Index (api 1.0.0-rc3 API)

A B C D E F G H I L M N O P R S T U V W Y
All Classes All Packages

A

add_components(Object_component...) - Method in class org.fairdatapipeline.api.Issue: When we have created an issue using coderun.raise_issue() we still need to attach this issue to one or more object components.
add_fileObjects(FileObject...) - Method in class org.fairdatapipeline.api.Issue: When we have created an issue using coderun.raise_issue() we can also attach FileObjects to this issue.
as1DArray() - Method in interface org.fairdatapipeline.objects.NumericalArray
as1DArray() - Method in class org.fairdatapipeline.objects.NumericalArrayImpl
as2DArray() - Method in interface org.fairdatapipeline.objects.NumericalArray
as2DArray() - Method in class org.fairdatapipeline.objects.NumericalArrayImpl
as3DArray() - Method in interface org.fairdatapipeline.objects.NumericalArray
as3DArray() - Method in class org.fairdatapipeline.objects.NumericalArrayImpl
as4DArray() - Method in interface org.fairdatapipeline.objects.NumericalArray
as4DArray() - Method in class org.fairdatapipeline.objects.NumericalArrayImpl
as5DArray() - Method in interface org.fairdatapipeline.objects.NumericalArray
as5DArray() - Method in class org.fairdatapipeline.objects.NumericalArrayImpl

B

BaseYamlWriter - Class in org.fairdatapipeline.yaml
bins() - Method in interface org.fairdatapipeline.distribution.Distribution

C

categorical - org.fairdatapipeline.distribution.Distribution.DistributionType
check() - Method in interface org.fairdatapipeline.distribution.Distribution
CleanableFileChannel - Class in org.fairdatapipeline.file: Wrapper around standard FileChannel with additional safety net for closing if user does not close and ability to run custom function during cleanup/closing.
CleanableFileChannel(FileChannel, Runnable) - Constructor for class org.fairdatapipeline.file.CleanableFileChannel: Create a filechannel with a runnable closer to perform the close action.
close() - Method in class org.fairdatapipeline.api.Coderun: Finalize and register the coderun.
close() - Method in class org.fairdatapipeline.api.Data_product
close() - Method in class org.fairdatapipeline.file.CleanableFileChannel
Coderun - Class in org.fairdatapipeline.api: Java implementation of the FAIR Data Pipeline API
Coderun(Path) - Constructor for class org.fairdatapipeline.api.Coderun: Constructor using only configFilePath - scriptPath is read from the config.
Coderun(Path, Path) - Constructor for class org.fairdatapipeline.api.Coderun: Constructor using both configFilePath and ScriptPath
Coderun(Path, Path, String) - Constructor for class org.fairdatapipeline.api.Coderun: Constructor specifying configPath, scriptPath, and registryToken.
Component - Interface in org.fairdatapipeline.parameters
components() - Method in interface org.fairdatapipeline.parameters.Components
Components - Interface in org.fairdatapipeline.parameters
ComponentsDeserializer - Class in org.fairdatapipeline.parameters
ComponentsDeserializer(RandomGenerator) - Constructor for class org.fairdatapipeline.parameters.ComponentsDeserializer
ComponentsSerializer - Class in org.fairdatapipeline.parameters
ComponentsSerializer(RandomGenerator) - Constructor for class org.fairdatapipeline.parameters.ComponentsSerializer
config(YamlReader, Path) - Method in class org.fairdatapipeline.config.ConfigFactory
Config - Interface in org.fairdatapipeline.config: config.yaml configuration file - this specifies the file as rewritten by the FAIR-CLI command.
Config.ConfigItem - Interface in org.fairdatapipeline.config: Read or Write data product items, specified by name, or (only for write items) possibly ending in * for simple globbing
Config.ConfigRunMetadata - Interface in org.fairdatapipeline.config: Defaults and settings for this coderun.
Config.ConfigUseItem - Interface in org.fairdatapipeline.config: Use-section for a data product.
ConfigException - Exception in org.fairdatapipeline.config: Something wrong with the config.
ConfigException(String) - Constructor for exception org.fairdatapipeline.config.ConfigException: Constructor
ConfigException(String, Exception) - Constructor for exception org.fairdatapipeline.config.ConfigException: Constructor
ConfigFactory - Class in org.fairdatapipeline.config
ConfigFactory() - Constructor for class org.fairdatapipeline.config.ConfigFactory

