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public interface ArrayGroup
An array package is a physical platform that contains one or more arrays that are separately addressable (e.g. several arrays that can be hybridized on a single microscope slide) or a virtual grouping together of arrays. The array package that has been manufactured has information about where certain artifacts about the array are located for scanning and feature extraction purposes.
| Method Summary | |
|---|---|
Array[] |
getArrays()
Returns the value of this ArrayGroup object's arrays attribute. |
java.lang.Float |
getArraySpacingX()
Returns the value of this ArrayGroup object's arraySpacingX attribute. |
java.lang.Float |
getArraySpacingY()
Returns the value of this ArrayGroup object's arraySpacingY attribute. |
java.lang.String |
getBarcode()
Returns the value of this ArrayGroup object's barcode attribute. |
DistanceUnit |
getDistanceUnit()
Returns the value of this ArrayGroup object's distanceUnit attribute. |
Fiducial[] |
getFiducials()
Returns the value of this ArrayGroup object's fiducials attribute. |
java.lang.Float |
getLength()
Returns the value of this ArrayGroup object's length attribute. |
java.lang.Integer |
getNumArrays()
Returns the value of this ArrayGroup object's numArrays attribute. |
java.lang.String |
getOrientationMark()
Returns the value of this ArrayGroup object's orientationMark attribute. |
java.lang.String |
getOrientationMarkPosition()
Returns the value of this ArrayGroup object's orientationMarkPosition attribute. |
OntologyEntry |
getSubstrateType()
Returns the value of this ArrayGroup object's substrateType attribute. |
java.lang.Float |
getWidth()
Returns the value of this ArrayGroup object's width attribute. |
void |
setArrays(Array[] p_arrays)
Sets the arrays attribute. |
void |
setArraySpacingX(java.lang.Float p_arraySpacingX)
Sets the arraySpacingX attribute. |
void |
setArraySpacingY(java.lang.Float p_arraySpacingY)
Sets the arraySpacingY attribute. |
void |
setBarcode(java.lang.String p_barcode)
Sets the barcode attribute. |
void |
setDistanceUnit(DistanceUnit p_distanceUnit)
Sets the distanceUnit attribute. |
void |
setFiducials(Fiducial[] p_fiducials)
Sets the fiducials attribute. |
void |
setLength(java.lang.Float p_length)
Sets the length attribute. |
void |
setNumArrays(java.lang.Integer p_numArrays)
Sets the numArrays attribute. |
void |
setOrientationMark(java.lang.String p_orientationMark)
Sets the orientationMark attribute. |
void |
setOrientationMarkPosition(java.lang.String p_orientationMarkPosition)
Sets the orientationMarkPosition attribute. |
void |
setSubstrateType(OntologyEntry p_substrateType)
Sets the substrateType attribute. |
void |
setWidth(java.lang.Float p_width)
Sets the width attribute. |
| Methods inherited from interface gov.nih.nci.mageom.domain.Identifiable |
|---|
getIdentifier, getName, setIdentifier, setName |
| Methods inherited from interface gov.nih.nci.mageom.domain.Describable |
|---|
getAuditTrail, getDescriptions, getSecurity, setAuditTrail, setDescriptions, setSecurity |
| Methods inherited from interface gov.nih.nci.mageom.domain.Extendable |
|---|
getPropertySets, setPropertySets |
| Method Detail |
|---|
void setBarcode(java.lang.String p_barcode)
ArrayGroup object.
p_barcode - The new value for barcode.getBarcode()java.lang.String getBarcode()
ArrayGroup object's barcode attribute.
Description of barcode:
Identifier for the ArrayGroup.
String The value of barcode.void setArraySpacingX(java.lang.Float p_arraySpacingX)
ArrayGroup object.
p_arraySpacingX - The new value for arraySpacingX.getArraySpacingX()java.lang.Float getArraySpacingX()
ArrayGroup object's arraySpacingX attribute.
Description of arraySpacingX:
If there exist more than one array on a slide or a chip, then the spacing between the arrays is useful
so that scanning / feature extraction software can crop images representing 1 unique bioassay.
float The value of arraySpacingX.void setArraySpacingY(java.lang.Float p_arraySpacingY)
ArrayGroup object.
p_arraySpacingY - The new value for arraySpacingY.getArraySpacingY()java.lang.Float getArraySpacingY()
ArrayGroup object's arraySpacingY attribute.
Description of arraySpacingY:
If there exist more than one array on a slide or a chip, then the spacing between the arrays is useful
so that scanning / feature extraction software can crop images representing 1 unique bioassay.
float The value of arraySpacingY.void setNumArrays(java.lang.Integer p_numArrays)
ArrayGroup object.
p_numArrays - The new value for numArrays.getNumArrays()java.lang.Integer getNumArrays()
ArrayGroup object's numArrays attribute.
Description of numArrays:
This attribute defines the number of arrays on a chip or a slide.
int The value of numArrays.void setOrientationMark(java.lang.String p_orientationMark)
ArrayGroup object.
p_orientationMark - The new value for orientationMark.getOrientationMark()java.lang.String getOrientationMark()
ArrayGroup object's orientationMark attribute.
Description of orientationMark:
For a human to determine where the top left side of the array is, such as a barcode or frosted side of
the glass, etc.
String The value of orientationMark.void setOrientationMarkPosition(java.lang.String p_orientationMarkPosition)
ArrayGroup object.
p_orientationMarkPosition - The new value for orientationMarkPosition.getOrientationMarkPosition()java.lang.String getOrientationMarkPosition()
ArrayGroup object's orientationMarkPosition attribute.
Description of orientationMarkPosition:
One of top, bottom, left or right.
enum {top,bottom,left,right} The value of orientationMarkPosition.void setWidth(java.lang.Float p_width)
ArrayGroup object.
p_width - The new value for width.getWidth()java.lang.Float getWidth()
ArrayGroup object's width attribute.
Description of width:
The width of the platform
float The value of width.void setLength(java.lang.Float p_length)
ArrayGroup object.
p_length - The new value for length.getLength()java.lang.Float getLength()
ArrayGroup object's length attribute.
Description of length:
The length of the platform.
float The value of length.void setArrays(Array[] p_arrays)
ArrayGroup object.
p_arrays - The new value for arrays.getArrays()Array[] getArrays()
ArrayGroup object's arrays attribute.
gov.nih.nci.mageom.bean.Array.Array[] The value of arrays.Arrayvoid setFiducials(Fiducial[] p_fiducials)
ArrayGroup object.
p_fiducials - The new value for fiducials.getFiducials()Fiducial[] getFiducials()
ArrayGroup object's fiducials attribute.
gov.nih.nci.mageom.bean.Array.Fiducial[] The value of fiducials.Fiducialvoid setDistanceUnit(DistanceUnit p_distanceUnit)
ArrayGroup object.
p_distanceUnit - The new value for distanceUnit.getDistanceUnit()DistanceUnit getDistanceUnit()
ArrayGroup object's distanceUnit attribute.
gov.nih.nci.mageom.bean.Measurement.DistanceUnit The value of distanceUnit.DistanceUnitvoid setSubstrateType(OntologyEntry p_substrateType)
ArrayGroup object.
p_substrateType - The new value for substrateType.getSubstrateType()OntologyEntry getSubstrateType()
ArrayGroup object's substrateType attribute.
gov.nih.nci.mageom.bean.Description.OntologyEntry The value of substrateType.OntologyEntry
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