Index
All Classes and Interfaces|All Packages|Constant Field Values
A
- affiliation() - Method in record class qupath.bioimageio.spec.Author
-
Returns the value of the
affiliationrecord component. - ANGSTROM - Enum constant in enum class qupath.bioimageio.spec.tensor.axes.SpaceAxes.SpaceUnit
- ATTOMETER - Enum constant in enum class qupath.bioimageio.spec.tensor.axes.SpaceAxes.SpaceUnit
- ATTOSECOND - Enum constant in enum class qupath.bioimageio.spec.tensor.axes.TimeAxes.TimeUnit
- Author - Record Class in qupath.bioimageio.spec
-
Author or maintainer.
- Author(String, String, String, String) - Constructor for record class qupath.bioimageio.spec.Author
-
Creates an instance of a
Authorrecord class. - axes - Variable in class qupath.bioimageio.spec.tensor.BaseTensor
- Axes - Class in qupath.bioimageio.spec.tensor.axes
-
Utility methods for Axis objects.
- Axes() - Constructor for class qupath.bioimageio.spec.tensor.axes.Axes
- Axis - Interface in qupath.bioimageio.spec.tensor.axes
-
Base axis class for 0.4 and 0.5 axes.
- AxisType - Enum Class in qupath.bioimageio.spec.tensor.axes
-
The type of axis.
B
- B - Enum constant in enum class qupath.bioimageio.spec.tensor.axes.AxisType
- Badge - Record Class in qupath.bioimageio.spec
-
Model or repository badge.
- Badge(String, String, String) - Constructor for record class qupath.bioimageio.spec.Badge
-
Creates an instance of a
Badgerecord class. - BaseTensor - Class in qupath.bioimageio.spec.tensor
-
The basic tensor representation for inputs and outputs.
- BaseTensor() - Constructor for class qupath.bioimageio.spec.tensor.BaseTensor
- BOOL - Enum constant in enum class qupath.bioimageio.spec.tensor.Tensors.NominalOrOrdinalDType
C
- C - Enum constant in enum class qupath.bioimageio.spec.tensor.axes.AxisType
- CENTIMETER - Enum constant in enum class qupath.bioimageio.spec.tensor.axes.SpaceAxes.SpaceUnit
- CENTISECOND - Enum constant in enum class qupath.bioimageio.spec.tensor.axes.TimeAxes.TimeUnit
- CiteEntry - Record Class in qupath.bioimageio.spec
-
Citation entry.
- CiteEntry(String, String, String) - Constructor for record class qupath.bioimageio.spec.CiteEntry
-
Creates an instance of a
CiteEntryrecord class. - createShapeArray(String, Map<Character, Integer>, int) - Static method in class qupath.bioimageio.spec.tensor.Shape
-
Create a shape array for a given axes.
D
- Dataset - Class in qupath.bioimageio.spec
-
Dataset spec.
- Dataset() - Constructor for class qupath.bioimageio.spec.Dataset
- DAY - Enum constant in enum class qupath.bioimageio.spec.tensor.axes.TimeAxes.TimeUnit
- DECIMETER - Enum constant in enum class qupath.bioimageio.spec.tensor.axes.SpaceAxes.SpaceUnit
- DECISECOND - Enum constant in enum class qupath.bioimageio.spec.tensor.axes.TimeAxes.TimeUnit
- deserializeField(JsonDeserializationContext, JsonObject, String, Type, boolean) - Static method in class qupath.bioimageio.spec.Model
-
Deserialize a field from a JSON object.
- deserializeField(JsonDeserializationContext, JsonObject, String, Type, T) - Static method in class qupath.bioimageio.spec.Model
-
Deserialize a field from a JSON object.
- deserializeSize(JsonDeserializationContext, JsonElement, JsonElement) - Static method in interface qupath.bioimageio.spec.tensor.sizes.Size
-
Deserialize a size object from JSON.
- doi() - Method in record class qupath.bioimageio.spec.CiteEntry
-
Returns the value of the
doirecord component.
E
- equals(Object) - Method in record class qupath.bioimageio.spec.Author
-
Indicates whether some other object is "equal to" this one.
- equals(Object) - Method in record class qupath.bioimageio.spec.Badge
-
Indicates whether some other object is "equal to" this one.
- equals(Object) - Method in record class qupath.bioimageio.spec.CiteEntry
-
Indicates whether some other object is "equal to" this one.
- equals(Object) - Method in record class qupath.bioimageio.spec.FileDescription
-
Indicates whether some other object is "equal to" this one.
- equals(Object) - Method in record class qupath.bioimageio.spec.ModelParent
-
Indicates whether some other object is "equal to" this one.
- equals(Object) - Method in record class qupath.bioimageio.spec.tensor.sizes.FixedSize
-
Indicates whether some other object is "equal to" this one.
- EXAMETER - Enum constant in enum class qupath.bioimageio.spec.tensor.axes.SpaceAxes.SpaceUnit
- EXASECOND - Enum constant in enum class qupath.bioimageio.spec.tensor.axes.TimeAxes.TimeUnit
F
- FEMTOMETER - Enum constant in enum class qupath.bioimageio.spec.tensor.axes.SpaceAxes.SpaceUnit
- FEMTOSECOND - Enum constant in enum class qupath.bioimageio.spec.tensor.axes.TimeAxes.TimeUnit
- FileDescription - Record Class in qupath.bioimageio.spec
-
A file description (link and hash).
- FileDescription(String, String) - Constructor for record class qupath.bioimageio.spec.FileDescription
-
Creates an instance of a
FileDescriptionrecord class. - FIXED - Enum constant in enum class qupath.bioimageio.spec.tensor.Processing.ProcessingMode
- FixedSize - Record Class in qupath.bioimageio.spec.tensor.sizes
-
A fixed axis size.
