com.inscoper.nbo.Channel¶

Represents the XML element Channel. More...

Inherits from com.inscoper.nbo.NBOBaseClass

Public Functions¶

	Name
synchronized void	delete()
	Channel()
String	getTypeName() Returns the class type name.
String	getXMLName() Returns the XML element name corresponding to this class.
ENBOType	getNBOType() Returns the NBO Type corresponding to this class.
NBOBaseClassVector	getChildren() Returns a list of all classes derived from this class.
NBOBaseClassVector	getSubElements() Returns a list of all child elements contained in this class.
void	fromJsonFile(String path, boolean validate) Populates this object from a JSON file.
void	fromJsonFile(String path) Populates this object from a JSON file.
void	fromJsonString(String json_string, boolean validate) Populates this object from a JSON string.
void	fromJsonString(String json_string) Populates this object from a JSON string.
void	fromXmlFile(String path, boolean validate) Populates this object from a XML file.
void	fromXmlFile(String path) Populates this object from a XML file.
void	fromXmlString(String xml_string, boolean validate) Populates this object from a XML string.
void	fromXmlString(String xml_string) Populates this object from a XML string.
void	toXmlFile(String filename, boolean validate) Serializes this object to an XML file.
void	toXmlFile(String filename) Serializes this object to an XML file.
String	toXmlString(boolean validate) Serializes this object to an XML string.
String	toXmlString() Serializes this object to an XML string.
void	setID(ChannelID_Type value, boolean validate) Sets the value of the ID attribute.
void	setID(ChannelID_Type value) Sets the value of the ID attribute.
ChannelID_Type	getID() Returns the value of the ID attribute.
void	resetID() Resets the ID attribute to an unset state.
boolean	hasID() Checks whether the optional ID attribute is present.
void	setName(Denomination_Type value, boolean validate) Sets the value of the Name attribute.
void	setName(Denomination_Type value) Sets the value of the Name attribute.
Denomination_Type	getName() Returns the value of the Name attribute.
void	resetName() Resets the Name attribute to an unset state.
boolean	hasName() Checks whether the optional Name attribute is present.
void	setIlluminationType(ImagingMethodList_Type value, boolean validate) Sets the value of the IlluminationType attribute.
void	setIlluminationType(ImagingMethodList_Type value) Sets the value of the IlluminationType attribute.
ImagingMethodList_Type	getIlluminationType() Returns the value of the IlluminationType attribute.
void	resetIlluminationType() Resets the IlluminationType attribute to an unset state.
boolean	hasIlluminationType() Checks whether the optional IlluminationType attribute is present.
void	setIlluminationTypeTermAcession(String value, boolean validate) Sets the value of the IlluminationTypeTermAcession attribute.
void	setIlluminationTypeTermAcession(String value) Sets the value of the IlluminationTypeTermAcession attribute.
String	getIlluminationTypeTermAcession() Returns the value of the IlluminationTypeTermAcession attribute.
void	resetIlluminationTypeTermAcession() Resets the IlluminationTypeTermAcession attribute to an unset state.
boolean	hasIlluminationTypeTermAcession() Checks whether the IlluminationTypeTermAcession attribute is present.
void	setContrastMethod(ChannelContrastMethod_Type value, boolean validate) Sets the value of the ContrastMethod attribute.
void	setContrastMethod(ChannelContrastMethod_Type value) Sets the value of the ContrastMethod attribute.
ChannelContrastMethod_Type	getContrastMethod() Returns the value of the ContrastMethod attribute.
void	resetContrastMethod() Resets the ContrastMethod attribute to an unset state.
boolean	hasContrastMethod() Checks whether the optional ContrastMethod attribute is present.
void	setColor(Color_Type value, boolean validate) Sets the value of the Color attribute.
void	setColor(Color_Type value) Sets the value of the Color attribute.
Color_Type	getColor() Returns the value of the Color attribute.
void	resetColor() Resets the Color attribute to an unset state.
boolean	hasColor() Checks whether the optional Color attribute is present.
void	setSamplesPerPixel(PositiveInt_Type value, boolean validate) Sets the value of the SamplesPerPixel attribute.
void	setSamplesPerPixel(PositiveInt_Type value) Sets the value of the SamplesPerPixel attribute.
PositiveInt_Type	getSamplesPerPixel() Returns the value of the SamplesPerPixel attribute.
void	resetSamplesPerPixel() Resets the SamplesPerPixel attribute to an unset state.
boolean	hasSamplesPerPixel() Checks whether the optional SamplesPerPixel attribute is present.
void	setFluorophore_List(FluorophoreVector value, boolean validate) Sets the list of Fluorophore elements.
void	setFluorophore_List(FluorophoreVector value) Sets the list of Fluorophore elements.
FluorophoreVector	getFluorophore_List() Returns the list of Fluorophore elements.
void	addToFluorophore_List(Fluorophore value, boolean validate) Adds a new Fluorophore element to this object.
void	addToFluorophore_List(Fluorophore value) Adds a new Fluorophore element to this object.
void	clearFluorophore_List() Clear the list of Fluorophore.
void	setLightPath(LightPath value, boolean validate) Sets the value of the LightPath element.
void	setLightPath(LightPath value) Sets the value of the LightPath element.
LightPath	getLightPath() Returns the value of the LightPath element.
void	resetLightPath() Resets the LightPath element to an unset state.
boolean	hasLightPath() Checks whether the optional LightPath element is present.
void	setExcitationCalibration_List(ExcitationCalibrationVector value, boolean validate) Sets the list of ExcitationCalibration elements.
void	setExcitationCalibration_List(ExcitationCalibrationVector value) Sets the list of ExcitationCalibration elements.
ExcitationCalibrationVector	getExcitationCalibration_List() Returns the list of ExcitationCalibration elements.
void	addToExcitationCalibration_List(ExcitationCalibration value, boolean validate) Adds a new ExcitationCalibration element to this object.
void	addToExcitationCalibration_List(ExcitationCalibration value) Adds a new ExcitationCalibration element to this object.
void	clearExcitationCalibration_List() Clear the list of ExcitationCalibration.
void	setAnnotationRef(AnnotationRef value, boolean validate) Sets the value of the AnnotationRef element.
void	setAnnotationRef(AnnotationRef value) Sets the value of the AnnotationRef element.
AnnotationRef	getAnnotationRef() Returns the value of the AnnotationRef element.
void	resetAnnotationRef() Resets the AnnotationRef element to an unset state.
boolean	hasAnnotationRef() Checks whether the optional AnnotationRef element is present.
Channel	__internal_create(long cPtr, boolean own)
Channel	fromBase(NBOBaseClass base) Cast a NBOBaseClass to a Channel.
StringSet	getIlluminationTypeTermAcessionAllowedValues() Returns the allowed values for this attribut.

