Uses of Class
org.janelia.saalfeldlab.n5.universe.N5TreeNode

Packages that use N5TreeNode

Package	Description
org.janelia.saalfeldlab.n5.universe
org.janelia.saalfeldlab.n5.universe.container
org.janelia.saalfeldlab.n5.universe.metadata
org.janelia.saalfeldlab.n5.universe.metadata.axes
org.janelia.saalfeldlab.n5.universe.metadata.canonical
org.janelia.saalfeldlab.n5.universe.metadata.ome.ngff
org.janelia.saalfeldlab.n5.universe.translation

Uses of N5TreeNode in org.janelia.saalfeldlab.n5.universe

Methods in org.janelia.saalfeldlab.n5.universe that return N5TreeNode

Modifier and Type	Method and Description
N5TreeNode	N5TreeNode.addPath(String path) Adds a node at the specified full path and any parent nodes along the path, if they do not already exist.
N5TreeNode	N5TreeNode.addPath(String path, Function<String,N5TreeNode> constructor) Adds a node at the specified full path and any parent nodes along the path, if they do not already exist.
static N5TreeNode	N5DatasetDiscoverer.discover(org.janelia.saalfeldlab.n5.N5Reader n5)
static N5TreeNode	N5DatasetDiscoverer.discover(org.janelia.saalfeldlab.n5.N5Reader n5, List<N5MetadataParser<?>> parsers)
static N5TreeNode	N5DatasetDiscoverer.discover(org.janelia.saalfeldlab.n5.N5Reader n5, List<N5MetadataParser<?>> parsers, List<N5MetadataParser<?>> groupParsers)
static N5TreeNode	N5DatasetDiscoverer.discover(org.janelia.saalfeldlab.n5.N5Reader n5, String basePath)
static N5TreeNode	N5DatasetDiscoverer.discover(org.janelia.saalfeldlab.n5.N5Reader n5, String basePath, List<N5MetadataParser<?>> parsers, List<N5MetadataParser<?>> groupParsers)
N5TreeNode	N5DatasetDiscoverer.discoverAndParseRecursive(N5TreeNode root)
N5TreeNode	N5DatasetDiscoverer.discoverAndParseRecursive(N5TreeNode root, Consumer<N5TreeNode> callback)
N5TreeNode	N5DatasetDiscoverer.discoverAndParseRecursive(N5TreeNode root, Predicate<String> filter, Consumer<N5TreeNode> callback)
N5TreeNode	N5DatasetDiscoverer.discoverAndParseRecursive(String base) Recursively discovers and parses metadata for datasets that are children of the given base path using N5Reader.deepList(java.lang.String, java.util.function.Predicate<java.lang.String>).
N5TreeNode	N5DatasetDiscoverer.discoverAndParseRecursive(String base, Consumer<N5TreeNode> callback)
static N5TreeNode	N5DatasetDiscoverer.discoverShallow(org.janelia.saalfeldlab.n5.N5Reader n5) Discovers metadata present at the root without listing
static N5TreeNode	N5DatasetDiscoverer.discoverShallow(org.janelia.saalfeldlab.n5.N5Reader n5, String dataset) Discovers metadata present at the provided dataset without listing.
N5TreeNode	N5DatasetDiscoverer.discoverShallow(N5TreeNode base)
N5TreeNode	N5DatasetDiscoverer.discoverShallow(N5TreeNode base, Consumer<N5TreeNode> callback)
N5TreeNode	N5DatasetDiscoverer.discoverShallow(String base)
N5TreeNode	N5DatasetDiscoverer.discoverShallow(String base, Consumer<N5TreeNode> callback)
static N5TreeNode	N5TreeNode.fromFlatList(String base, String[] pathList, String groupSeparator) Generates a tree based on the output of N5Reader.deepList(java.lang.String, java.util.function.Predicate<java.lang.String>), returning the root node.
N5TreeNode	N5DatasetDiscoverer.parse(N5TreeNode node)
N5TreeNode	N5DatasetDiscoverer.parse(String dataset)
static N5TreeNode	N5MetadataUtils.parseMetadataTree(org.janelia.saalfeldlab.n5.N5Reader n5)
static N5TreeNode	N5MetadataUtils.parseMetadataTree(org.janelia.saalfeldlab.n5.N5Reader n5, ExecutorService exec)
static N5TreeNode	N5MetadataUtils.parseMetadataTree(org.janelia.saalfeldlab.n5.N5Reader n5, ExecutorService exec, List<N5MetadataParser<?>> parsers, List<N5MetadataParser<?>> groupParsers)
static N5TreeNode	N5MetadataUtils.parseMetadataTree(org.janelia.saalfeldlab.n5.N5Reader n5, List<N5MetadataParser<?>> parsers, List<N5MetadataParser<?>> groupParsers)
static N5TreeNode	N5MetadataUtils.parseMetadataTree(org.janelia.saalfeldlab.n5.N5Reader n5, String group)
static N5TreeNode	N5MetadataUtils.parseMetadataTree(org.janelia.saalfeldlab.n5.N5Reader n5, String group, ExecutorService exec, List<N5MetadataParser<?>> parsers, List<N5MetadataParser<?>> groupParsers)