- FixedSize(int) - Constructor for record class qupath.bioimageio.spec.tensor.sizes.FixedSize
-
Create a fixed size instance
- FLOAT32 - Enum constant in enum class qupath.bioimageio.spec.tensor.Tensors.IntervalOrRatioDType
- FLOAT32 - Enum constant in enum class qupath.bioimageio.spec.tensor.Tensors.NominalOrOrdinalDType
- FLOAT64 - Enum constant in enum class qupath.bioimageio.spec.tensor.Tensors.IntervalOrRatioDType
- FLOAT64 - Enum constant in enum class qupath.bioimageio.spec.tensor.Tensors.NominalOrOrdinalDType
- FOOT - Enum constant in enum class qupath.bioimageio.spec.tensor.axes.SpaceAxes.SpaceUnit
G
- getAttachments() - Method in class qupath.bioimageio.spec.Resource
-
file and other attachments
- getAttachments() - Method in class qupath.bioimageio.spec.Weights.ModelWeights
-
Attachments that are specific to this weights entry
- getAuthors() - Method in class qupath.bioimageio.spec.Resource
-
The authors are the creators of the model RDF and the primary points of contact.
- getAuthors() - Method in class qupath.bioimageio.spec.Weights.ModelWeights
-
Either the person(s) that have trained this model resulting in the original weights file.
- getAxes() - Method in class qupath.bioimageio.spec.tensor.BaseTensor
-
Get the axes of the tensor.
- getAxes() - Method in class qupath.bioimageio.spec.tensor.Processing.ProcessingWithMode
-
The subset of axes to scale jointly.
- getAxes() - Method in class qupath.bioimageio.spec.tensor.Processing.ScaleLinear
-
Get the axes this applies to.
- getAxesString(Axis[]) - Static method in class qupath.bioimageio.spec.tensor.axes.Axes
-
Get the old "bcyx" style axis representation of an Axis array.
- getBadges() - Method in class qupath.bioimageio.spec.Resource
-
Get the badges for the resource.
- getBaseURI() - Method in class qupath.bioimageio.spec.Model
-
Get the base URI, providing the location of the model.
- getCite() - Method in class qupath.bioimageio.spec.Resource
-
Get the citations for the resource.
- getConfig() - Method in class qupath.bioimageio.spec.Model
-
A field for custom configuration that can contain any keys not present in the RDF spec.
- getCovers() - Method in class qupath.bioimageio.spec.Resource
-
Cover images.
- getDataDescription() - Method in class qupath.bioimageio.spec.tensor.BaseTensor
-
get the data description object.
- getDataRange() - Method in class qupath.bioimageio.spec.tensor.BaseTensor
-
Tuple `(minimum, maximum)` specifying the allowed range of the data in this tensor.
- getDataType() - Method in class qupath.bioimageio.spec.tensor.BaseTensor
-
Get the data type of the tensor.
- getDescription() - Method in class qupath.bioimageio.spec.Resource
-
Get the resource description
- getDeserializers() - Static method in class qupath.bioimageio.spec.tensor.axes.Axes
-
Get any type adapters/deserializers needed for axis objects.
- getDeserializers() - Static method in class qupath.bioimageio.spec.tensor.Processing
-
Get the type adapters/deserializers necessary for any Processing objects.
- getDeserializers() - Static method in class qupath.bioimageio.spec.tensor.Tensors
-
Get the type adapters/deserializers for all classes in the tensor sub-package.
- getDocumentation() - Method in class qupath.bioimageio.spec.Resource
-
URL or relative path to a markdown file with additional documentation.
- getEps() - Method in class qupath.bioimageio.spec.tensor.Processing.ProcessingWithMode
-
Epsilon for numeric stability: out = (tensor - mean) / (std + eps) * (ref_std + eps) + ref_mean.
- getFormatVersion() - Method in class qupath.bioimageio.spec.Resource
-
Get the version of the bioimage format used for this resource.
- getGain() - Method in class qupath.bioimageio.spec.tensor.Processing.ScaleLinear
-
Get the multiplicative scaling factor
- getGitRepo() - Method in class qupath.bioimageio.spec.Resource
-
Get a link to the git repository for this resource
- getHalo() - Method in interface qupath.bioimageio.spec.tensor.axes.WithHalo
-
Get the size of the halo for this axis.
- getHalo() - Method in class qupath.bioimageio.spec.tensor.OutputTensor
-
The "halo" that should be cropped from the output tensor to avoid boundary effects.
- getIcon() - Method in class qupath.bioimageio.spec.Resource
-
Get the relative path to the resource icon
- getId() - Method in class qupath.bioimageio.spec.tensor.BaseTensor
-
Get the ID of the tensor.
- getID() - Method in class qupath.bioimageio.spec.Resource
-
bioimage.io-wide unique resource identifier assigned by bioimage.io; version **un**specific.
- getID() - Method in interface qupath.bioimageio.spec.tensor.axes.Axis
-
Get the axis ID.
- getInputs() - Method in class qupath.bioimageio.spec.Model
-
Get the input tensors
- getKwargs() - Method in class qupath.bioimageio.spec.tensor.Processing
-
Get the keyword arguments for the operation
- getLength() - Method in class qupath.bioimageio.spec.tensor.Shape
-
Get the number of elements in the shape array.
- getLicense() - Method in class qupath.bioimageio.spec.Resource
- getLinks() - Method in class qupath.bioimageio.spec.Resource
-
IDs of other bioimage.io resources
- getMaintainers() - Method in class qupath.bioimageio.spec.Resource
-
Maintainers of this resource.