Protected Functions¶

	Name
	Channel(long cPtr, boolean cMemoryOwn)
void	swigSetCMemOwn(boolean own)
void	finalize()
long	getCPtr(Channel obj)

Additional inherited members¶

Protected Functions inherited from com.inscoper.nbo.NBOBaseClass

	Name
	NBOBaseClass(long cPtr, boolean cMemoryOwn)

Detailed Description¶

public class com.inscoper.nbo.Channel;

Represents the XML element Channel.

Each Image has to have at least one Plane and one Channel. The Channel element stores information about how the each Image Channel was acquired. The total number of Channel elements for a given Image must equal to SizeC.

Public Functions Documentation¶

function delete¶

function Channel¶

function getTypeName¶

function getXMLName¶

function getNBOType¶

function getChildren¶

function getSubElements¶

public NBOBaseClassVector getSubElements()

Returns a list of all child elements contained in this class.

Return: The list of child classes

Reimplements: com.inscoper.nbo.NBOBaseClass.getSubElements

function fromJsonFile¶

public void fromJsonFile(
    String path,
    boolean validate
)

Populates this object from a JSON file.

Parameters:

path The path to the JSON file
validate If true, validates constraints on value. Default is true.

function fromJsonFile¶

function fromJsonString¶

public void fromJsonString(
    String json_string,
    boolean validate
)

Populates this object from a JSON string.

Parameters:

json_string The JSON content as a string
validate If true, validates constraints on value. Default is true.

function fromJsonString¶

function fromXmlFile¶

public void fromXmlFile(
    String path,
    boolean validate
)

Populates this object from a XML file.

Parameters:

path The path to the XML file
validate If true, validates constraints on value. Default is true.

function fromXmlFile¶

function fromXmlString¶

public void fromXmlString(
    String xml_string,
    boolean validate
)

Populates this object from a XML string.

Parameters:

xml_string The XML content as a string
validate If true, validates constraints on value. Default is true.

function fromXmlString¶

function toXmlFile¶

public void toXmlFile(
    String filename,
    boolean validate
)

Serializes this object to an XML file.

