| Package | Description |
|---|---|
| bdv.export | |
| bdv.ij.export | |
| bdv.img.hdf5 | |
| bdv.spimdata.tools | |
| spim.fiji.plugin.resave | |
| spim.process.fusion.export |
| Modifier and Type | Method and Description |
|---|---|
static void |
WriteSequenceToHdf5.writeHdf5PartitionFile(AbstractSequenceDescription<?,?,?> seq,
Map<Integer,ExportMipmapInfo> perSetupMipmapInfo,
boolean deflate,
Partition partition,
ExportScalePyramid.LoopbackHeuristic loopbackHeuristic,
ExportScalePyramid.AfterEachPlane afterEachPlane,
int numCellCreatorThreads,
ProgressWriter progressWriter)
Create a hdf5 partition file containing image data for a subset of views
and timepoints in a chunked, mipmaped representation.
|
static void |
WriteSequenceToHdf5.writeViewToHdf5PartitionFile(RandomAccessibleInterval<UnsignedShortType> img,
Partition partition,
int timepointIdPartition,
int setupIdPartition,
ExportMipmapInfo mipmapInfo,
boolean writeMipmapInfo,
boolean deflate,
ExportScalePyramid.LoopbackHeuristic loopbackHeuristic,
ExportScalePyramid.AfterEachPlane afterEachPlane,
int numCellCreatorThreads,
ProgressWriter progressWriter)
Write a single view to a hdf5 partition file, in a chunked, mipmaped
representation.
|
| Modifier and Type | Method and Description |
|---|---|
static void |
WriteSequenceToHdf5.writeHdf5PartitionLinkFile(AbstractSequenceDescription<?,?,?> seq,
Map<Integer,ExportMipmapInfo> perSetupMipmapInfo,
ArrayList<Partition> partitions,
File hdf5File)
Create a hdf5 master file linking to image data from all views and all
timepoints.
|
| Modifier and Type | Field and Description |
|---|---|
protected ArrayList<Partition> |
Scripting.PartitionedSequenceWriter.partitions |
| Modifier and Type | Method and Description |
|---|---|
static ArrayList<Partition> |
Scripting.split(SetupAggregator aggregator,
int timepointsPerPartition,
int setupsPerPartition,
String xmlFilename)
Deprecated.
|
| Constructor and Description |
|---|
PartitionedSequenceWriter(SetupAggregator aggregator,
String xmlFilename,
boolean deflate,
List<Partition> partitions) |
| Modifier and Type | Field and Description |
|---|---|
protected ArrayList<Partition> |
Hdf5ImageLoader.partitions
List of partitions if the dataset is split across several files
|
| Modifier and Type | Method and Description |
|---|---|
ArrayList<Partition> |
Hdf5ImageLoader.getPartitions() |
static ArrayList<Partition> |
Partition.split(List<TimePoint> timepoints,
List<? extends BasicViewSetup> setups,
int timepointsPerPartition,
int setupsPerPartition,
String basename)
Split a sequence into partitions, each containing a specified number of
timepoints and setups.
|
| Constructor and Description |
|---|
Hdf5ImageLoader(File hdf5File,
ArrayList<Partition> hdf5Partitions,
AbstractSequenceDescription<?,?,?> sequenceDescription) |
Hdf5ImageLoader(File hdf5File,
ArrayList<Partition> hdf5Partitions,
AbstractSequenceDescription<?,?,?> sequenceDescription,
boolean doOpen) |
Hdf5ImageLoader(File hdf5File,
ch.systemsx.cisd.hdf5.IHDF5Reader existingHdf5Reader,
ArrayList<Partition> hdf5Partitions,
AbstractSequenceDescription<?,?,?> sequenceDescription,
boolean doOpen) |
| Modifier and Type | Method and Description |
|---|---|
static ArrayList<Partition> |
MergePartitionList.getMergedHdf5PartitionList(AbstractSequenceDescription<?,?,?> seq1,
AbstractSequenceDescription<?,?,?> seq2) |
static ArrayList<Partition> |
MergePartitionList.getPartitions(AbstractSequenceDescription<?,?,?> seq)
|
| Modifier and Type | Method and Description |
|---|---|
static ArrayList<Partition> |
Generic_Resave_HDF5.getPartitions(AbstractSpimData<?> spimData,
Generic_Resave_HDF5.Parameters params) |
| Modifier and Type | Method and Description |
|---|---|
protected static Pair<SpimData2,HashMap<ViewId,Partition>> |
ExportSpimData2HDF5.initSpimData(List<TimePoint> newTimepoints,
List<ViewSetup> newViewSetups,
Generic_Resave_HDF5.Parameters params,
Map<Integer,ExportMipmapInfo> perSetupExportMipmapInfo) |
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