - Class in org.janelia.saalfeldlab.n5.zarr

N5Reader implementation through KeyValueAccess with JSON attributes parsed with Gson.

ZarrKeyValueReader(boolean, KeyValueAccess, String, GsonBuilder, boolean, boolean, boolean) - Constructor for class org.janelia.saalfeldlab.n5.zarr.ZarrKeyValueReader

Opens an ZarrKeyValueReader at a given base path with a custom GsonBuilder to support custom attributes.

ZarrKeyValueReader(boolean, KeyValueAccess, String, GsonBuilder, boolean, boolean, boolean, boolean) - Constructor for class org.janelia.saalfeldlab.n5.zarr.ZarrKeyValueReader

ZarrKeyValueReader(KeyValueAccess, String, GsonBuilder, boolean, boolean, boolean) - Constructor for class org.janelia.saalfeldlab.n5.zarr.ZarrKeyValueReader

Opens an ZarrKeyValueReader at a given base path with a custom GsonBuilder to support custom attributes.

ZarrKeyValueWriter - Class in org.janelia.saalfeldlab.n5.zarr

Zarr KeyValueAccess implementation.

ZarrKeyValueWriter(KeyValueAccess, String, GsonBuilder, boolean, boolean, String, boolean) - Constructor for class org.janelia.saalfeldlab.n5.zarr.ZarrKeyValueWriter

Opens an ZarrKeyValueWriter at a given base path with a custom GsonBuilder to support custom attributes.

ZarrKeyValueWriter.ZarrJsonElements - Class in org.janelia.saalfeldlab.n5.zarr

Stores JsonObjects to be written to .zattrs, .zgroup, and .zarray.

zarrToN5DatasetAttributes(JsonElement) - Method in class org.janelia.saalfeldlab.n5.zarr.ZarrKeyValueReader

ZarrTransposeCodecInfo - Class in org.janelia.saalfeldlab.n5.zarr.codec.transpose

Describes a permutation of the dimensions of a block.

ZarrTransposeCodecInfo() - Constructor for class org.janelia.saalfeldlab.n5.zarr.codec.transpose.ZarrTransposeCodecInfo

ZarrTransposeCodecInfo(int[]) - Constructor for class org.janelia.saalfeldlab.n5.zarr.codec.transpose.ZarrTransposeCodecInfo

ZarrTransposeCodecInfo.ZarrTransposeOrder - Class in org.janelia.saalfeldlab.n5.zarr.codec.transpose

A permutation parameter that is processed before being serialized.

ZarrTransposeCodecInfo.ZarrTransposeOrderAdapter - Class in org.janelia.saalfeldlab.n5.zarr.codec.transpose

Note: The implementation layer can not directly consume the permutation stored in 'order' due to changes of indexing (C- vs F-) order.

ZarrTransposeOrderAdapter() - Constructor for class org.janelia.saalfeldlab.n5.zarr.codec.transpose.ZarrTransposeCodecInfo.ZarrTransposeOrderAdapter

ZarrV3Compressor - Interface in org.janelia.saalfeldlab.n5.zarr.v3

ZarrV3Compressor.Blosc - Class in org.janelia.saalfeldlab.n5.zarr.v3

ZarrV3Compressor.Gzip - Class in org.janelia.saalfeldlab.n5.zarr.v3

ZarrV3Compressor.Zlib - Class in org.janelia.saalfeldlab.n5.zarr.v3

ZarrV3Compressor.Zstandard - Class in org.janelia.saalfeldlab.n5.zarr.v3

ZarrV3DatasetAttributes - Class in org.janelia.saalfeldlab.n5.zarr.v3

ZarrV3DatasetAttributes(long[], int[], DataType, Compression) - Constructor for class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3DatasetAttributes

ZarrV3DatasetAttributes(long[], int[], int[], DataType, DataCodecInfo...) - Constructor for class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3DatasetAttributes

ZarrV3DatasetAttributes(long[], int[], int[], DataType, String[], DataCodecInfo...) - Constructor for class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3DatasetAttributes

ZarrV3DatasetAttributes(long[], int[], DataType, String, String[], DataCodecInfo...) - Constructor for class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3DatasetAttributes

ZarrV3DatasetAttributes(long[], int[], int[], DataType, String, String[], DataCodecInfo...) - Constructor for class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3DatasetAttributes