Parameters:

filename The path to the output XML file
validate If true, validates constraints on value. Default is true.

function toXmlFile¶

function toXmlString¶

public String toXmlString(
    boolean validate
)

Serializes this object to an XML string.

Parameters:

validate If true, validates constraints on value. Default is true.

Return: A string containing the XML representation of this object

function toXmlString¶

function setID¶

public void setID(
    ChannelID_Type value,
    boolean validate
)

Sets the value of the ID attribute.

Parameters:

value The value to set
validate If true, validates constraints on value. Default is true.

A unique identifier for this Channel.

function setID¶

function getID¶

function resetID¶

function hasID¶

function setName¶

public void setName(
    Denomination_Type value,
    boolean validate
)

Sets the value of the Name attribute.

Parameters:

value The value to set
validate If true, validates constraints on value. Default is true.

A Name for this Channel that is suitable for presentation to the user.

function setName¶

public void setName(
    Denomination_Type value
)

Sets the value of the Name attribute.

Parameters:

value The value to set

A Name for this Channel that is suitable for presentation to the user.

function getName¶

function resetName¶

function hasName¶

public boolean hasName()

Checks whether the optional Name attribute is present.

Return: true if the optional attribute has been set, false otherwise

A Name for this Channel that is suitable for presentation to the user.

function setIlluminationType¶

public void setIlluminationType(
    ImagingMethodList_Type value,
    boolean validate
)

Sets the value of the IlluminationType attribute.

Parameters:

value The value to set
validate If true, validates constraints on value. Default is true.

This field describes the Light Microscopy Illumination method performed in this case. Allowable terms were obtained from the Biological Imaging Methods Ontology (Fbbi; https://www.ebi.ac.uk/ols/ontologies/fbbi) Light Microscopy term (http://purl.obolibrary.org/obo/FBbi_00000345).

function setIlluminationType¶

public void setIlluminationType(
    ImagingMethodList_Type value
)

Sets the value of the IlluminationType attribute.

Parameters:

value The value to set

This field describes the Light Microscopy Illumination method performed in this case. Allowable terms were obtained from the Biological Imaging Methods Ontology (Fbbi; https://www.ebi.ac.uk/ols/ontologies/fbbi) Light Microscopy term (http://purl.obolibrary.org/obo/FBbi_00000345).

function getIlluminationType¶

public ImagingMethodList_Type getIlluminationType()

Returns the value of the IlluminationType attribute.

Return: The value of the attribute

This field describes the Light Microscopy Illumination method performed in this case. Allowable terms were obtained from the Biological Imaging Methods Ontology (Fbbi; https://www.ebi.ac.uk/ols/ontologies/fbbi) Light Microscopy term (http://purl.obolibrary.org/obo/FBbi_00000345).

function resetIlluminationType¶

public void resetIlluminationType()

Resets the IlluminationType attribute to an unset state.

This field describes the Light Microscopy Illumination method performed in this case. Allowable terms were obtained from the Biological Imaging Methods Ontology (Fbbi; https://www.ebi.ac.uk/ols/ontologies/fbbi) Light Microscopy term (http://purl.obolibrary.org/obo/FBbi_00000345).

function hasIlluminationType¶

public boolean hasIlluminationType()

Checks whether the optional IlluminationType attribute is present.

Return: true if the optional attribute has been set, false otherwise

This field describes the Light Microscopy Illumination method performed in this case. Allowable terms were obtained from the Biological Imaging Methods Ontology (Fbbi; https://www.ebi.ac.uk/ols/ontologies/fbbi) Light Microscopy term (http://purl.obolibrary.org/obo/FBbi_00000345).

function setIlluminationTypeTermAcession¶

public void setIlluminationTypeTermAcession(
    String value,
    boolean validate
)

Sets the value of the IlluminationTypeTermAcession attribute.

Parameters:

value The value to set
validate If true, validates constraints on value. Default is true.

This field records the Accession ID for the term used to describe the Illumination Type. A sub-classes of Light Microscopy term (http://purl.obolibrary.org/obo/FBbi_00000345) is recommended.

function setIlluminationTypeTermAcession¶

public void setIlluminationTypeTermAcession(
    String value
)

Sets the value of the IlluminationTypeTermAcession attribute.

Parameters:

value The value to set

This field records the Accession ID for the term used to describe the Illumination Type. A sub-classes of Light Microscopy term (http://purl.obolibrary.org/obo/FBbi_00000345) is recommended.

function getIlluminationTypeTermAcession¶

public String getIlluminationTypeTermAcession()

Returns the value of the IlluminationTypeTermAcession attribute.

