Class: FieldIlluminationOutput

URI: microscopemetrics_schema:FieldIlluminationOutput

classDiagram class FieldIlluminationOutput click FieldIlluminationOutput href "../FieldIlluminationOutput" MetricsOutput <|-- FieldIlluminationOutput click MetricsOutput href "../MetricsOutput" FieldIlluminationOutput : comment FieldIlluminationOutput --> "0..1" Comment : comment click Comment href "../Comment" FieldIlluminationOutput : errors FieldIlluminationOutput : intensity_profiles FieldIlluminationOutput --> "*" Table : intensity_profiles click Table href "../Table" FieldIlluminationOutput : key_measurements FieldIlluminationOutput --> "0..1" FieldIlluminationKeyMeasurements : key_measurements click FieldIlluminationKeyMeasurements href "../FieldIlluminationKeyMeasurements" FieldIlluminationOutput : processing_application FieldIlluminationOutput : processing_datetime FieldIlluminationOutput : processing_entity FieldIlluminationOutput : processing_log FieldIlluminationOutput : processing_version FieldIlluminationOutput : roi_center_region FieldIlluminationOutput --> "*" Roi : roi_center_region click Roi href "../Roi" FieldIlluminationOutput : roi_centers_fitted FieldIlluminationOutput --> "*" Roi : roi_centers_fitted click Roi href "../Roi" FieldIlluminationOutput : roi_centers_geometric FieldIlluminationOutput --> "*" Roi : roi_centers_geometric click Roi href "../Roi" FieldIlluminationOutput : roi_centers_max_intensity FieldIlluminationOutput --> "*" Roi : roi_centers_max_intensity click Roi href "../Roi" FieldIlluminationOutput : roi_centers_of_mass FieldIlluminationOutput --> "*" Roi : roi_centers_of_mass click Roi href "../Roi" FieldIlluminationOutput : roi_corners FieldIlluminationOutput --> "*" Roi : roi_corners click Roi href "../Roi" FieldIlluminationOutput : roi_profiles FieldIlluminationOutput --> "*" Roi : roi_profiles click Roi href "../Roi" FieldIlluminationOutput : validated FieldIlluminationOutput : validation_datetime FieldIlluminationOutput : warnings

Inheritance

MetricsOutput
- FieldIlluminationOutput

Slots

Name	Cardinality and Range	Description	Inheritance
key_measurements	0..1 FieldIlluminationKeyMeasurements	Key-Value pairs containing the Key measurements for the field illumination an...	direct
intensity_profiles	* Table	Intensity profiles for the field illumination analysis in the different direc...	direct
roi_profiles	* Roi	line ROIs used to compute the intensity profiles	direct
roi_corners	* Roi	Rectangular ROIs used to compute the corner intensities	direct
roi_centers_of_mass	* Roi	Point ROIs marking the center of mass of the area of maximum illumination	direct
roi_centers_geometric	* Roi	Point ROIs marking the geometric center of the area of maximum illumination	direct
roi_centers_fitted	* Roi	Point ROIs marking the fitted center of the area of maximum illumination	direct
roi_centers_max_intensity	* Roi	Point ROIs marking the maximum intensity of the area of maximum illumination	direct
roi_center_region	* Roi	Mask ROIs marking the area of maximum illumination	direct
comment	0..1 Comment	A human readable comment	MetricsOutput
processing_application	1..* String	The application used to process the dataset	MetricsOutput
processing_version	1..* String	The version of the application used to process the dataset	MetricsOutput
processing_entity	* String	The entity that processed the dataset	MetricsOutput
processing_datetime	1 datetime	The datetime of the processing by microscope-metrics	MetricsOutput
processing_log	0..1 String	The log of the processing by microscope-metrics	MetricsOutput
warnings	* String	The warnings of the processing by microscope-metrics	MetricsOutput
errors	* String	The errors of the processing by microscope-metrics	MetricsOutput
validated	1 Boolean	Has the dataset been validated by a human	MetricsOutput
validation_datetime	0..1 datetime	The datetime of the validation	MetricsOutput