- getMax() - Method in class qupath.bioimageio.spec.tensor.Processing.Clip
-
The maximum value
- getMaxPercentile() - Method in class qupath.bioimageio.spec.tensor.Processing.ScaleRange
-
The maximum percentile.
- getMean() - Method in class qupath.bioimageio.spec.tensor.Processing.ZeroMeanUnitVariance
-
The mean value(s) to use for `mode: fixed`.
- getMin() - Method in class qupath.bioimageio.spec.tensor.Processing.Clip
-
The minimum value
- getMin() - Method in record class qupath.bioimageio.spec.tensor.sizes.FixedSize
- getMin() - Method in class qupath.bioimageio.spec.tensor.sizes.ParameterizedSize
- getMin() - Method in class qupath.bioimageio.spec.tensor.sizes.ReferencedSize
- getMin() - Method in interface qupath.bioimageio.spec.tensor.sizes.Size
-
Gets the minimum shape for this axis.
- getMinPercentile() - Method in class qupath.bioimageio.spec.tensor.Processing.ScaleRange
-
The minimum percentile.
- getMode() - Method in class qupath.bioimageio.spec.tensor.Processing.ProcessingWithMode
-
Mode for computing processing.
- getName() - Method in class qupath.bioimageio.spec.Resource
-
A human-readable name of this model.
- getName() - Method in class qupath.bioimageio.spec.tensor.BaseTensor
-
Get the tensor name
- getName() - Method in class qupath.bioimageio.spec.tensor.Processing
-
Get the name of this operation
- getOffset() - Method in class qupath.bioimageio.spec.tensor.Processing.ScaleLinear
-
Get the additive offset
- getOffset() - Method in class qupath.bioimageio.spec.tensor.Shape
-
Get the shape scale, useful for implicit shapes.
- getOffset() - Method in class qupath.bioimageio.spec.tensor.Shape.ImplicitOutputShape
- getOffset() - Method in class qupath.bioimageio.spec.tensor.Tensors.IntervalOrRatioDataDescription
-
Offset for data on a ratio scale.
- getOutputs() - Method in class qupath.bioimageio.spec.Model
-
Get the output tensors
- getParent() - Method in class qupath.bioimageio.spec.Model
-
The model from which this model is derived, e.g.
- getParent() - Method in class qupath.bioimageio.spec.Weights.ModelWeights
-
The source weights these weights were converted from.
- getPostprocessing() - Method in class qupath.bioimageio.spec.tensor.OutputTensor
-
Get the post-processing steps for this output tensor.
- getPreprocessing() - Method in class qupath.bioimageio.spec.tensor.InputTensor
-
Get the pre-processing steps for this tensor.
- getRange() - Method in class qupath.bioimageio.spec.tensor.Tensors.IntervalOrRatioDataDescription
-
Get the range (if present)
- getReferenceTensor() - Method in class qupath.bioimageio.spec.tensor.Processing.ScaleMeanVariance
-
The tensor to match mean and variance to.
- getReferenceTensor() - Method in class qupath.bioimageio.spec.tensor.Processing.ScaleRange
-
The reference tensor, which we use for range scaling.
- getReferenceTensor() - Method in class qupath.bioimageio.spec.tensor.Shape.ImplicitOutputShape
-
Get the reference tensor used to define this tensor shape.
- getSampleInputs() - Method in class qupath.bioimageio.spec.Model
-
URLs/relative paths to sample outputs corresponding to the `sample_inputs`.
- getSampleOutputs() - Method in class qupath.bioimageio.spec.Model
-
URLs/relative paths to sample outputs corresponding to the `sample_outputs`.
- getSampleTensor() - Method in class qupath.bioimageio.spec.tensor.BaseTensor
-
A sample tensor to illustrate a possible input/output for the model, The sample image primarily serves to inform a human user about an example use case and is typically stored as .hdf5, .png or .tiff.
- getScale() - Method in interface qupath.bioimageio.spec.tensor.axes.ScaledAxis
-
Get the scale of this axis.
- getScale() - Method in class qupath.bioimageio.spec.tensor.Shape
-
Get the shape scale, useful for implicit shapes.
- getScale() - Method in class qupath.bioimageio.spec.tensor.Shape.ImplicitOutputShape
- getScale() - Method in class qupath.bioimageio.spec.tensor.Tensors.IntervalOrRatioDataDescription
-
Scale for data on an interval (or ratio) scale.
- getSha256() - Method in class qupath.bioimageio.spec.Weights.ModelWeights
-
Get the SHA of the source file.
- getShape() - Method in class qupath.bioimageio.spec.tensor.BaseTensor
-
Get the shape of the tensor.
- getShape() - Method in class qupath.bioimageio.spec.tensor.Shape
-
Get the shape, if this is defined explicitly.
- getShape() - Method in class qupath.bioimageio.spec.tensor.Shape.SizesShape
- getShapeMin() - Method in class qupath.bioimageio.spec.tensor.Shape
-
Get the minimum shape; useful for parameterized shapes.
- getShapeMin() - Method in class qupath.bioimageio.spec.tensor.Shape.ParameterizedInputShape
- getShapeMin() - Method in class qupath.bioimageio.spec.tensor.Shape.SizesShape
- getShapeStep() - Method in class qupath.bioimageio.spec.tensor.Shape
-
Get the shape step (increment), useful for parameterized shapes.
- getShapeStep() - Method in class qupath.bioimageio.spec.tensor.Shape.ParameterizedInputShape
- getShapeStep() - Method in class qupath.bioimageio.spec.tensor.Shape.SizesShape
- getSize() - Method in interface qupath.bioimageio.spec.tensor.axes.Axis
-
Get the size of this axis.