Return: The value of the attribute

This field records the Accession ID for the term used to describe the Illumination Type. A sub-classes of Light Microscopy term (http://purl.obolibrary.org/obo/FBbi_00000345) is recommended.

function resetIlluminationTypeTermAcession¶

public void resetIlluminationTypeTermAcession()

Resets the IlluminationTypeTermAcession attribute to an unset state.

This field records the Accession ID for the term used to describe the Illumination Type. A sub-classes of Light Microscopy term (http://purl.obolibrary.org/obo/FBbi_00000345) is recommended.

function hasIlluminationTypeTermAcession¶

public boolean hasIlluminationTypeTermAcession()

Checks whether the IlluminationTypeTermAcession attribute is present.

Return: true if the attribute has been set, false otherwise

This field records the Accession ID for the term used to describe the Illumination Type. A sub-classes of Light Microscopy term (http://purl.obolibrary.org/obo/FBbi_00000345) is recommended.

function setContrastMethod¶

public void setContrastMethod(
    ChannelContrastMethod_Type value,
    boolean validate
)

Sets the value of the ContrastMethod attribute.

Parameters:

value The value to set
validate If true, validates constraints on value. Default is true.

This field describes the technique used to achieve contrast for this Channel.

function setContrastMethod¶

public void setContrastMethod(
    ChannelContrastMethod_Type value
)

Sets the value of the ContrastMethod attribute.

Parameters:

value The value to set

This field describes the technique used to achieve contrast for this Channel.

function getContrastMethod¶

public ChannelContrastMethod_Type getContrastMethod()

Returns the value of the ContrastMethod attribute.

Return: The value of the attribute

This field describes the technique used to achieve contrast for this Channel.

function resetContrastMethod¶

function hasContrastMethod¶

public boolean hasContrastMethod()

Checks whether the optional ContrastMethod attribute is present.

Return: true if the optional attribute has been set, false otherwise

This field describes the technique used to achieve contrast for this Channel.

function setColor¶

public void setColor(
    Color_Type value,
    boolean validate
)

Sets the value of the Color attribute.

Parameters:

value The value to set
validate If true, validates constraints on value. Default is true.

This field records the Color used to render this Channel - encoded as RGBA. The default value is -1 corresponding #FFFFFFFF, so solid white (it is a signed 32 bit value).

function setColor¶

public void setColor(
    Color_Type value
)

Sets the value of the Color attribute.

Parameters:

value The value to set

This field records the Color used to render this Channel - encoded as RGBA. The default value is -1 corresponding #FFFFFFFF, so solid white (it is a signed 32 bit value).

function getColor¶

public Color_Type getColor()

Returns the value of the Color attribute.

Return: The value of the attribute

This field records the Color used to render this Channel - encoded as RGBA. The default value is -1 corresponding #FFFFFFFF, so solid white (it is a signed 32 bit value).

function resetColor¶

public void resetColor()

Resets the Color attribute to an unset state.

This field records the Color used to render this Channel - encoded as RGBA. The default value is -1 corresponding #FFFFFFFF, so solid white (it is a signed 32 bit value).

function hasColor¶

public boolean hasColor()

Checks whether the optional Color attribute is present.

Return: true if the optional attribute has been set, false otherwise

This field records the Color used to render this Channel - encoded as RGBA. The default value is -1 corresponding #FFFFFFFF, so solid white (it is a signed 32 bit value).

function setSamplesPerPixel¶

public void setSamplesPerPixel(
    PositiveInt_Type value,
    boolean validate
)

Sets the value of the SamplesPerPixel attribute.

Parameters:

value The value to set
validate If true, validates constraints on value. Default is true.

This field is prevalently used for RGB Images and records the number of samples the detector takes to form each pixel value. [units:none]

function setSamplesPerPixel¶

public void setSamplesPerPixel(
    PositiveInt_Type value
)

Sets the value of the SamplesPerPixel attribute.

Parameters:

value The value to set

This field is prevalently used for RGB Images and records the number of samples the detector takes to form each pixel value. [units:none]

function getSamplesPerPixel¶

public PositiveInt_Type getSamplesPerPixel()

Returns the value of the SamplesPerPixel attribute.

Return: The value of the attribute

This field is prevalently used for RGB Images and records the number of samples the detector takes to form each pixel value. [units:none]

function resetSamplesPerPixel¶

public void resetSamplesPerPixel()

Resets the SamplesPerPixel attribute to an unset state.