D

data_product() - Method in interface org.fairdatapipeline.config.Config.ConfigItem: data_product name (for write items this may end in * for simple globbing)
data_product() - Method in interface org.fairdatapipeline.config.Config.ConfigUseItem: Override the data_product name for this item
Data_product - Class in org.fairdatapipeline.api: Data product is created: Coderun.get_dp_for_write(String, String) or Coderun.get_dp_for_read(String)
Data_product_read - Class in org.fairdatapipeline.api: Data_product_read is created by Coderun: Coderun.get_dp_for_read(String)
Data_product_write - Class in org.fairdatapipeline.api: Data_product_write is created by Coderun: Coderun.get_dp_for_write(String, String)
DataPipelineMapper - Class in org.fairdatapipeline.mapper: ObjectMapper for TOML parameter file parameters.
DataPipelineMapper(JsonFactory, RandomGenerator) - Constructor for class org.fairdatapipeline.mapper.DataPipelineMapper
DataPipelineMapper(MappingJsonFactory, RandomGenerator) - Constructor for class org.fairdatapipeline.mapper.DataPipelineMapper
DataPipelineMapper(RandomGenerator) - Constructor for class org.fairdatapipeline.mapper.DataPipelineMapper
default_input_namespace() - Method in interface org.fairdatapipeline.config.Config.ConfigRunMetadata: In which namespace to search for READ data products.
default_output_namespace() - Method in interface org.fairdatapipeline.config.Config.ConfigRunMetadata: In which namespace to place the WRITE data products.
default_read_version() - Method in interface org.fairdatapipeline.config.Config.ConfigRunMetadata: Default write version - Not Used
default_write_version() - Method in interface org.fairdatapipeline.config.Config.ConfigRunMetadata: Default read version - Not Used
description() - Method in interface org.fairdatapipeline.config.Config.ConfigItem: For write items only: please set the description to get stored in the registry with this data product
description() - Method in interface org.fairdatapipeline.config.Config.ConfigRunMetadata: Set the description field for this code run.
deserialize(JsonParser, DeserializationContext) - Method in class org.fairdatapipeline.distribution.MinMaxDeserializer
deserialize(JsonParser, DeserializationContext) - Method in class org.fairdatapipeline.parameters.ComponentsDeserializer
deserialize(JsonParser, DeserializationContext) - Method in class org.fairdatapipeline.parameters.RandomGeneratorDeserializer
Distribution - Interface in org.fairdatapipeline.distribution
Distribution.DistributionType - Enum in org.fairdatapipeline.distribution

E

empirical - org.fairdatapipeline.distribution.Distribution.DistributionType
empiricalSamples() - Method in interface org.fairdatapipeline.distribution.Distribution
Estimate - Interface in org.fairdatapipeline.estimate: a component to store a plain simple single Number
exponential - org.fairdatapipeline.distribution.Distribution.DistributionType

F

failOnHashMisMatch() - Method in interface org.fairdatapipeline.config.Config: Ignored at the moment; I think the FAIR-CLI should deal with hash-checking for input files.
file_type() - Method in interface org.fairdatapipeline.config.Config.ConfigItem: Config write items may specify the file_type (such as csv, h5, or toml) but this can also be specified using Coderun.get_dp_for_write(String, String) method.
fileHash(String) - Method in class org.fairdatapipeline.hash.Hasher
fileHash(String, Instant) - Method in class org.fairdatapipeline.hash.Hasher
FileObject - Class in org.fairdatapipeline.api: A new registryObject with given storage_location, description, authors, file_type.
FileReader - Class in org.fairdatapipeline.file
FileReader() - Constructor for class org.fairdatapipeline.file.FileReader
force(boolean) - Method in class org.fairdatapipeline.file.CleanableFileChannel