Methods in org.janelia.saalfeldlab.n5.universe that return types with arguments of type N5TreeNode

Modifier and Type	Method and Description
Optional<N5TreeNode>	N5TreeNode.child(String name)
List<N5TreeNode>	N5TreeNode.childrenList()
static Stream<N5TreeNode>	N5TreeNode.flattenN5Tree(N5TreeNode root)
Optional<N5TreeNode>	N5TreeNode.getDescendant(String path)
Stream<N5TreeNode>	N5TreeNode.getDescendants(Predicate<N5TreeNode> filter)

Methods in org.janelia.saalfeldlab.n5.universe with parameters of type N5TreeNode

Modifier and Type	Method and Description
void	N5TreeNode.add(N5TreeNode child) Adds a node as a child of this node.
N5TreeNode	N5DatasetDiscoverer.discoverAndParseRecursive(N5TreeNode root)
N5TreeNode	N5DatasetDiscoverer.discoverAndParseRecursive(N5TreeNode root, Consumer<N5TreeNode> callback)
N5TreeNode	N5DatasetDiscoverer.discoverAndParseRecursive(N5TreeNode root, Predicate<String> filter, Consumer<N5TreeNode> callback)
N5TreeNode	N5DatasetDiscoverer.discoverShallow(N5TreeNode base)
N5TreeNode	N5DatasetDiscoverer.discoverShallow(N5TreeNode base, Consumer<N5TreeNode> callback)
void	N5DatasetDiscoverer.filterRecursive(N5TreeNode node)
static Stream<N5TreeNode>	N5TreeNode.flattenN5Tree(N5TreeNode root)
static void	N5TreeNode.fromFlatList(N5TreeNode root, String[] pathList, String groupSeparator) Generates a tree based on the output of N5Reader.deepList(java.lang.String, java.util.function.Predicate<java.lang.String>), returning the root node.
N5TreeNode	N5DatasetDiscoverer.parse(N5TreeNode node)
static void	N5DatasetDiscoverer.parseMetadata(org.janelia.saalfeldlab.n5.N5Reader n5, N5TreeNode node, List<N5MetadataParser<?>> metadataParsers)
static void	N5DatasetDiscoverer.parseMetadata(org.janelia.saalfeldlab.n5.N5Reader n5, N5TreeNode node, List<N5MetadataParser<?>> metadataParsers, List<N5MetadataParser<?>> groupParsers) Parses metadata for a node using the given parsers, stopping after the first success.
void	N5DatasetDiscoverer.parseMetadataRecursive(N5TreeNode rootNode) Parses metadata for the given node and all children in parallel using this object's executor.
void	N5DatasetDiscoverer.parseMetadataRecursive(N5TreeNode rootNode, Consumer<N5TreeNode> callback) Parses metadata for the given node and all children in parallel using this object's executor.
void	N5DatasetDiscoverer.parseMetadataRecursive(N5TreeNode rootNode, Consumer<N5TreeNode> callback, boolean skipParsingIfPresent) Parses metadata for the given node and all children in parallel using this object's executor.
static void	N5DatasetDiscoverer.parseMetadataShallow(org.janelia.saalfeldlab.n5.N5Reader n5, N5TreeNode node, List<N5MetadataParser<?>> metadataParsers, List<N5MetadataParser<?>> groupParsers) Parses metadata for a node using the given parsers, stopping after the first success.
void	N5TreeNode.remove(N5TreeNode child)
void	N5DatasetDiscoverer.sort(N5TreeNode node)
static void	N5DatasetDiscoverer.sort(N5TreeNode node, Comparator<? super String> comparator, Consumer<N5TreeNode> callback)
void	N5DatasetDiscoverer.sort(N5TreeNode node, Consumer<N5TreeNode> callback)
void	N5DatasetDiscoverer.sortAndTrimRecursive(N5TreeNode node)
void	N5DatasetDiscoverer.sortAndTrimRecursive(N5TreeNode node, Consumer<N5TreeNode> callback)
boolean	N5TreeNode.structureEquals(N5TreeNode other)
static boolean	N5DatasetDiscoverer.trim(N5TreeNode node)
static boolean	N5DatasetDiscoverer.trim(N5TreeNode node, Consumer<N5TreeNode> callback) Removes branches of the N5 container tree that do not contain any nodes that can be opened (nodes with metadata).

