Class: ExperimentRun
An experimental data collection session
URI: lambda:ExperimentRun
classDiagram
class ExperimentRun
click ExperimentRun href "../ExperimentRun/"
NamedThing <|-- ExperimentRun
click NamedThing href "../NamedThing/"
ExperimentRun : accelerating_voltage
ExperimentRun --> "0..1" QuantityValue : accelerating_voltage
click QuantityValue href "../QuantityValue/"
ExperimentRun : acquisition_software
ExperimentRun : acquisition_software_version
ExperimentRun : astigmatism_target
ExperimentRun --> "0..1" QuantityValue : astigmatism_target
click QuantityValue href "../QuantityValue/"
ExperimentRun : autoloader_slot
ExperimentRun : beam_center_pixels
ExperimentRun --> "0..1" BeamCenterPixels : beam_center_pixels
click BeamCenterPixels href "../BeamCenterPixels/"
ExperimentRun : beam_center_x
ExperimentRun --> "0..1" QuantityValue : beam_center_x
click QuantityValue href "../QuantityValue/"
ExperimentRun : beam_center_y
ExperimentRun --> "0..1" QuantityValue : beam_center_y
click QuantityValue href "../QuantityValue/"
ExperimentRun : beam_diameter
ExperimentRun --> "0..1" QuantityValue : beam_diameter
click QuantityValue href "../QuantityValue/"
ExperimentRun : c2_aperture
ExperimentRun --> "0..1" QuantityValue : c2_aperture
click QuantityValue href "../QuantityValue/"
ExperimentRun : calibrated_pixel_size
ExperimentRun --> "0..1" QuantityValue : calibrated_pixel_size
click QuantityValue href "../QuantityValue/"
ExperimentRun : camera_binning
ExperimentRun --> "0..1" QuantityValue : camera_binning
click QuantityValue href "../QuantityValue/"
ExperimentRun : camera_length
ExperimentRun --> "0..1" QuantityValue : camera_length
click QuantityValue href "../QuantityValue/"
ExperimentRun : coma
ExperimentRun --> "0..1" QuantityValue : coma
click QuantityValue href "../QuantityValue/"
ExperimentRun : cs
ExperimentRun --> "0..1" QuantityValue : cs
click QuantityValue href "../QuantityValue/"
ExperimentRun : daq_system
ExperimentRun --> "0..1" DataAcquisitionSystemEnum : daq_system
click DataAcquisitionSystemEnum href "../DataAcquisitionSystemEnum/"
ExperimentRun : data_collection_strategy
ExperimentRun --> "0..1" DataCollectionStrategy : data_collection_strategy
click DataCollectionStrategy href "../DataCollectionStrategy/"
ExperimentRun : defocus_range_increment
ExperimentRun --> "0..1" QuantityValue : defocus_range_increment
click QuantityValue href "../QuantityValue/"
ExperimentRun : defocus_range_max
ExperimentRun --> "0..1" QuantityValue : defocus_range_max
click QuantityValue href "../QuantityValue/"
ExperimentRun : defocus_range_min
ExperimentRun --> "0..1" QuantityValue : defocus_range_min
click QuantityValue href "../QuantityValue/"
ExperimentRun : defocus_target
ExperimentRun --> "0..1" QuantityValue : defocus_target
click QuantityValue href "../QuantityValue/"
ExperimentRun : description
ExperimentRun : detector
ExperimentRun : detector_distance
ExperimentRun --> "0..1" QuantityValue : detector_distance
click QuantityValue href "../QuantityValue/"
ExperimentRun : dose_per_tilt
ExperimentRun --> "0..1" QuantityValue : dose_per_tilt
click QuantityValue href "../QuantityValue/"
ExperimentRun : dose_rate
ExperimentRun --> "0..1" QuantityValue : dose_rate
click QuantityValue href "../QuantityValue/"
ExperimentRun : dual_tilt_axis_rotation
ExperimentRun --> "0..1" QuantityValue : dual_tilt_axis_rotation
click QuantityValue href "../QuantityValue/"
ExperimentRun : end_time
ExperimentRun : energy
ExperimentRun --> "0..1" QuantityValue : energy
click QuantityValue href "../QuantityValue/"
ExperimentRun : energy_filter_slit_width
ExperimentRun --> "0..1" QuantityValue : energy_filter_slit_width
click QuantityValue href "../QuantityValue/"
ExperimentRun : experiment_code
ExperimentRun : experiment_date
ExperimentRun : experimental_conditions
ExperimentRun --> "0..1" ExperimentalConditions : experimental_conditions
