Package | Description |
---|---|
loci.formats |
Bio-Formats: a library for reading and writing popular microscopy file
formats.
|
loci.formats.in |
Package containing Bio-Formats file format readers.
|
loci.formats.services | |
loci.formats.tools |
Package containing utility methods corresponding
to the Bio-Formats command line tools.
|
Modifier and Type | Class and Description |
---|---|
class |
SwappableMetadata
Extends
CoreMetadata to include the notion of an "input order" for planes:
the input order being the order planes are stored on disk. |
Modifier and Type | Field and Description |
---|---|
(package private) static java.util.Comparator<CoreMetadata> |
CoreMetadataList.comparator |
private java.util.ArrayList<CoreMetadata> |
FileStitcher.core
Core metadata.
|
private java.util.List<CoreMetadata> |
DimensionSwapper.core
Core metadata associated with this dimension swapper.
|
protected java.util.List<CoreMetadata> |
FormatReader.core
Core metadata values.
|
Modifier and Type | Method and Description |
---|---|
CoreMetadata |
SwappableMetadata.clone(IFormatReader r,
int coreIndex) |
CoreMetadata |
CoreMetadata.clone(IFormatReader r,
int coreIndex) |
protected CoreMetadata |
SubResolutionFormatReader.getCurrentCore()
Get the CoreMetadata corresponding to the current series and resolution
|
protected CoreMetadata |
FormatReader.getCurrentCore()
Get the CoreMetadata corresponding to the current series and resolution
|
Modifier and Type | Method and Description |
---|---|
java.util.List<CoreMetadata> |
FileStitcher.getCoreMetadataList() |
java.util.List<CoreMetadata> |
DimensionSwapper.getCoreMetadataList() |
java.util.List<CoreMetadata> |
WrappedReader.getCoreMetadataList() |
java.util.List<CoreMetadata> |
SubResolutionFormatReader.getCoreMetadataList() |
java.util.List<CoreMetadata> |
ReaderWrapper.getCoreMetadataList() |
java.util.List<CoreMetadata> |
ImageReader.getCoreMetadataList() |
java.util.List<CoreMetadata> |
IFormatReader.getCoreMetadataList()
Deprecated.
Reader internals should not be accessed by reader users
|
java.util.List<CoreMetadata> |
FormatReader.getCoreMetadataList() |
java.util.List<CoreMetadata> |
CoreMetadataList.getFlattenedList() |
java.util.List<CoreMetadata> |
CoreMetadataList.getSeriesList() |
Modifier and Type | Method and Description |
---|---|
void |
CoreMetadataList.add(int i1,
CoreMetadata value)
Add a secondary array element to the specified primary array
|
static void |
MetadataTools.populateMetadata(MetadataStore store,
int series,
java.lang.String imageName,
CoreMetadata coreMeta)
Populates the given
MetadataStore , for the specified series, using
the values from the provided CoreMetadata . |
Modifier and Type | Method and Description |
---|---|
void |
CoreMetadataList.setFlattenedList(java.util.List<CoreMetadata> list) |
Constructor and Description |
---|
CoreMetadata(CoreMetadata c) |
Constructor and Description |
---|
CoreMetadataList(java.util.List<CoreMetadata> list) |
Modifier and Type | Class and Description |
---|---|
private class |
OMETiffReader.OMETiffCoreMetadata |
(package private) class |
SVSCoreMetadata |
Modifier and Type | Field and Description |
---|---|
CoreMetadata |
VolocityReader.Stack.core |
Modifier and Type | Field and Description |
---|---|
private java.util.List<CoreMetadata> |
LeicaHandler.core |
Modifier and Type | Method and Description |
---|---|
java.util.List<CoreMetadata> |
LeicaHandler.getCoreMetadataList() |
java.util.List<CoreMetadata> |
FilePatternReader.getCoreMetadataList() |
Modifier and Type | Method and Description |
---|---|
private void |
ZeissCZIReader.convertPixelType(CoreMetadata ms0,
int pixelType) |
private void |
KLBReader.convertPixelType(CoreMetadata ms0,
int pixelType) |
private void |
KLBReader.readHeader(CoreMetadata coreMeta) |
Constructor and Description |
---|
OMETiffCoreMetadata(CoreMetadata copy) |
Modifier and Type | Method and Description |
---|---|
void |
OMEXMLServiceImpl.addModuloAlong(OMEXMLMetadata meta,
CoreMetadata core,
int imageIdx) |
void |
OMEXMLService.addModuloAlong(OMEXMLMetadata omexmlMeta,
CoreMetadata core,
int image)
Adds ModuloAlong* annotations to the given OME-XML metadata object,
using the given CoreMetadata object to determine modulo dimensions.
|
Modifier and Type | Method and Description |
---|---|
private IMetadata |
MakeTestOmeTiff.createMetadata(java.lang.String name,
CoreMetadata info) |
private java.awt.image.BufferedImage |
MakeTestOmeTiff.createPlane(java.lang.String name,
CoreMetadata info,
int no) |
private OMETiffWriter |
MakeTestOmeTiff.createWriter(java.lang.String name,
CoreMetadata info,
java.lang.String id) |
void |
MakeTestOmeTiff.makeOmeTiff(java.lang.String name,
CoreMetadata info) |
private void |
MakeTestOmeTiff.writeData(java.lang.String name,
CoreMetadata info,
java.lang.String id,
OMETiffWriter out) |
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