Method parameters in org.janelia.saalfeldlab.n5.universe with type arguments of type N5TreeNode

Modifier and Type	Method and Description
N5TreeNode	N5TreeNode.addPath(String path, Function<String,N5TreeNode> constructor) Adds a node at the specified full path and any parent nodes along the path, if they do not already exist.
N5TreeNode	N5DatasetDiscoverer.discoverAndParseRecursive(N5TreeNode root, Consumer<N5TreeNode> callback)
N5TreeNode	N5DatasetDiscoverer.discoverAndParseRecursive(N5TreeNode root, Predicate<String> filter, Consumer<N5TreeNode> callback)
N5TreeNode	N5DatasetDiscoverer.discoverAndParseRecursive(String base, Consumer<N5TreeNode> callback)
N5TreeNode	N5DatasetDiscoverer.discoverShallow(N5TreeNode base, Consumer<N5TreeNode> callback)
N5TreeNode	N5DatasetDiscoverer.discoverShallow(String base, Consumer<N5TreeNode> callback)
Stream<N5TreeNode>	N5TreeNode.getDescendants(Predicate<N5TreeNode> filter)
void	N5DatasetDiscoverer.parseMetadataRecursive(N5TreeNode rootNode, Consumer<N5TreeNode> callback) Parses metadata for the given node and all children in parallel using this object's executor.
void	N5DatasetDiscoverer.parseMetadataRecursive(N5TreeNode rootNode, Consumer<N5TreeNode> callback, boolean skipParsingIfPresent) Parses metadata for the given node and all children in parallel using this object's executor.
static void	N5DatasetDiscoverer.sort(N5TreeNode node, Comparator<? super String> comparator, Consumer<N5TreeNode> callback)
void	N5DatasetDiscoverer.sort(N5TreeNode node, Consumer<N5TreeNode> callback)
void	N5DatasetDiscoverer.sortAndTrimRecursive(N5TreeNode node, Consumer<N5TreeNode> callback)
static boolean	N5DatasetDiscoverer.trim(N5TreeNode node, Consumer<N5TreeNode> callback) Removes branches of the N5 container tree that do not contain any nodes that can be opened (nodes with metadata).

Constructor parameters in org.janelia.saalfeldlab.n5.universe with type arguments of type N5TreeNode

Constructor and Description
N5DatasetDiscoverer(org.janelia.saalfeldlab.n5.N5Reader n5, ExecutorService executor, Optional<Comparator<? super String>> comparator, Predicate<N5TreeNode> filter, List<N5MetadataParser<?>> metadataParsers, List<N5MetadataParser<?>> groupParsers) Creates an N5 discoverer.
N5DatasetDiscoverer(org.janelia.saalfeldlab.n5.N5Reader n5, ExecutorService executor, Optional<Comparator<? super String>> comparator, Predicate<N5TreeNode> filter, List<N5MetadataParser<?>> metadataParsers, List<N5MetadataParser<?>> groupParsers, List<N5MetadataParser<?>> shallowGroupParsers) Creates an N5 discoverer.
N5DatasetDiscoverer(org.janelia.saalfeldlab.n5.N5Reader n5, ExecutorService executor, Predicate<N5TreeNode> filter, List<N5MetadataParser<?>> metadataParsers, List<N5MetadataParser<?>> groupParsers)

Uses of N5TreeNode in org.janelia.saalfeldlab.n5.universe.container

Methods in org.janelia.saalfeldlab.n5.universe.container with parameters of type N5TreeNode

Modifier and Type	Method and Description
static <N extends org.janelia.saalfeldlab.n5.GsonN5Reader> ContainerMetadataNode	ContainerMetadataNode.buildHelper(N n5, N5TreeNode baseNode)
static ContainerMetadataNode	ContainerMetadataNode.buildHelperN5(org.janelia.saalfeldlab.n5.N5Reader n5, N5TreeNode baseNode, com.google.gson.Gson gson)