G

gamma - org.fairdatapipeline.distribution.Distribution.DistributionType
get_dp_for_read(String) - Method in class org.fairdatapipeline.api.Coderun: Obtain a data product for reading.
get_dp_for_write(String) - Method in class org.fairdatapipeline.api.Coderun: Obtain a data product for writing.
get_dp_for_write(String, String) - Method in class org.fairdatapipeline.api.Coderun: Obtain a data product for writing.
getCode_repo() - Method in class org.fairdatapipeline.api.Coderun: Access the code repository in order to raise a code repository issue.
getComponent() - Method in class org.fairdatapipeline.api.Data_product_read: Obtain an Object_component (whole_object) for reading.
getComponent() - Method in class org.fairdatapipeline.api.Data_product_write: Obtain an Object_component (whole_object) for writing.
getComponent(String) - Method in class org.fairdatapipeline.api.Data_product_read: Obtain an Object_component for reading.
getComponent(String) - Method in class org.fairdatapipeline.api.Data_product_write: Obtain an Object_component for writing.
getConfig() - Method in class org.fairdatapipeline.api.Coderun: Access the configuration file (config.yaml); in order to raise a Config issue.
getDistribution() - Method in interface org.fairdatapipeline.distribution.Distribution
getDistribution() - Method in interface org.fairdatapipeline.estimate.Estimate
getDistribution() - Method in interface org.fairdatapipeline.parameters.ReadComponent
getDistribution() - Method in interface org.fairdatapipeline.samples.Samples
getEstimate() - Method in interface org.fairdatapipeline.distribution.Distribution
getEstimate() - Method in interface org.fairdatapipeline.estimate.Estimate
getEstimate() - Method in interface org.fairdatapipeline.parameters.ReadComponent
getEstimate() - Method in interface org.fairdatapipeline.samples.Samples
getFilePath() - Method in class org.fairdatapipeline.api.Data_product_read
getSample() - Method in interface org.fairdatapipeline.distribution.Distribution
getSamples() - Method in interface org.fairdatapipeline.distribution.Distribution
getSamples() - Method in interface org.fairdatapipeline.estimate.Estimate
getSamples() - Method in interface org.fairdatapipeline.parameters.ReadComponent
getSamples() - Method in interface org.fairdatapipeline.samples.Samples
getScript() - Method in class org.fairdatapipeline.api.Coderun: Access the Submission_script; in order to raise a Submission_script issue.

H

Hasher - Class in org.fairdatapipeline.hash: Create the hash for a given file.
Hasher() - Constructor for class org.fairdatapipeline.hash.Hasher

I

IllegalActionException - Exception in org.fairdatapipeline.api: The consumer is probably trying to do something they aren't supposed to be doing.
IllegalActionException(String) - Constructor for exception org.fairdatapipeline.api.IllegalActionException: Constructor
IllegalActionException(String, Exception) - Constructor for exception org.fairdatapipeline.api.IllegalActionException: Constructor
internalLoc() - Method in interface org.fairdatapipeline.distribution.Distribution
internalScale() - Method in interface org.fairdatapipeline.distribution.Distribution
internalShape() - Method in interface org.fairdatapipeline.distribution.Distribution
internalType() - Method in interface org.fairdatapipeline.distribution.Distribution
internalValue() - Method in interface org.fairdatapipeline.estimate.Estimate
isLowerInclusive() - Method in interface org.fairdatapipeline.distribution.MinMax
isOpen() - Method in class org.fairdatapipeline.file.CleanableFileChannel
isPublic() - Method in interface org.fairdatapipeline.config.Config.ConfigItem: This is ignored.
isPublic() - Method in interface org.fairdatapipeline.config.Config.ConfigRunMetadata: This is ignored.
Issue - Class in org.fairdatapipeline.api: An issue that can be raised with objects or their components.
isUpperInclusive() - Method in interface org.fairdatapipeline.distribution.MinMax

L

latest_commit() - Method in interface org.fairdatapipeline.config.Config.ConfigRunMetadata: The commit hash of the remote_repo, in order to store the exact version of the analysis code.
local_data_registry_url() - Method in interface org.fairdatapipeline.config.Config.ConfigRunMetadata: this is usually http://localhost:8000/api/ (optional, but it probably shouldn't be)
local_repo() - Method in interface org.fairdatapipeline.config.Config.ConfigRunMetadata: This is ignored.
lock(long, long, boolean) - Method in class org.fairdatapipeline.file.CleanableFileChannel
lowerBoundary() - Method in interface org.fairdatapipeline.distribution.MinMax
lowerExclusive() - Method in interface org.fairdatapipeline.distribution.MinMax
lowerInclusive() - Method in interface org.fairdatapipeline.distribution.MinMax

M

map(FileChannel.MapMode, long, long) - Method in class org.fairdatapipeline.file.CleanableFileChannel
mean() - Method in interface org.fairdatapipeline.samples.Samples
MinMax - Interface in org.fairdatapipeline.distribution: Used for Distributions.bins
MinMaxDeserializer - Class in org.fairdatapipeline.distribution
MinMaxDeserializer() - Constructor for class org.fairdatapipeline.distribution.MinMaxDeserializer
MinMaxSerializer - Class in org.fairdatapipeline.distribution
MinMaxSerializer() - Constructor for class org.fairdatapipeline.distribution.MinMaxSerializer