click ExperimentalConditions href "../ExperimentalConditions/"
ExperimentRun : experimental_method
ExperimentRun --> "0..1" ExperimentalMethodEnum : experimental_method
click ExperimentalMethodEnum href "../ExperimentalMethodEnum/"
ExperimentRun : exposure_time
ExperimentRun --> "0..1" QuantityValue : exposure_time
click QuantityValue href "../QuantityValue/"
ExperimentRun : exposure_time_per_frame
ExperimentRun --> "0..1" QuantityValue : exposure_time_per_frame
click QuantityValue href "../QuantityValue/"
ExperimentRun : fiducial_size
ExperimentRun --> "0..1" QuantityValue : fiducial_size
click QuantityValue href "../QuantityValue/"
ExperimentRun : flux
ExperimentRun --> "0..1" QuantityValue : flux
click QuantityValue href "../QuantityValue/"
ExperimentRun : flux_end
ExperimentRun --> "0..1" QuantityValue : flux_end
click QuantityValue href "../QuantityValue/"
ExperimentRun : frames_per_movie
ExperimentRun --> "0..1" QuantityValue : frames_per_movie
click QuantityValue href "../QuantityValue/"
ExperimentRun : frames_per_second
ExperimentRun --> "0..1" QuantityValue : frames_per_second
click QuantityValue href "../QuantityValue/"
ExperimentRun : holes_per_group
ExperimentRun --> "0..1" QuantityValue : holes_per_group
click QuantityValue href "../QuantityValue/"
ExperimentRun : id
ExperimentRun : ispyb_data_collection_id
ExperimentRun --> "0..1" QuantityValue : ispyb_data_collection_id
click QuantityValue href "../QuantityValue/"
ExperimentRun : ispyb_session_id
ExperimentRun --> "0..1" QuantityValue : ispyb_session_id
click QuantityValue href "../QuantityValue/"
ExperimentRun : magnification
ExperimentRun --> "0..1" QuantityValue : magnification
click QuantityValue href "../QuantityValue/"
ExperimentRun : nominal_pixel_size
ExperimentRun --> "0..1" QuantityValue : nominal_pixel_size
click QuantityValue href "../QuantityValue/"
ExperimentRun : number_of_images
ExperimentRun --> "0..1" QuantityValue : number_of_images
click QuantityValue href "../QuantityValue/"
ExperimentRun : number_of_tilt_images
ExperimentRun --> "0..1" QuantityValue : number_of_tilt_images
click QuantityValue href "../QuantityValue/"
ExperimentRun : operator_id
ExperimentRun : oscillation_angle
ExperimentRun --> "0..1" QuantityValue : oscillation_angle
click QuantityValue href "../QuantityValue/"
ExperimentRun : phase_plate_used
ExperimentRun : pixel_size_x
ExperimentRun --> "0..1" QuantityValue : pixel_size_x
click QuantityValue href "../QuantityValue/"
ExperimentRun : pixel_size_y
ExperimentRun --> "0..1" QuantityValue : pixel_size_y
click QuantityValue href "../QuantityValue/"
ExperimentRun : processing_status
ExperimentRun --> "0..1" ProcessingStatusEnum : processing_status
click ProcessingStatusEnum href "../ProcessingStatusEnum/"
ExperimentRun : quality_metrics
ExperimentRun --> "0..1" QualityMetrics : quality_metrics
click QualityMetrics href "../QualityMetrics/"
ExperimentRun : raw_data_location
ExperimentRun : resolution
ExperimentRun --> "0..1" QuantityValue : resolution
click QuantityValue href "../QuantityValue/"
ExperimentRun : resolution_at_corner
ExperimentRun --> "0..1" QuantityValue : resolution_at_corner
click QuantityValue href "../QuantityValue/"
ExperimentRun : rotation_rate
ExperimentRun --> "0..1" QuantityValue : rotation_rate
click QuantityValue href "../QuantityValue/"
ExperimentRun : shots_per_hole
ExperimentRun --> "0..1" QuantityValue : shots_per_hole
click QuantityValue href "../QuantityValue/"
ExperimentRun : slit_gap_horizontal
ExperimentRun --> "0..1" QuantityValue : slit_gap_horizontal
click QuantityValue href "../QuantityValue/"
ExperimentRun : slit_gap_vertical
ExperimentRun --> "0..1" QuantityValue : slit_gap_vertical
click QuantityValue href "../QuantityValue/"
ExperimentRun : spot_size
ExperimentRun --> "0..1" QuantityValue : spot_size
click QuantityValue href "../QuantityValue/"
ExperimentRun : stage_tilt
ExperimentRun --> "0..1" QuantityValue : stage_tilt
