org.janelia.saalfeldlab.n5.universe.metadata.canonical

Class AbstractMetadataTemplateParser<T extends N5Metadata>

java.lang.Object

org.janelia.saalfeldlab.n5.universe.metadata.canonical.AbstractMetadataTemplateParser<T>

All Implemented Interfaces:

BiFunction<org.janelia.saalfeldlab.n5.N5Reader,N5TreeNode,Optional<T>>, N5MetadataParser<T>

Direct Known Subclasses:

MultiResolutionSpatialMetadataCanonicalParser, SpatialMetadataTemplateCanonical

public abstract class AbstractMetadataTemplateParser<T extends N5Metadata>
extends Object
implements N5MetadataParser<T>

Interface for metadata describing how spatial data are oriented in physical space.

Author:

John Bogovic

Constructor Summary

Constructors

Constructor and Description
AbstractMetadataTemplateParser(com.google.gson.Gson gson, String translation)

Method Summary

Modifier and Type	Method and Description
static net.thisptr.jackson.jq.Scope	buildRootScope()
static Optional<org.janelia.saalfeldlab.n5.DatasetAttributes>	datasetAttributes(com.google.gson.Gson gson, com.google.gson.JsonObject attributes)
static Optional<org.janelia.saalfeldlab.n5.DatasetAttributes>	datasetAttributes(com.google.gson.JsonDeserializationContext context, com.google.gson.JsonElement elem)
Optional<T>	parse(com.google.gson.Gson gson, com.google.gson.JsonElement elem)
abstract Optional<T>	parseFromMap(com.google.gson.Gson gson, HashMap<String,com.google.gson.JsonElement> attributeMap)
static <S> Optional<S>	parseFromMap(com.google.gson.Gson gson, HashMap<String,com.google.gson.JsonElement> object, BiFunction<com.google.gson.Gson,com.google.gson.JsonElement,Optional<S>> fun)
static <S> Optional<S>	parseFromObj(com.google.gson.Gson gson, com.google.gson.JsonObject object, BiFunction<com.google.gson.Gson,HashMap<String,com.google.gson.JsonElement>,Optional<S>> fun)
Optional<T>	parseMetadata(org.janelia.saalfeldlab.n5.N5Reader n5, N5TreeNode node) Called by the N5DatasetDiscoverer while discovering the N5 tree and filling the metadata for datasets or groups.
<R extends org.janelia.saalfeldlab.n5.GsonN5Reader> Optional<T>	parseMetadataTree(R n5, N5TreeNode node)
String	transform(String in)

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Methods inherited from interface org.janelia.saalfeldlab.n5.universe.metadata.N5MetadataParser

apply, parseDatasetAttributes, parseMetadata

Methods inherited from interface java.util.function.BiFunction

andThen

Constructor Detail

AbstractMetadataTemplateParser

public AbstractMetadataTemplateParser(com.google.gson.Gson gson,
                                      String translation)

Method Detail

transform

public String transform(String in)
                 throws com.fasterxml.jackson.databind.JsonMappingException,
                        com.fasterxml.jackson.core.JsonProcessingException

Throws:

com.fasterxml.jackson.databind.JsonMappingException

com.fasterxml.jackson.core.JsonProcessingException

parseMetadata

public Optional<T> parseMetadata(org.janelia.saalfeldlab.n5.N5Reader n5,
                                 N5TreeNode node)

Description copied from interface: N5MetadataParser

Called by the N5DatasetDiscoverer while discovering the N5 tree and filling the metadata for datasets or groups.

The metadata parsing is done in the bottom-up fashion, so the children of the given node have already been processed and should already contain valid metadata (if any).

Specified by:

parseMetadata in interface N5MetadataParser<T extends N5Metadata>

Parameters:

n5 - the reader

node - list of tree nodes

Returns:

the metadata

parseMetadataTree

public <R extends org.janelia.saalfeldlab.n5.GsonN5Reader> Optional<T> parseMetadataTree(R n5,
                                                                                         N5TreeNode node)

parseFromObj

public static <S> Optional<S> parseFromObj(com.google.gson.Gson gson,
                                           com.google.gson.JsonObject object,
                                           BiFunction<com.google.gson.Gson,HashMap<String,com.google.gson.JsonElement>,Optional<S>> fun)

parseFromMap

public static <S> Optional<S> parseFromMap(com.google.gson.Gson gson,
                                           HashMap<String,com.google.gson.JsonElement> object,
                                           BiFunction<com.google.gson.Gson,com.google.gson.JsonElement,Optional<S>> fun)

parseFromMap

public abstract Optional<T> parseFromMap(com.google.gson.Gson gson,
                                         HashMap<String,com.google.gson.JsonElement> attributeMap)

parse

public Optional<T> parse(com.google.gson.Gson gson,
                         com.google.gson.JsonElement elem)

buildRootScope

public static net.thisptr.jackson.jq.Scope buildRootScope()

datasetAttributes

public static Optional<org.janelia.saalfeldlab.n5.DatasetAttributes> datasetAttributes(com.google.gson.Gson gson,
                                                                                       com.google.gson.JsonObject attributes)

datasetAttributes

public static Optional<org.janelia.saalfeldlab.n5.DatasetAttributes> datasetAttributes(com.google.gson.JsonDeserializationContext context,
                                                                                       com.google.gson.JsonElement elem)