Usages

used by	used in	type	used
FieldIlluminationDataset	output	range	FieldIlluminationOutput

Identifier and Mapping Information

Schema Source

from schema: https://MontpellierRessourcesImagerie.github.io/microscopemetrics-schema

Mappings

Mapping Type	Mapped Value
self	microscopemetrics_schema:FieldIlluminationOutput
native	microscopemetrics_schema:FieldIlluminationOutput

LinkML Source

Direct

name: FieldIlluminationOutput
from_schema: https://MontpellierRessourcesImagerie.github.io/microscopemetrics-schema
is_a: MetricsOutput
attributes:
  key_measurements:
    name: key_measurements
    description: Key-Value pairs containing the Key measurements for the field illumination
      analysis
    from_schema: https://MontpellierRessourcesImagerie.github.io/microscopemetrics-schema/analyses/field_illumination
    domain_of:
    - MetricsOutput
    - FieldIlluminationOutput
    - PSFBeadsOutput
    - LightSourcePowerOutput
    range: FieldIlluminationKeyMeasurements
    multivalued: false
  intensity_profiles:
    name: intensity_profiles
    description: Intensity profiles for the field illumination analysis in the different
      directions
    from_schema: https://MontpellierRessourcesImagerie.github.io/microscopemetrics-schema/analyses/field_illumination
    rank: 1000
    domain_of:
    - FieldIlluminationOutput
    range: Table
    multivalued: true
    inlined: true
    inlined_as_list: true
  roi_profiles:
    name: roi_profiles
    description: line ROIs used to compute the intensity profiles
    from_schema: https://MontpellierRessourcesImagerie.github.io/microscopemetrics-schema/analyses/field_illumination
    rank: 1000
    domain_of:
    - FieldIlluminationOutput
    range: Roi
    multivalued: true
  roi_corners:
    name: roi_corners
    description: Rectangular ROIs used to compute the corner intensities. The sama
      ROI is assigned to multiple images.
    from_schema: https://MontpellierRessourcesImagerie.github.io/microscopemetrics-schema/analyses/field_illumination
    rank: 1000
    domain_of:
    - FieldIlluminationOutput
    range: Roi
    multivalued: true
  roi_centers_of_mass:
    name: roi_centers_of_mass
    description: Point ROIs marking the center of mass of the area of maximum illumination.
      When the image is very flat, the 99 percentile is used instead. One point per
      channel.
    from_schema: https://MontpellierRessourcesImagerie.github.io/microscopemetrics-schema/analyses/field_illumination
    rank: 1000
    domain_of:
    - FieldIlluminationOutput
    range: Roi
    multivalued: true
  roi_centers_geometric:
    name: roi_centers_geometric
    description: Point ROIs marking the geometric center of the area of maximum illumination.
      One point per channel.
    from_schema: https://MontpellierRessourcesImagerie.github.io/microscopemetrics-schema/analyses/field_illumination
    rank: 1000
    domain_of:
    - FieldIlluminationOutput
    range: Roi
    multivalued: true
  roi_centers_fitted:
    name: roi_centers_fitted
    description: Point ROIs marking the fitted center of the area of maximum illumination.
      One point per channel.
    from_schema: https://MontpellierRessourcesImagerie.github.io/microscopemetrics-schema/analyses/field_illumination
    rank: 1000
    domain_of:
    - FieldIlluminationOutput
    range: Roi
    multivalued: true
  roi_centers_max_intensity:
    name: roi_centers_max_intensity
    description: Point ROIs marking the maximum intensity of the area of maximum illumination.
      One point per channel.
    from_schema: https://MontpellierRessourcesImagerie.github.io/microscopemetrics-schema/analyses/field_illumination
    rank: 1000
    domain_of:
    - FieldIlluminationOutput
    range: Roi
    multivalued: true
  roi_center_region:
    name: roi_center_region
    description: Mask ROIs marking the area of maximum illumination. One mask per
      channel.
    from_schema: https://MontpellierRessourcesImagerie.github.io/microscopemetrics-schema/analyses/field_illumination
    rank: 1000
    domain_of:
    - FieldIlluminationOutput
    range: Roi
    multivalued: true