N

namespace() - Method in interface org.fairdatapipeline.config.Config.ConfigUseItem: Override the default namespace for this item
NumericalArray - Interface in org.fairdatapipeline.objects
NumericalArrayImpl - Class in org.fairdatapipeline.objects
NumericalArrayImpl(Object[]) - Constructor for class org.fairdatapipeline.objects.NumericalArrayImpl

O

Object_component - Class in org.fairdatapipeline.api: This represents an object_component to read from or write to (or raise issues with) An object_component without a name is the 'whole_object' component.
Object_component_read - Class in org.fairdatapipeline.api: This represents an object_component to read from (or raise issues with) An object_component without a name is the 'whole_object' component.
Object_component_write - Class in org.fairdatapipeline.api: This represents an object_component to write to (or raise issues with) An object_component without a name is the 'whole_object' component.
org.fairdatapipeline.api - package org.fairdatapipeline.api: Java implementation of the FAIR Data Pipeline API
org.fairdatapipeline.config - package org.fairdatapipeline.config: Specification/parser of the Fair Data Pipeline config.yaml; as rewritten by FAIR CLI.
org.fairdatapipeline.distribution - package org.fairdatapipeline.distribution: Use ImmutableDistribution to read/write distributions to/from the FAIR Data Pipeline.
org.fairdatapipeline.estimate - package org.fairdatapipeline.estimate: Use ImmutableEstimate to read/write simple number parameters to/from the FAIR Data Pipeline.
org.fairdatapipeline.file - package org.fairdatapipeline.file: Helpers relating to files.
org.fairdatapipeline.hash - package org.fairdatapipeline.hash: Create SHA1 hash for files.
org.fairdatapipeline.mapper - package org.fairdatapipeline.mapper: Object Mapper for FAIR Data Pipeline TOML parameters.
org.fairdatapipeline.objects - package org.fairdatapipeline.objects: Arrays and tables for H5 files; not quite implemented yet.
org.fairdatapipeline.parameters - package org.fairdatapipeline.parameters: reader/writer for FAIR Data Pipeline TOML parameters.
org.fairdatapipeline.samples - package org.fairdatapipeline.samples: Use ImmutableSamples to read/write Samples (lists of Numbers) to/from the FAIR Data Pipeline.
org.fairdatapipeline.toml - package org.fairdatapipeline.toml: This implements the toml files that can be used to store Samples, Estimates, Distributions.
org.fairdatapipeline.yaml - package org.fairdatapipeline.yaml: YAML reader to read the config file.

P

ParameterDataReader - Interface in org.fairdatapipeline.parameters
ParameterDataReaderImpl - Class in org.fairdatapipeline.parameters
ParameterDataReaderImpl(TomlReader) - Constructor for class org.fairdatapipeline.parameters.ParameterDataReaderImpl
ParameterDataWriter - Interface in org.fairdatapipeline.parameters
ParameterDataWriterImpl - Class in org.fairdatapipeline.parameters
ParameterDataWriterImpl(TomlWriter) - Constructor for class org.fairdatapipeline.parameters.ParameterDataWriterImpl
populate_component() - Method in class org.fairdatapipeline.api.Object_component_read
populate_component() - Method in class org.fairdatapipeline.api.Object_component_write
position() - Method in class org.fairdatapipeline.file.CleanableFileChannel
position(long) - Method in class org.fairdatapipeline.file.CleanableFileChannel