ZarrV3DatasetAttributes(long[], ChunkAttributes, ZarrV3DataType, String, String[], BlockCodecInfo, DatasetCodecInfo[], DataCodecInfo...) - Constructor for class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3DatasetAttributes

ZarrV3DatasetAttributes(long[], int[], ZarrV3DataType, String, String[], DefaultChunkKeyEncoding, BlockCodecInfo, DatasetCodecInfo[], DataCodecInfo...) - Constructor for class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3DatasetAttributes

ZarrV3DatasetAttributes(long[], int[], ZarrV3DataType, String, String[], String, BlockCodecInfo, DatasetCodecInfo[], DataCodecInfo...) - Constructor for class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3DatasetAttributes

ZarrV3DatasetAttributes.Builder - Class in org.janelia.saalfeldlab.n5.zarr.v3

Builder for constructing ZarrV3DatasetAttributes instances.

ZarrV3DatasetAttributes.ByteOrderAdapter - Class in org.janelia.saalfeldlab.n5.zarr.v3

ZarrV3DatasetAttributes.JsonAdapter - Class in org.janelia.saalfeldlab.n5.zarr.v3

ZarrV3DataType - Enum in org.janelia.saalfeldlab.n5.zarr.v3

ZarrV3Group - Class in org.janelia.saalfeldlab.n5.zarr.v3

ZarrV3Group() - Constructor for class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3Group

ZarrV3KeyValueReader - Class in org.janelia.saalfeldlab.n5.zarr.v3

ZarrV3KeyValueReader(boolean, KeyValueAccess, String, GsonBuilder, boolean) - Constructor for class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3KeyValueReader

Opens an ZarrV3KeyValueReader at a given base path with a custom GsonBuilder to support custom attributes.

ZarrV3KeyValueReader(KeyValueAccess, String, GsonBuilder, boolean) - Constructor for class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3KeyValueReader

Opens an ZarrV3KeyValueReader at a given base path with a custom GsonBuilder to support custom attributes.

ZarrV3KeyValueReader(boolean, KeyValueAccess, String, GsonBuilder, boolean, boolean) - Constructor for class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3KeyValueReader

ZarrV3KeyValueWriter - Class in org.janelia.saalfeldlab.n5.zarr.v3

Zarr v3 N5Writer implementation.

ZarrV3KeyValueWriter(KeyValueAccess, String, GsonBuilder, boolean) - Constructor for class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3KeyValueWriter

Opens an ZarrV3KeyValueWriter at a given base path with a custom GsonBuilder to support custom attributes.

ZarrV3Node - Interface in org.janelia.saalfeldlab.n5.zarr.v3

ZarrV3Node.NodeType - Enum in org.janelia.saalfeldlab.n5.zarr.v3

zattrs - Variable in class org.janelia.saalfeldlab.n5.zarr.ZarrKeyValueWriter.ZarrJsonElements

ZATTRS_FILE - Static variable in class org.janelia.saalfeldlab.n5.zarr.ZarrKeyValueReader

zgroup - Variable in class org.janelia.saalfeldlab.n5.zarr.ZarrKeyValueWriter.ZarrJsonElements

ZGROUP_FILE - Static variable in class org.janelia.saalfeldlab.n5.zarr.ZarrKeyValueReader

Zlib(int) - Constructor for class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3Compressor.Zlib

Zlib(GzipCompression) - Constructor for class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3Compressor.Zlib

Zlib(int) - Constructor for class org.janelia.saalfeldlab.n5.zarr.ZarrCompressor.Zlib

Zlib(GzipCompression) - Constructor for class org.janelia.saalfeldlab.n5.zarr.ZarrCompressor.Zlib

Zstandard() - Constructor for class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3Compressor.Zstandard

Zstandard(int, boolean) - Constructor for class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3Compressor.Zstandard

Zstandard(ZstandardCompression) - Constructor for class org.janelia.saalfeldlab.n5.zarr.v3.ZarrV3Compressor.Zstandard

Zstandard(int) - Constructor for class org.janelia.saalfeldlab.n5.zarr.ZarrCompressor.Zstandard

Zstandard(int, int) - Constructor for class org.janelia.saalfeldlab.n5.zarr.ZarrCompressor.Zstandard

Zstandard(ZstandardCompression) - Constructor for class org.janelia.saalfeldlab.n5.zarr.ZarrCompressor.Zstandard

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