Uses of N5TreeNode in org.janelia.saalfeldlab.n5.universe.metadata

Methods in org.janelia.saalfeldlab.n5.universe.metadata with parameters of type N5TreeNode

Modifier and Type	Method and Description
default Optional<T>	N5MetadataParser.apply(org.janelia.saalfeldlab.n5.N5Reader n5Reader, N5TreeNode n5TreeNode)
static String	MetadataUtils.canonicalPath(N5TreeNode parent, String child)
static org.janelia.saalfeldlab.n5.DatasetAttributes	N5MetadataParser.parseDatasetAttributes(org.janelia.saalfeldlab.n5.N5Reader n5, N5TreeNode node)
Optional<N5SingleScaleMetadata>	N5SingleScaleMetadataParser.parseMetadata(org.janelia.saalfeldlab.n5.N5Reader n5, N5TreeNode node)
Optional<T>	N5MetadataParser.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.
Optional<N5CosemMultiScaleMetadata>	N5CosemMultiScaleMetadata.CosemMultiScaleParser.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.
Optional<N5MultiScaleMetadata>	N5ViewerMultiscaleMetadataParser.parseMetadata(org.janelia.saalfeldlab.n5.N5Reader reader, N5TreeNode node) Called by the N5DatasetDiscoverer while discovering the N5 tree and filling the metadata for datasets or groups.
Optional<N5MultiScaleMetadata>	N5MultiScaleMetadata.MultiScaleParser.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.
Optional<N5CosemMetadata>	N5CosemMetadataParser.parseMetadata(org.janelia.saalfeldlab.n5.N5Reader n5, N5TreeNode node)
Optional<N5SingleScaleMetadata>	N5GenericSingleScaleMetadataParser.parseMetadata(org.janelia.saalfeldlab.n5.N5Reader n5, N5TreeNode node)
static void	MetadataUtils.updateChildrenMetadata(N5TreeNode parent, N5Metadata[] childrenMetadata, boolean relative)

Uses of N5TreeNode in org.janelia.saalfeldlab.n5.universe.metadata.axes

Methods in org.janelia.saalfeldlab.n5.universe.metadata.axes with parameters of type N5TreeNode

Modifier and Type	Method and Description
Optional<DefaultAxisMetadata>	DefaultAxisMetadataParser.parseMetadata(org.janelia.saalfeldlab.n5.N5Reader n5, N5TreeNode node)
Optional<DefaultDatasetAxisMetadata>	DefaultDatasetAxisMetadataParser.parseMetadata(org.janelia.saalfeldlab.n5.N5Reader n5, N5TreeNode node)

Uses of N5TreeNode in org.janelia.saalfeldlab.n5.universe.metadata.canonical

Methods in org.janelia.saalfeldlab.n5.universe.metadata.canonical with parameters of type N5TreeNode

Modifier and Type	Method and Description
Optional<T>	AbstractMetadataTemplateParser.parseMetadata(org.janelia.saalfeldlab.n5.N5Reader n5, N5TreeNode node)
Optional<CanonicalMetadata>	CanonicalMetadataParser.parseMetadata(org.janelia.saalfeldlab.n5.N5Reader n5, N5TreeNode node)
Optional<CanonicalMetadata>	CanonicalMetadataParser.parseMetadata(N5TreeNode node, String groupSep) Deprecated.
<R extends org.janelia.saalfeldlab.n5.GsonN5Reader> Optional<T>	AbstractMetadataTemplateParser.parseMetadataTree(R n5, N5TreeNode node)

Uses of N5TreeNode in org.janelia.saalfeldlab.n5.universe.metadata.ome.ngff

Methods in org.janelia.saalfeldlab.n5.universe.metadata.ome.ngff with parameters of type N5TreeNode

Modifier and Type	Method and Description
Optional<OmeNgffMetadata>	OmeNgffMetadataParser.parseMetadata(org.janelia.saalfeldlab.n5.N5Reader n5, N5TreeNode node)

Uses of N5TreeNode in org.janelia.saalfeldlab.n5.universe.translation

Methods in org.janelia.saalfeldlab.n5.universe.translation with parameters of type N5TreeNode

Modifier and Type	Method and Description
Optional<CanonicalMetadata>	TranslatedTreeMetadataParser.parseMetadata(org.janelia.saalfeldlab.n5.N5Reader n5, N5TreeNode node)
Optional<CanonicalMetadata>	TranslatedTreeMetadataParser.parseMetadata(N5TreeNode node, String groupSep)