- getSize() - Method in interface qupath.bioimageio.spec.tensor.axes.ScaledAxis
-
Get the size of this axis.
- getSource() - Method in class qupath.bioimageio.spec.Resource
-
Get the source file for the resource
- getSource() - Method in class qupath.bioimageio.spec.Weights.ModelWeights
-
Get the source file or link (http etc.)
- getStd() - Method in class qupath.bioimageio.spec.tensor.Processing.ZeroMeanUnitVariance
-
The standard deviation values to use for `mode: fixed`.
- getStep() - Method in record class qupath.bioimageio.spec.tensor.sizes.FixedSize
- getStep() - Method in class qupath.bioimageio.spec.tensor.sizes.ParameterizedSize
- getStep() - Method in class qupath.bioimageio.spec.tensor.sizes.ReferencedSize
- getStep() - Method in interface qupath.bioimageio.spec.tensor.sizes.Size
-
Get the step size of this axis size.
- getTags() - Method in class qupath.bioimageio.spec.Resource
-
Associated tage
- getTargetShape(int...) - Method in class qupath.bioimageio.spec.tensor.Shape
-
Get a compatible shape given the specified target.
- getTargetShape(int...) - Method in class qupath.bioimageio.spec.tensor.Shape.ImplicitOutputShape
-
Get the output shape for the given input.
- getTargetShape(int...) - Method in class qupath.bioimageio.spec.tensor.Shape.ParameterizedInputShape
- getTargetShape(int[]) - Method in class qupath.bioimageio.spec.tensor.Shape.SizesShape
- getTargetSize(int) - Method in record class qupath.bioimageio.spec.tensor.sizes.FixedSize
- getTargetSize(int) - Method in class qupath.bioimageio.spec.tensor.sizes.ParameterizedSize
- getTargetSize(int) - Method in class qupath.bioimageio.spec.tensor.sizes.ReferencedSize
- getTargetSize(int) - Method in interface qupath.bioimageio.spec.tensor.sizes.Size
-
Get a size as close as possible to a target.
- getTestInputs() - Method in class qupath.bioimageio.spec.Model
-
Test input tensors compatible with the `inputs` description for a **single test case**.
- getTestOutputs() - Method in class qupath.bioimageio.spec.Model
-
Test output tensors compatible with the `output` description for a **single test case**.
- getTestTensor() - Method in class qupath.bioimageio.spec.tensor.BaseTensor
-
An example tensor to use for testing.
- getThreshold() - Method in class qupath.bioimageio.spec.tensor.Processing.Binarize
-
Get the threshold for binarization
- getTimestamp() - Method in class qupath.bioimageio.spec.Model
-
Timestamp in #ISO 8601) format with a few restrictions listed in the python docs).
- getType() - Method in interface qupath.bioimageio.spec.tensor.axes.Axis
-
Get the type of this axis, see
AxisType. - getType() - Method in class qupath.bioimageio.spec.tensor.Tensors.IntervalOrRatioDataDescription
-
Get the data type of the ratio
- getType() - Method in class qupath.bioimageio.spec.tensor.Tensors.NominalOrOrdinalDataDescription
-
The data type of the underlying tensor.
- getUnit() - Method in class qupath.bioimageio.spec.tensor.Tensors.IntervalOrRatioDataDescription
-
Get the unit of the ratio
- getUnit(String) - Static method in enum class qupath.bioimageio.spec.tensor.axes.SpaceAxes.SpaceUnit
-
Get the SpaceUnit corresponding to a String value.
- getUnit(String) - Static method in enum class qupath.bioimageio.spec.tensor.axes.TimeAxes.TimeUnit
-
Get the TimeUnit corresponding to a String value.
- getURI() - Method in class qupath.bioimageio.spec.Model
-
Get the URI providing the location of the model.
- getValues() - Method in class qupath.bioimageio.spec.tensor.Tensors.NominalOrOrdinalDataDescription
-
Get the possible values for the described tensor to which numeric dtype values relate to.
- getVersion() - Method in class qupath.bioimageio.spec.Resource
-
Get the version of the resource.
- getWeights() - Method in class qupath.bioimageio.spec.Model
-
Get a map view of the weights.
- getWeights(String) - Method in class qupath.bioimageio.spec.Model
-
Alternative to
Model.getWeights()} using a string key. - getWeights(Weights.WeightsEntry) - Method in class qupath.bioimageio.spec.Model
-
Alternative to
Model.getWeights()that corrects for keys that have been renamed. - GIGAMETER - Enum constant in enum class qupath.bioimageio.spec.tensor.axes.SpaceAxes.SpaceUnit
- GIGASECOND - Enum constant in enum class qupath.bioimageio.spec.tensor.axes.TimeAxes.TimeUnit
- githubUser() - Method in record class qupath.bioimageio.spec.Author
-
Returns the value of the
githubUserrecord component.
H
- hashCode() - Method in record class qupath.bioimageio.spec.Author
-
Returns a hash code value for this object.
- hashCode() - Method in record class qupath.bioimageio.spec.Badge
-
Returns a hash code value for this object.
- hashCode() - Method in record class qupath.bioimageio.spec.CiteEntry
-
Returns a hash code value for this object.
- hashCode() - Method in record class qupath.bioimageio.spec.FileDescription
-
Returns a hash code value for this object.
- hashCode() - Method in record class qupath.bioimageio.spec.ModelParent
-
Returns a hash code value for this object.
- hashCode() - Method in record class qupath.bioimageio.spec.tensor.sizes.FixedSize
-
Returns a hash code value for this object.