R

raise_issue(String, Integer) - Method in class org.fairdatapipeline.api.Coderun: create an Issue that can be linked to a number of object components and/or fileObjects.
raise_issue(String, Integer) - Method in class org.fairdatapipeline.api.FileObject: raise an issue with this component
raise_issue(String, Integer) - Method in class org.fairdatapipeline.api.Object_component: raise an issue with this component
RandomGeneratorDeserializer - Class in org.fairdatapipeline.parameters
RandomGeneratorDeserializer(RandomGenerator) - Constructor for class org.fairdatapipeline.parameters.RandomGeneratorDeserializer
RandomGeneratorSerializer - Class in org.fairdatapipeline.parameters
RandomGeneratorSerializer() - Constructor for class org.fairdatapipeline.parameters.RandomGeneratorSerializer
read(Reader, TypeReference<T>) - Method in class org.fairdatapipeline.toml.TomlReader
read(Reader, TypeReference<T>) - Method in interface org.fairdatapipeline.yaml.YamlReader
read(String) - Method in class org.fairdatapipeline.file.FileReader
read(ByteBuffer) - Method in class org.fairdatapipeline.file.CleanableFileChannel
read(ByteBuffer[]) - Method in class org.fairdatapipeline.file.CleanableFileChannel
read(ByteBuffer[], int, int) - Method in class org.fairdatapipeline.file.CleanableFileChannel
read(ByteBuffer, long) - Method in class org.fairdatapipeline.file.CleanableFileChannel
read(CleanableFileChannel, String) - Method in interface org.fairdatapipeline.objects.StandardArrayDataReader
read(CleanableFileChannel, String) - Method in interface org.fairdatapipeline.parameters.ParameterDataReader
read(CleanableFileChannel, String) - Method in class org.fairdatapipeline.parameters.ParameterDataReaderImpl
ReadComponent - Interface in org.fairdatapipeline.parameters
readDistribution() - Method in class org.fairdatapipeline.api.Object_component_read: read the Distribution that was stored as this component in a TOML file.
readEstimate() - Method in class org.fairdatapipeline.api.Object_component_read: read the Estimate that was stored as this component in a TOML file.
readFileChannel() - Method in class org.fairdatapipeline.api.Object_component_read: get the CleanableFileChannel to read directly from the file.
readItems() - Method in interface org.fairdatapipeline.config.Config: The config file MAY contain the read section to specify the read data products
readLink() - Method in class org.fairdatapipeline.api.Object_component_read: get the filePath to read from; only for whole_object component
readSamples() - Method in class org.fairdatapipeline.api.Object_component_read: read the Samples that were stored as this component in a TOML file.
readTable(CleanableFileChannel, String) - Method in interface org.fairdatapipeline.objects.StandardTableDataReader
RegistryException - Exception in org.fairdatapipeline.api: Failure to create an Object in the registry.
RegistryException(String) - Constructor for exception org.fairdatapipeline.api.RegistryException: Constructor
RegistryException(String, Exception) - Constructor for exception org.fairdatapipeline.api.RegistryException: Constructor
RegistryObjectNotfoundException - Exception in org.fairdatapipeline.api: Failure to retrieve an expected object from the registry.
RegistryObjectNotfoundException(String) - Constructor for exception org.fairdatapipeline.api.RegistryObjectNotfoundException: Constructor
RegistryObjectNotfoundException(String, Exception) - Constructor for exception org.fairdatapipeline.api.RegistryObjectNotfoundException: Constructor
remote_data_registry_url() - Method in interface org.fairdatapipeline.config.Config.ConfigRunMetadata: I don't know why we would specify this.
remote_repo() - Method in interface org.fairdatapipeline.config.Config.ConfigRunMetadata: This is the location of the repository of the analysis code.
rng() - Method in interface org.fairdatapipeline.parameters.Component
run_metadata() - Method in interface org.fairdatapipeline.config.Config: The config file MUST contain a run_metadata section to specify the coderun details

S

sample(List<Number>) - Method in class org.fairdatapipeline.samples.Sampler
sampleFrom(List<Number>) - Static method in class org.fairdatapipeline.samples.Sampler
Sampler - Class in org.fairdatapipeline.samples
Sampler(Random) - Constructor for class org.fairdatapipeline.samples.Sampler
samples() - Method in interface org.fairdatapipeline.samples.Samples
Samples - Interface in org.fairdatapipeline.samples
script() - Method in interface org.fairdatapipeline.config.Config.ConfigRunMetadata: This is ignored.
script_path() - Method in interface org.fairdatapipeline.config.Config.ConfigRunMetadata: you can give the path to the submission script (to be stored in the code run) here, or in Coderun(Path, Path) FileApi constructor.
serialize(RandomGenerator, JsonGenerator, SerializerProvider) - Method in class org.fairdatapipeline.parameters.RandomGeneratorSerializer
serialize(MinMax, JsonGenerator, SerializerProvider) - Method in class org.fairdatapipeline.distribution.MinMaxSerializer
serialize(Components, JsonGenerator, SerializerProvider) - Method in class org.fairdatapipeline.parameters.ComponentsSerializer
size() - Method in class org.fairdatapipeline.file.CleanableFileChannel
StandardArrayDataReader - Interface in org.fairdatapipeline.objects
StandardTable - Interface in org.fairdatapipeline.objects
StandardTableDataReader - Interface in org.fairdatapipeline.objects