Induced

name: FieldIlluminationOutput
from_schema: https://MontpellierRessourcesImagerie.github.io/microscopemetrics-schema
is_a: MetricsOutput
attributes:
  key_measurements:
    name: key_measurements
    description: Key-Value pairs containing the Key measurements for the field illumination
      analysis
    from_schema: https://MontpellierRessourcesImagerie.github.io/microscopemetrics-schema/analyses/field_illumination
    alias: key_measurements
    owner: FieldIlluminationOutput
    domain_of:
    - MetricsOutput
    - FieldIlluminationOutput
    - PSFBeadsOutput
    - LightSourcePowerOutput
    range: FieldIlluminationKeyMeasurements
    multivalued: false
  intensity_profiles:
    name: intensity_profiles
    description: Intensity profiles for the field illumination analysis in the different
      directions
    from_schema: https://MontpellierRessourcesImagerie.github.io/microscopemetrics-schema/analyses/field_illumination
    rank: 1000
    alias: intensity_profiles
    owner: FieldIlluminationOutput
    domain_of:
    - FieldIlluminationOutput
    range: Table
    multivalued: true
    inlined: true
    inlined_as_list: true
  roi_profiles:
    name: roi_profiles
    description: line ROIs used to compute the intensity profiles
    from_schema: https://MontpellierRessourcesImagerie.github.io/microscopemetrics-schema/analyses/field_illumination
    rank: 1000
    alias: roi_profiles
    owner: FieldIlluminationOutput
    domain_of:
    - FieldIlluminationOutput
    range: Roi
    multivalued: true
  roi_corners:
    name: roi_corners
    description: Rectangular ROIs used to compute the corner intensities. The sama
      ROI is assigned to multiple images.
    from_schema: https://MontpellierRessourcesImagerie.github.io/microscopemetrics-schema/analyses/field_illumination
    rank: 1000
    alias: roi_corners
    owner: FieldIlluminationOutput
    domain_of:
    - FieldIlluminationOutput
    range: Roi
    multivalued: true
  roi_centers_of_mass:
    name: roi_centers_of_mass
    description: Point ROIs marking the center of mass of the area of maximum illumination.
      When the image is very flat, the 99 percentile is used instead. One point per
      channel.
    from_schema: https://MontpellierRessourcesImagerie.github.io/microscopemetrics-schema/analyses/field_illumination
    rank: 1000
    alias: roi_centers_of_mass
    owner: FieldIlluminationOutput
    domain_of:
    - FieldIlluminationOutput
    range: Roi
    multivalued: true
  roi_centers_geometric:
    name: roi_centers_geometric
    description: Point ROIs marking the geometric center of the area of maximum illumination.
      One point per channel.
    from_schema: https://MontpellierRessourcesImagerie.github.io/microscopemetrics-schema/analyses/field_illumination
    rank: 1000
    alias: roi_centers_geometric
    owner: FieldIlluminationOutput
    domain_of:
    - FieldIlluminationOutput
    range: Roi
    multivalued: true
  roi_centers_fitted:
    name: roi_centers_fitted
    description: Point ROIs marking the fitted center of the area of maximum illumination.
      One point per channel.
    from_schema: https://MontpellierRessourcesImagerie.github.io/microscopemetrics-schema/analyses/field_illumination
    rank: 1000
    alias: roi_centers_fitted
    owner: FieldIlluminationOutput
    domain_of:
    - FieldIlluminationOutput
    range: Roi
    multivalued: true
  roi_centers_max_intensity:
    name: roi_centers_max_intensity
    description: Point ROIs marking the maximum intensity of the area of maximum illumination.
      One point per channel.
    from_schema: https://MontpellierRessourcesImagerie.github.io/microscopemetrics-schema/analyses/field_illumination
    rank: 1000
    alias: roi_centers_max_intensity
    owner: FieldIlluminationOutput
    domain_of:
    - FieldIlluminationOutput
    range: Roi
    multivalued: true
  roi_center_region:
    name: roi_center_region
    description: Mask ROIs marking the area of maximum illumination. One mask per