- hashSha256() - Method in record class qupath.bioimageio.spec.FileDescription
-
Returns the value of the
hashSha256record component. - HECTOMETER - Enum constant in enum class qupath.bioimageio.spec.tensor.axes.SpaceAxes.SpaceUnit
- HECTOSECOND - Enum constant in enum class qupath.bioimageio.spec.tensor.axes.TimeAxes.TimeUnit
- HOUR - Enum constant in enum class qupath.bioimageio.spec.tensor.axes.TimeAxes.TimeUnit
I
- I - Enum constant in enum class qupath.bioimageio.spec.tensor.axes.AxisType
- icon() - Method in record class qupath.bioimageio.spec.Badge
-
Returns the value of the
iconrecord component. - id() - Method in record class qupath.bioimageio.spec.ModelParent
-
Returns the value of the
idrecord component. - ImplicitOutputShape() - Constructor for class qupath.bioimageio.spec.tensor.Shape.ImplicitOutputShape
- INCH - Enum constant in enum class qupath.bioimageio.spec.tensor.axes.SpaceAxes.SpaceUnit
- IndexAxes - Class in qupath.bioimageio.spec.tensor.axes
-
Axes that relate to indexes rather than space/time/channel/batch, for example lists of objects.
- IndexAxes() - Constructor for class qupath.bioimageio.spec.tensor.axes.IndexAxes
- InputTensor - Class in qupath.bioimageio.spec.tensor
-
Model input, including shape, axes, datatype and preprocessing.
- InputTensor() - Constructor for class qupath.bioimageio.spec.tensor.InputTensor
- INT16 - Enum constant in enum class qupath.bioimageio.spec.tensor.Tensors.IntervalOrRatioDType
- INT16 - Enum constant in enum class qupath.bioimageio.spec.tensor.Tensors.NominalOrOrdinalDType
- INT32 - Enum constant in enum class qupath.bioimageio.spec.tensor.Tensors.IntervalOrRatioDType
- INT32 - Enum constant in enum class qupath.bioimageio.spec.tensor.Tensors.NominalOrOrdinalDType
- INT64 - Enum constant in enum class qupath.bioimageio.spec.tensor.Tensors.IntervalOrRatioDType
- INT64 - Enum constant in enum class qupath.bioimageio.spec.tensor.Tensors.NominalOrOrdinalDType
- INT8 - Enum constant in enum class qupath.bioimageio.spec.tensor.Tensors.IntervalOrRatioDType
- INT8 - Enum constant in enum class qupath.bioimageio.spec.tensor.Tensors.NominalOrOrdinalDType
- io.github.qupath.bioimageio.spec - module io.github.qupath.bioimageio.spec
- isFormatNewerThan(String) - Method in class qupath.bioimageio.spec.Resource
-
Compare a resource's format version to a semantic version
K
- KERAS_HDF5 - Enum constant in enum class qupath.bioimageio.spec.Weights.WeightsEntry
- KILOMETER - Enum constant in enum class qupath.bioimageio.spec.tensor.axes.SpaceAxes.SpaceUnit
- KILOSECOND - Enum constant in enum class qupath.bioimageio.spec.tensor.axes.TimeAxes.TimeUnit
L
- label() - Method in record class qupath.bioimageio.spec.Badge
-
Returns the value of the
labelrecord component.
M
- MEGAMETER - Enum constant in enum class qupath.bioimageio.spec.tensor.axes.SpaceAxes.SpaceUnit
- MEGASECOND - Enum constant in enum class qupath.bioimageio.spec.tensor.axes.TimeAxes.TimeUnit
- METER - Enum constant in enum class qupath.bioimageio.spec.tensor.axes.SpaceAxes.SpaceUnit
- MICROMETER - Enum constant in enum class qupath.bioimageio.spec.tensor.axes.SpaceAxes.SpaceUnit
- MICROSECOND - Enum constant in enum class qupath.bioimageio.spec.tensor.axes.TimeAxes.TimeUnit
- MILE - Enum constant in enum class qupath.bioimageio.spec.tensor.axes.SpaceAxes.SpaceUnit
- MILLIMETER - Enum constant in enum class qupath.bioimageio.spec.tensor.axes.SpaceAxes.SpaceUnit
- MILLISECOND - Enum constant in enum class qupath.bioimageio.spec.tensor.axes.TimeAxes.TimeUnit
- MINUTE - Enum constant in enum class qupath.bioimageio.spec.tensor.axes.TimeAxes.TimeUnit
- Model - Class in qupath.bioimageio.spec
-
Resource based on the main model spec.
- Model() - Constructor for class qupath.bioimageio.spec.Model
- ModelParent - Record Class in qupath.bioimageio.spec
-
Model parent.
- ModelParent(String, String, String) - Constructor for record class qupath.bioimageio.spec.ModelParent
-
Creates an instance of a
ModelParentrecord class. - ModelWeights() - Constructor for class qupath.bioimageio.spec.Weights.ModelWeights
N
- name() - Method in record class qupath.bioimageio.spec.Author
-
Returns the value of the
namerecord component. - NANOMETER - Enum constant in enum class qupath.bioimageio.spec.tensor.axes.SpaceAxes.SpaceUnit
- NANOSECOND - Enum constant in enum class qupath.bioimageio.spec.tensor.axes.TimeAxes.TimeUnit
- NO_SIZE - Static variable in interface qupath.bioimageio.spec.tensor.sizes.Size
-
Constant to indicate that this element has no meaningful size for some context.
- NO_UNIT - Enum constant in enum class qupath.bioimageio.spec.tensor.axes.SpaceAxes.SpaceUnit
- NO_UNIT - Enum constant in enum class qupath.bioimageio.spec.tensor.axes.TimeAxes.TimeUnit
O
- ONNX - Enum constant in enum class qupath.bioimageio.spec.Weights.WeightsEntry
- orcid() - Method in record class qupath.bioimageio.spec.Author
-
Returns the value of the
orcidrecord component. - OutputTensor - Class in qupath.bioimageio.spec.tensor
-
Model output, including shape, axes, halo, datatype and postprocessing.