T

token() - Method in interface org.fairdatapipeline.config.Config.ConfigRunMetadata: The authentication token for the registry.
TOMLMapper - Class in org.fairdatapipeline.toml
TOMLMapper(RandomGenerator) - Constructor for class org.fairdatapipeline.toml.TOMLMapper
TomlReader - Class in org.fairdatapipeline.toml
TomlReader(TOMLMapper) - Constructor for class org.fairdatapipeline.toml.TomlReader
TomlWriter - Class in org.fairdatapipeline.toml
TomlWriter(TOMLMapper) - Constructor for class org.fairdatapipeline.toml.TomlWriter
transferFrom(ReadableByteChannel, long, long) - Method in class org.fairdatapipeline.file.CleanableFileChannel
transferTo(long, long, WritableByteChannel) - Method in class org.fairdatapipeline.file.CleanableFileChannel
truncate(long) - Method in class org.fairdatapipeline.file.CleanableFileChannel
tryLock(long, long, boolean) - Method in class org.fairdatapipeline.file.CleanableFileChannel

U

underlyingDistribution() - Method in interface org.fairdatapipeline.distribution.Distribution
uniform - org.fairdatapipeline.distribution.Distribution.DistributionType
upperBoundary() - Method in interface org.fairdatapipeline.distribution.MinMax
upperExclusive() - Method in interface org.fairdatapipeline.distribution.MinMax
upperInclusive() - Method in interface org.fairdatapipeline.distribution.MinMax
use() - Method in interface org.fairdatapipeline.config.Config.ConfigItem: Config (read or write) items MUST have a use section, which MUST specify a version.

V

valueOf(String) - Static method in enum org.fairdatapipeline.distribution.Distribution.DistributionType: Returns the enum constant of this type with the specified name.
values() - Static method in enum org.fairdatapipeline.distribution.Distribution.DistributionType: Returns an array containing the constants of this enum type, in the order they are declared.
version() - Method in interface org.fairdatapipeline.config.Config.ConfigUseItem: Set the version for this item

W

weights() - Method in interface org.fairdatapipeline.distribution.Distribution
write(Writer, T) - Method in class org.fairdatapipeline.toml.TomlWriter
write(Writer, T) - Method in class org.fairdatapipeline.yaml.BaseYamlWriter
write(Writer, T) - Method in interface org.fairdatapipeline.yaml.YamlWriter
write(ByteBuffer) - Method in class org.fairdatapipeline.file.CleanableFileChannel
write(ByteBuffer[]) - Method in class org.fairdatapipeline.file.CleanableFileChannel
write(ByteBuffer[], int, int) - Method in class org.fairdatapipeline.file.CleanableFileChannel
write(ByteBuffer, long) - Method in class org.fairdatapipeline.file.CleanableFileChannel
write(CleanableFileChannel, String, Component) - Method in interface org.fairdatapipeline.parameters.ParameterDataWriter
write(CleanableFileChannel, String, Component) - Method in class org.fairdatapipeline.parameters.ParameterDataWriterImpl
write_data_store() - Method in interface org.fairdatapipeline.config.Config.ConfigRunMetadata: The file system root of the local data store for new write objects.
WriteComponent - Interface in org.fairdatapipeline.parameters
writeDistribution(Distribution) - Method in class org.fairdatapipeline.api.Object_component_write: write a Distribution, as this named component in the data product.
writeEstimate(Number) - Method in class org.fairdatapipeline.api.Object_component_write: write a Number as an Estimate, as this named component in the data product.
writeFileChannel() - Method in class org.fairdatapipeline.api.Object_component_write: get the CleanableFileChannel to write directly to the file.
writeItems() - Method in interface org.fairdatapipeline.config.Config: The config file MAY contain the write section to specify the write data products
writeLink() - Method in class org.fairdatapipeline.api.Object_component_write: get the filePath to write; only for whole_object component
writeSamples(Samples) - Method in class org.fairdatapipeline.api.Object_component_write: write Samples, as this named component in the data product.

Y

YamlFactory - Class in org.fairdatapipeline.yaml
YamlFactory() - Constructor for class org.fairdatapipeline.yaml.YamlFactory
yamlReader() - Method in class org.fairdatapipeline.yaml.YamlFactory
YamlReader - Interface in org.fairdatapipeline.yaml
yamlWriter() - Method in class org.fairdatapipeline.yaml.YamlFactory
YamlWriter - Interface in org.fairdatapipeline.yaml

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