com.bitplane.xt.img

Class ImarisProbabilitiesCache<A>

java.lang.Object

com.bitplane.xt.img.ImarisProbabilitiesCache<A>

Type Parameters:

A - access type

All Implemented Interfaces:

CacheLoader<Long,Cell<A>>, CacheRemover<Long,Cell<A>,A>, Invalidate<Long>

Direct Known Subclasses:

ImarisDirtyProbabilitiesCache

public class ImarisProbabilitiesCache<A>
extends Object
implements CacheRemover<Long,Cell<A>,A>, CacheLoader<Long,Cell<A>>

A CacheRemover/CacheLoader for writing/reading cells to an Imaris IDataset.

At each pixel the image is assumed to represent a probability distribution over channels. For storing to Imaris IDataSetPrx backing cache, the first channel ("background") is removed (only the other channels are stored). If the dataset has UINT8 or UINT16 type, the [0, 1] range is scaled to the [0, 2^8-1] or [0, 2^16-1], respectively. For loading data back from the cache this operation is reversed.

Blocks which are not in the cache (yet) are obtained from a backing CacheLoader. Typically the backing loader will just create empty cells.

A ImarisProbabilitiesCache should be connected to a in-memory cache through IoSync if the cache will be used concurrently by multiple threads!

Author:

Tobias Pietzsch

Field Summary

Fields inherited from interface net.imglib2.cache.Invalidate

defaultParallelismThreshold

Constructor Summary

Constructors

Modifier	Constructor and Description
	ImarisProbabilitiesCache(Imaris.IDataSetPrx dataset, PrimitiveType primitiveType, int[] mapDimensions, CellGrid grid, CacheLoader<Long,Cell<A>> backingLoader, boolean persistOnLoad)
protected	ImarisProbabilitiesCache(Imaris.IDataSetPrx dataset, PrimitiveType primitiveType, int[] mapDimensions, CellGrid grid, CacheLoader<Long,Cell<A>> backingLoader, boolean persistOnLoad, boolean withDirtyFlag)

Method Summary

Modifier and Type	Method and Description
A	extract(Cell<A> value)
Cell<A>	get(Long key)
void	invalidate(Long key)
void	invalidateAll(long parallelismThreshold)
void	invalidateIf(long parallelismThreshold, Predicate<Long> condition)
void	onRemoval(Long key, A valueData)
CompletableFuture<Void>	persist(Long key, A valueData)
Cell<A>	reconstruct(Long key, A valueData)

Methods inherited from class java.lang.Object

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

Methods inherited from interface net.imglib2.cache.Invalidate

invalidateAll, invalidateIf

Constructor Detail

ImarisProbabilitiesCache

public ImarisProbabilitiesCache(Imaris.IDataSetPrx dataset,
                                PrimitiveType primitiveType,
                                int[] mapDimensions,
                                CellGrid grid,
                                CacheLoader<Long,Cell<A>> backingLoader,
                                boolean persistOnLoad)
                         throws Imaris.Error

Throws:

Imaris.Error

ImarisProbabilitiesCache

protected ImarisProbabilitiesCache(Imaris.IDataSetPrx dataset,
                                   PrimitiveType primitiveType,
                                   int[] mapDimensions,
                                   CellGrid grid,
                                   CacheLoader<Long,Cell<A>> backingLoader,
                                   boolean persistOnLoad,
                                   boolean withDirtyFlag)
                            throws Imaris.Error

Throws:

Imaris.Error

Method Detail

get

public Cell<A> get(Long key)
            throws Exception

Specified by:

get in interface CacheLoader<Long,Cell<A>>

Throws:

Exception

extract

public A extract(Cell<A> value)

Specified by:

extract in interface CacheRemover<Long,Cell<A>,A>

reconstruct

public Cell<A> reconstruct(Long key,
                           A valueData)

Specified by:

reconstruct in interface CacheRemover<Long,Cell<A>,A>

onRemoval

public void onRemoval(Long key,
                      A valueData)

Specified by:

onRemoval in interface CacheRemover<Long,Cell<A>,A>

persist

public CompletableFuture<Void> persist(Long key,
                                       A valueData)

Specified by:

persist in interface CacheRemover<Long,Cell<A>,A>

invalidate

public void invalidate(Long key)

Specified by:

invalidate in interface CacheRemover<Long,Cell<A>,A>

Specified by:

invalidate in interface Invalidate<Long>

invalidateIf

public void invalidateIf(long parallelismThreshold,
                         Predicate<Long> condition)

Specified by:

invalidateIf in interface CacheRemover<Long,Cell<A>,A>

Specified by:

invalidateIf in interface Invalidate<Long>

invalidateAll

public void invalidateAll(long parallelismThreshold)

Specified by:

invalidateAll in interface CacheRemover<Long,Cell<A>,A>

Specified by:

invalidateAll in interface Invalidate<Long>