      channel.
    from_schema: https://MontpellierRessourcesImagerie.github.io/microscopemetrics-schema/analyses/field_illumination
    rank: 1000
    alias: roi_center_region
    owner: FieldIlluminationOutput
    domain_of:
    - FieldIlluminationOutput
    range: Roi
    multivalued: true
  comment:
    name: comment
    description: A human readable comment
    from_schema: https://MontpellierRessourcesImagerie.github.io/microscopemetrics-schema
    rank: 1000
    alias: comment
    owner: FieldIlluminationOutput
    domain_of:
    - MetricsOutput
    range: Comment
    required: false
    multivalued: false
  processing_application:
    name: processing_application
    description: The application used to process the dataset
    from_schema: https://MontpellierRessourcesImagerie.github.io/microscopemetrics-schema/core
    rank: 1000
    alias: processing_application
    owner: FieldIlluminationOutput
    domain_of:
    - MetricsOutput
    range: string
    required: true
    multivalued: true
  processing_version:
    name: processing_version
    description: The version of the application used to process the dataset
    from_schema: https://MontpellierRessourcesImagerie.github.io/microscopemetrics-schema/core
    rank: 1000
    alias: processing_version
    owner: FieldIlluminationOutput
    domain_of:
    - MetricsOutput
    range: string
    required: true
    multivalued: true
  processing_entity:
    name: processing_entity
    description: The entity that processed the dataset
    from_schema: https://MontpellierRessourcesImagerie.github.io/microscopemetrics-schema/core
    rank: 1000
    alias: processing_entity
    owner: FieldIlluminationOutput
    domain_of:
    - MetricsOutput
    range: string
    required: false
    multivalued: true
  processing_datetime:
    name: processing_datetime
    description: The datetime of the processing by microscope-metrics
    from_schema: https://MontpellierRessourcesImagerie.github.io/microscopemetrics-schema/core
    rank: 1000
    alias: processing_datetime
    owner: FieldIlluminationOutput
    domain_of:
    - MetricsOutput
    range: datetime
    required: true
    multivalued: false
  processing_log:
    name: processing_log
    description: The log of the processing by microscope-metrics
    from_schema: https://MontpellierRessourcesImagerie.github.io/microscopemetrics-schema/core
    rank: 1000
    alias: processing_log
    owner: FieldIlluminationOutput
    domain_of:
    - MetricsOutput
    range: string
    required: false
    multivalued: false
  warnings:
    name: warnings
    description: The warnings of the processing by microscope-metrics
    from_schema: https://MontpellierRessourcesImagerie.github.io/microscopemetrics-schema/core
    rank: 1000
    alias: warnings
    owner: FieldIlluminationOutput
    domain_of:
    - MetricsOutput
    range: string
    required: false
    multivalued: true
  errors:
    name: errors
    description: The errors of the processing by microscope-metrics
    from_schema: https://MontpellierRessourcesImagerie.github.io/microscopemetrics-schema/core
    rank: 1000
    alias: errors
    owner: FieldIlluminationOutput
    domain_of:
    - MetricsOutput
    range: string
    required: false
    multivalued: true
  validated:
    name: validated
    description: Has the dataset been validated by a human
    from_schema: https://MontpellierRessourcesImagerie.github.io/microscopemetrics-schema/core
    rank: 1000
    ifabsent: 'False'
    alias: validated
    owner: FieldIlluminationOutput
    domain_of:
    - MetricsOutput
    range: boolean
    required: true
    multivalued: false
  validation_datetime:
    name: validation_datetime
    description: The datetime of the validation
    from_schema: https://MontpellierRessourcesImagerie.github.io/microscopemetrics-schema/core
    rank: 1000
    alias: validation_datetime
    owner: FieldIlluminationOutput
    domain_of:
    - MetricsOutput
    range: datetime
    required: false
    multivalued: false