- OutputTensor() - Constructor for class qupath.bioimageio.spec.tensor.OutputTensor
P
- ParameterizedInputShape() - Constructor for class qupath.bioimageio.spec.tensor.Shape.ParameterizedInputShape
- ParameterizedSize - Class in qupath.bioimageio.spec.tensor.sizes
-
Describes a range of valid tensor axis sizes as `size = min + n*step`.
- parse(File) - Static method in class qupath.bioimageio.spec.Model
-
Parse a model from a file or directory.
- parse(InputStream) - Static method in class qupath.bioimageio.spec.Model
-
Parse a model from an input stream.
- parse(Path) - Static method in class qupath.bioimageio.spec.Model
-
Parse a model from a path.
- PARSEC - Enum constant in enum class qupath.bioimageio.spec.tensor.axes.SpaceAxes.SpaceUnit
- PER_DATASET - Enum constant in enum class qupath.bioimageio.spec.tensor.Processing.ProcessingMode
- PER_SAMPLE - Enum constant in enum class qupath.bioimageio.spec.tensor.Processing.ProcessingMode
- PETAMETER - Enum constant in enum class qupath.bioimageio.spec.tensor.axes.SpaceAxes.SpaceUnit
- PETASECOND - Enum constant in enum class qupath.bioimageio.spec.tensor.axes.TimeAxes.TimeUnit
- PICOMETER - Enum constant in enum class qupath.bioimageio.spec.tensor.axes.SpaceAxes.SpaceUnit
- PICOSECOND - Enum constant in enum class qupath.bioimageio.spec.tensor.axes.TimeAxes.TimeUnit
- Processing - Class in qupath.bioimageio.spec.tensor
-
Base class for pre- and post-processing operations.
- Processing.Binarize - Class in qupath.bioimageio.spec.tensor
-
A binarize operation.
- Processing.Clip - Class in qupath.bioimageio.spec.tensor
-
A clipping operation.
- Processing.ProcessingMode - Enum Class in qupath.bioimageio.spec.tensor
-
Requested mode for pre- or post-processing.
- Processing.ProcessingWithMode - Class in qupath.bioimageio.spec.tensor
-
A processing mode that operates optionally on different sets of data.
- Processing.ScaleLinear - Class in qupath.bioimageio.spec.tensor
-
A linear scaling operation.
- Processing.ScaleMeanVariance - Class in qupath.bioimageio.spec.tensor
-
A scaling operation to the mean and variance of a reference tensor.
- Processing.ScaleRange - Class in qupath.bioimageio.spec.tensor
-
A scaling operation to a reference tensor.
- Processing.Sigmoid - Class in qupath.bioimageio.spec.tensor
-
A sigmoid transofmration.
- Processing.ZeroMeanUnitVariance - Class in qupath.bioimageio.spec.tensor
-
A scaling operation to zero mean and unit variqnce.
- PYTORCH_STATE_DICT - Enum constant in enum class qupath.bioimageio.spec.Weights.WeightsEntry
Q
- qupath.bioimageio.spec - package qupath.bioimageio.spec
-
Support for parsing the model spec for the BioImage Model Zoo at https://bioimage.io.
- qupath.bioimageio.spec.tensor - package qupath.bioimageio.spec.tensor
- qupath.bioimageio.spec.tensor.axes - package qupath.bioimageio.spec.tensor.axes
- qupath.bioimageio.spec.tensor.sizes - package qupath.bioimageio.spec.tensor.sizes
R
- ReferencedSize - Class in qupath.bioimageio.spec.tensor.sizes
-
A tensor axis size (extent in pixels/frames) defined in relation to a reference axis.
- Resource - Class in qupath.bioimageio.spec
-
General resource, based upon the RDF.
- Resource() - Constructor for class qupath.bioimageio.spec.Resource
S
- ScaledAxis - Interface in qupath.bioimageio.spec.tensor.axes
-
Axes that have both size and scale.
- SECOND - Enum constant in enum class qupath.bioimageio.spec.tensor.axes.TimeAxes.TimeUnit
- setBaseURI(URI) - Method in class qupath.bioimageio.spec.Model
- setUri(URI) - Method in class qupath.bioimageio.spec.Model
- sha256() - Method in record class qupath.bioimageio.spec.ModelParent
-
Returns the value of the
sha256record component. - shape - Variable in class qupath.bioimageio.spec.tensor.Shape
- Shape - Class in qupath.bioimageio.spec.tensor
-
Shape of input or output tensor.
- Shape() - Constructor for class qupath.bioimageio.spec.tensor.Shape
- Shape.ImplicitOutputShape - Class in qupath.bioimageio.spec.tensor
-
A shape that is determined based on the shape of another tensor.
- Shape.ParameterizedInputShape - Class in qupath.bioimageio.spec.tensor
-
A shape that is determined based on a minimum and a step size.
- Shape.SizesShape - Class in qupath.bioimageio.spec.tensor
-
A Shape that wraps tensor Size objects from the 0.5 spec.
- size() - Method in record class qupath.bioimageio.spec.tensor.sizes.FixedSize
-
Returns the value of the
sizerecord component. - size() - Method in class qupath.bioimageio.spec.tensor.sizes.ParameterizedSize
- size() - Method in class qupath.bioimageio.spec.tensor.sizes.ReferencedSize
- size() - Method in interface qupath.bioimageio.spec.tensor.sizes.Size
-
Get the default size of this axis.