This field is prevalently used for RGB Images and records the number of samples the detector takes to form each pixel value. [units:none]

function hasSamplesPerPixel¶

public boolean hasSamplesPerPixel()

Checks whether the optional SamplesPerPixel attribute is present.

Return: true if the optional attribute has been set, false otherwise

This field is prevalently used for RGB Images and records the number of samples the detector takes to form each pixel value. [units:none]

function setFluorophore_List¶

public void setFluorophore_List(
    FluorophoreVector value,
    boolean validate
)

Sets the list of Fluorophore elements.

Parameters:

value The new list of Fluorophore elements
validate If true, validates constraints on value. Default is true.

No description available in the XSD standard.

function setFluorophore_List¶

public void setFluorophore_List(
    FluorophoreVector value
)

Sets the list of Fluorophore elements.

Parameters:

value The new list of Fluorophore elements

No description available in the XSD standard.

function getFluorophore_List¶

function addToFluorophore_List¶

public void addToFluorophore_List(
    Fluorophore value,
    boolean validate
)

Adds a new Fluorophore element to this object.

Parameters:

value The element to add
validate If true, validates constraints on value. Default is true.

No description available in the XSD standard.

function addToFluorophore_List¶

function clearFluorophore_List¶

function setLightPath¶

public void setLightPath(
    LightPath value,
    boolean validate
)

Sets the value of the LightPath element.

Parameters:

value The value to set
validate If true, validates constraints on value. Default is true.

No description available in the XSD standard.

function setLightPath¶

function getLightPath¶

function resetLightPath¶

function hasLightPath¶

public boolean hasLightPath()

Checks whether the optional LightPath element is present.

Return: true if the optional attribute has been set, false otherwise

No description available in the XSD standard.

function setExcitationCalibration_List¶

public void setExcitationCalibration_List(
    ExcitationCalibrationVector value,
    boolean validate
)

Sets the list of ExcitationCalibration elements.

Parameters:

value The new list of ExcitationCalibration elements
validate If true, validates constraints on value. Default is true.

No description available in the XSD standard.

function setExcitationCalibration_List¶

public void setExcitationCalibration_List(
    ExcitationCalibrationVector value
)

Sets the list of ExcitationCalibration elements.

Parameters:

value The new list of ExcitationCalibration elements

No description available in the XSD standard.

function getExcitationCalibration_List¶

public ExcitationCalibrationVector getExcitationCalibration_List()

Returns the list of ExcitationCalibration elements.

Return: The list of ExcitationCalibration elements

No description available in the XSD standard.

function addToExcitationCalibration_List¶

public void addToExcitationCalibration_List(
    ExcitationCalibration value,
    boolean validate
)

Adds a new ExcitationCalibration element to this object.

Parameters:

value The element to add
validate If true, validates constraints on value. Default is true.

No description available in the XSD standard.

function addToExcitationCalibration_List¶

public void addToExcitationCalibration_List(
    ExcitationCalibration value
)

Adds a new ExcitationCalibration element to this object.

Parameters:

value The element to add

No description available in the XSD standard.

function clearExcitationCalibration_List¶

function setAnnotationRef¶

public void setAnnotationRef(
    AnnotationRef value,
    boolean validate
)

Sets the value of the AnnotationRef element.

Parameters:

value The value to set
validate If true, validates constraints on value. Default is true.

This is a simple multi-line comment or annotation describing this component.

function setAnnotationRef¶

public void setAnnotationRef(
    AnnotationRef value
)

Sets the value of the AnnotationRef element.

Parameters:

value The value to set

This is a simple multi-line comment or annotation describing this component.

function getAnnotationRef¶

public AnnotationRef getAnnotationRef()

Returns the value of the AnnotationRef element.

Return: The value of the element

This is a simple multi-line comment or annotation describing this component.

function resetAnnotationRef¶

function hasAnnotationRef¶

public boolean hasAnnotationRef()

Checks whether the optional AnnotationRef element is present.

Return: true if the optional attribute has been set, false otherwise

This is a simple multi-line comment or annotation describing this component.

function __internal_create¶

function fromBase¶

function getIlluminationTypeTermAcessionAllowedValues¶

public static StringSet getIlluminationTypeTermAcessionAllowedValues()

Returns the allowed values for this attribut.

Return: The list of allowed values

This field records the Accession ID for the term used to describe the Illumination Type. A sub-classes of Light Microscopy term (http://purl.obolibrary.org/obo/FBbi_00000345) is recommended.