- Size - Interface in qupath.bioimageio.spec.tensor.sizes
-
An axis size.
- source() - Method in record class qupath.bioimageio.spec.FileDescription
-
Returns the value of the
sourcerecord component. - SpaceAxes - Class in qupath.bioimageio.spec.tensor.axes
-
Axes relating to physical space.
- SpaceAxes() - Constructor for class qupath.bioimageio.spec.tensor.axes.SpaceAxes
- SpaceAxes.SpaceUnit - Enum Class in qupath.bioimageio.spec.tensor.axes
-
Possible SI and imperial units for distance in physical space.
T
- T - Enum constant in enum class qupath.bioimageio.spec.tensor.axes.AxisType
- TensorDataDescription - Interface in qupath.bioimageio.spec.tensor
-
Descriptions of tensor data types, primarily ratio types or nominal/ordinal types represented by int-like numeric values.
- TENSORFLOW_JS - Enum constant in enum class qupath.bioimageio.spec.Weights.WeightsEntry
- TENSORFLOW_SAVED_MODEL_BUNDLE - Enum constant in enum class qupath.bioimageio.spec.Weights.WeightsEntry
- Tensors - Class in qupath.bioimageio.spec.tensor
- Tensors() - Constructor for class qupath.bioimageio.spec.tensor.Tensors
- Tensors.IntervalOrRatioDataDescription - Class in qupath.bioimageio.spec.tensor
-
A description of the possible ratio data values in a tensor.
- Tensors.IntervalOrRatioDType - Enum Class in qupath.bioimageio.spec.tensor
-
Data type of ratio data.
- Tensors.NominalOrOrdinalDataDescription - Class in qupath.bioimageio.spec.tensor
-
A description of the possible discrete data values in a tensor.
- Tensors.NominalOrOrdinalDType - Enum Class in qupath.bioimageio.spec.tensor
-
Data type of nominal or ordinal data.
- TERAMETER - Enum constant in enum class qupath.bioimageio.spec.tensor.axes.SpaceAxes.SpaceUnit
- TERASECOND - Enum constant in enum class qupath.bioimageio.spec.tensor.axes.TimeAxes.TimeUnit
- text() - Method in record class qupath.bioimageio.spec.CiteEntry
-
Returns the value of the
textrecord component. - TimeAxes - Class in qupath.bioimageio.spec.tensor.axes
-
Axes relating to physical time.
- TimeAxes() - Constructor for class qupath.bioimageio.spec.tensor.axes.TimeAxes
- TimeAxes.TimeUnit - Enum Class in qupath.bioimageio.spec.tensor.axes
-
Possible units for time.
- TORCHSCRIPT - Enum constant in enum class qupath.bioimageio.spec.Weights.WeightsEntry
- toString() - Method in record class qupath.bioimageio.spec.Author
-
Returns a string representation of this record class.
- toString() - Method in record class qupath.bioimageio.spec.Badge
-
Returns a string representation of this record class.
- toString() - Method in record class qupath.bioimageio.spec.CiteEntry
-
Returns a string representation of this record class.
- toString() - Method in record class qupath.bioimageio.spec.FileDescription
-
Returns a string representation of this record class.
- toString() - Method in record class qupath.bioimageio.spec.ModelParent
-
Returns a string representation of this record class.
- toString() - Method in enum class qupath.bioimageio.spec.tensor.axes.AxisType
- toString() - Method in class qupath.bioimageio.spec.tensor.InputTensor
- toString() - Method in class qupath.bioimageio.spec.tensor.OutputTensor
- toString() - Method in class qupath.bioimageio.spec.tensor.Shape.ImplicitOutputShape
- toString() - Method in class qupath.bioimageio.spec.tensor.Shape.ParameterizedInputShape
- toString() - Method in class qupath.bioimageio.spec.tensor.Shape
- toString() - Method in record class qupath.bioimageio.spec.tensor.sizes.FixedSize
-
Returns a string representation of this record class.
- toString() - Method in class qupath.bioimageio.spec.Weights.ModelWeights
- toString() - Method in enum class qupath.bioimageio.spec.Weights.WeightsEntry
- toUnmodifiableList(List<T>) - Static method in class qupath.bioimageio.spec.Model
-
Ensure the input is an unmodifiable list, or empty list if null.
U
- UINT16 - Enum constant in enum class qupath.bioimageio.spec.tensor.Tensors.IntervalOrRatioDType
- UINT16 - Enum constant in enum class qupath.bioimageio.spec.tensor.Tensors.NominalOrOrdinalDType
- UINT32 - Enum constant in enum class qupath.bioimageio.spec.tensor.Tensors.IntervalOrRatioDType
- UINT32 - Enum constant in enum class qupath.bioimageio.spec.tensor.Tensors.NominalOrOrdinalDType
- UINT64 - Enum constant in enum class qupath.bioimageio.spec.tensor.Tensors.IntervalOrRatioDType
- UINT64 - Enum constant in enum class qupath.bioimageio.spec.tensor.Tensors.NominalOrOrdinalDType
- UINT8 - Enum constant in enum class qupath.bioimageio.spec.tensor.Tensors.IntervalOrRatioDType
- UINT8 - Enum constant in enum class qupath.bioimageio.spec.tensor.Tensors.NominalOrOrdinalDType
- uri() - Method in record class qupath.bioimageio.spec.ModelParent
-
Returns the value of the
urirecord component. - url() - Method in record class qupath.bioimageio.spec.Badge
-
Returns the value of the
urlrecord component. - url() - Method in record class qupath.bioimageio.spec.CiteEntry
-
Returns the value of the
urlrecord component.
V
- validate(List<? extends BaseTensor>) - Method in interface qupath.bioimageio.spec.tensor.axes.Axis
-
Ensure the parameters of the axis are valid, possibly resolving references to other tensors and/or axes.
- validate(List<? extends BaseTensor>) - Method in class qupath.bioimageio.spec.tensor.BaseTensor
-
Validate a tensor by resolving links between tensors and other parameter settings.
- validate(List<? extends BaseTensor>) - Method in record class qupath.bioimageio.spec.tensor.sizes.FixedSize
- validate(List<? extends BaseTensor>) - Method in class qupath.bioimageio.spec.tensor.sizes.ParameterizedSize
- validate(List<? extends BaseTensor>) - Method in class qupath.bioimageio.spec.tensor.sizes.ReferencedSize
- validate(List<? extends BaseTensor>) - Method in interface qupath.bioimageio.spec.tensor.sizes.Size
-
Validate a tensor's size, ensuring that all internal fields are valid and resolving links between tensor objects.
- valueOf(String) - Static method in enum class qupath.bioimageio.spec.tensor.axes.AxisType
-
Returns the enum constant of this class with the specified name.
- valueOf(String) - Static method in enum class qupath.bioimageio.spec.tensor.axes.SpaceAxes.SpaceUnit
-
Returns the enum constant of this class with the specified name.
- valueOf(String) - Static method in enum class qupath.bioimageio.spec.tensor.axes.TimeAxes.TimeUnit
-
Returns the enum constant of this class with the specified name.
- valueOf(String) - Static method in enum class qupath.bioimageio.spec.tensor.Processing.ProcessingMode
-
Returns the enum constant of this class with the specified name.
- valueOf(String) - Static method in enum class qupath.bioimageio.spec.tensor.Tensors.IntervalOrRatioDType
-
Returns the enum constant of this class with the specified name.
- valueOf(String) - Static method in enum class qupath.bioimageio.spec.tensor.Tensors.NominalOrOrdinalDType
-
Returns the enum constant of this class with the specified name.
- valueOf(String) - Static method in enum class qupath.bioimageio.spec.Weights.WeightsEntry
-
Returns the enum constant of this class with the specified name.
- values() - Static method in enum class qupath.bioimageio.spec.tensor.axes.AxisType
-
Returns an array containing the constants of this enum class, in the order they are declared.
- values() - Static method in enum class qupath.bioimageio.spec.tensor.axes.SpaceAxes.SpaceUnit
-
Returns an array containing the constants of this enum class, in the order they are declared.
- values() - Static method in enum class qupath.bioimageio.spec.tensor.axes.TimeAxes.TimeUnit
-
Returns an array containing the constants of this enum class, in the order they are declared.
- values() - Static method in enum class qupath.bioimageio.spec.tensor.Processing.ProcessingMode
-
Returns an array containing the constants of this enum class, in the order they are declared.
- values() - Static method in enum class qupath.bioimageio.spec.tensor.Tensors.IntervalOrRatioDType
-
Returns an array containing the constants of this enum class, in the order they are declared.
- values() - Static method in enum class qupath.bioimageio.spec.tensor.Tensors.NominalOrOrdinalDType
-
Returns an array containing the constants of this enum class, in the order they are declared.
- values() - Static method in enum class qupath.bioimageio.spec.Weights.WeightsEntry
-
Returns an array containing the constants of this enum class, in the order they are declared.
W
- Weights - Class in qupath.bioimageio.spec
-
Model weights and model weights accessories.
- Weights() - Constructor for class qupath.bioimageio.spec.Weights
- Weights.ModelWeights - Class in qupath.bioimageio.spec
-
Model weights information for a specific format.
- Weights.WeightsEntry - Enum Class in qupath.bioimageio.spec
-
Enum representing supported model weights.
- Weights.WeightsMap - Class in qupath.bioimageio.spec
-
A map of weights types (e.g., TensorFlow, ONNX, PyTorch) to model weights.
- WeightsMap() - Constructor for class qupath.bioimageio.spec.Weights.WeightsMap
- WithHalo - Interface in qupath.bioimageio.spec.tensor.axes
-
An axis with a halo.
- withStringKeys() - Method in class qupath.bioimageio.spec.Weights.WeightsMap
-
Convert to a map with String keys.
X
Y
- Y - Enum constant in enum class qupath.bioimageio.spec.tensor.axes.AxisType
- YARD - Enum constant in enum class qupath.bioimageio.spec.tensor.axes.SpaceAxes.SpaceUnit
- YOCTOMETER - Enum constant in enum class qupath.bioimageio.spec.tensor.axes.SpaceAxes.SpaceUnit
- YOCTOSECOND - Enum constant in enum class qupath.bioimageio.spec.tensor.axes.TimeAxes.TimeUnit
- YOTTAMETER - Enum constant in enum class qupath.bioimageio.spec.tensor.axes.SpaceAxes.SpaceUnit
- YOTTASECOND - Enum constant in enum class qupath.bioimageio.spec.tensor.axes.TimeAxes.TimeUnit
Z
- Z - Enum constant in enum class qupath.bioimageio.spec.tensor.axes.AxisType
- ZEPTOMETER - Enum constant in enum class qupath.bioimageio.spec.tensor.axes.SpaceAxes.SpaceUnit
- ZEPTOSECOND - Enum constant in enum class qupath.bioimageio.spec.tensor.axes.TimeAxes.TimeUnit
- ZETTAMETER - Enum constant in enum class qupath.bioimageio.spec.tensor.axes.SpaceAxes.SpaceUnit
- ZETTASECOND - Enum constant in enum class qupath.bioimageio.spec.tensor.axes.TimeAxes.TimeUnit
All Classes and Interfaces|All Packages|Constant Field Values