click QuantityValue href "../QuantityValue/"
ExperimentRun : start_angle
ExperimentRun --> "0..1" QuantityValue : start_angle
click QuantityValue href "../QuantityValue/"
ExperimentRun : start_time
ExperimentRun : sweep_end
ExperimentRun --> "0..1" QuantityValue : sweep_end
click QuantityValue href "../QuantityValue/"
ExperimentRun : sweep_start
ExperimentRun --> "0..1" QuantityValue : sweep_start
click QuantityValue href "../QuantityValue/"
ExperimentRun : synchrotron_mode
ExperimentRun : technique
ExperimentRun --> "1" TechniqueEnum : technique
click TechniqueEnum href "../TechniqueEnum/"
ExperimentRun : tilt_angle_increment
ExperimentRun --> "0..1" QuantityValue : tilt_angle_increment
click QuantityValue href "../QuantityValue/"
ExperimentRun : tilt_angle_max
ExperimentRun --> "0..1" QuantityValue : tilt_angle_max
click QuantityValue href "../QuantityValue/"
ExperimentRun : tilt_angle_min
ExperimentRun --> "0..1" QuantityValue : tilt_angle_min
click QuantityValue href "../QuantityValue/"
ExperimentRun : tilt_axis_angle
ExperimentRun --> "0..1" QuantityValue : tilt_axis_angle
click QuantityValue href "../QuantityValue/"
ExperimentRun : tilting_scheme
ExperimentRun --> "0..1" TiltingSchemeEnum : tilting_scheme
click TiltingSchemeEnum href "../TiltingSchemeEnum/"
ExperimentRun : title
ExperimentRun : total_dose
ExperimentRun --> "0..1" QuantityValue : total_dose
click QuantityValue href "../QuantityValue/"
ExperimentRun : total_exposure_time
ExperimentRun --> "0..1" QuantityValue : total_exposure_time
click QuantityValue href "../QuantityValue/"
ExperimentRun : total_rotation
ExperimentRun --> "0..1" QuantityValue : total_rotation
click QuantityValue href "../QuantityValue/"
ExperimentRun : transmission
ExperimentRun --> "0..1" QuantityValue : transmission
click QuantityValue href "../QuantityValue/"
ExperimentRun : undulator_gap
ExperimentRun --> "0..1" QuantityValue : undulator_gap
click QuantityValue href "../QuantityValue/"
ExperimentRun : wavelength
ExperimentRun --> "0..1" QuantityValue : wavelength
click QuantityValue href "../QuantityValue/"
Inheritance
- NamedThing
- ExperimentRun
Slots
| Name | Cardinality and Range | Description | Inheritance |
|---|---|---|---|
| experiment_code | 1 String |
Human-friendly laboratory or facility identifier for the experiment (e | direct |
| experiment_date | 0..1 String |
Date of the experiment | direct |
| operator_id | 0..1 String |
Identifier or name of the person who performed the experiment data collection... | direct |
| technique | 1 TechniqueEnum |
Technique used for data collection | direct |
| experimental_method | 0..1 ExperimentalMethodEnum |
Specific experimental method for structure determination (particularly for di... | direct |
| experimental_conditions | 0..1 ExperimentalConditions |
Environmental and experimental conditions | direct |
| data_collection_strategy | 0..1 DataCollectionStrategy |
Strategy for data collection | direct |
| quality_metrics | 0..1 QualityMetrics |
Quality metrics for the experiment | direct |
| raw_data_location | 0..1 String |
Location of raw data files | direct |
| processing_status | 0..1 ProcessingStatusEnum |
Current processing status | direct |
| daq_system | 0..1 DataAcquisitionSystemEnum |
Data acquisition system used to collect this experiment | direct |
| accelerating_voltage | 0..1 QuantityValue |
Accelerating voltage used for this session, typically specified in kV | direct |
| cs | 0..1 QuantityValue |
Nominal spherical aberration (Cs) of the objective lens in effect for this se... | direct |
| magnification | 0..1 QuantityValue |
Magnification used during data collection | direct |
| nominal_pixel_size | 0..1 QuantityValue |
Nominal pixel size at the specimen for the chosen magnification and binning, ... | direct |
| calibrated_pixel_size | 0..1 QuantityValue |
Calibrated pixel size, typically specified in Angstroms per pixel | direct |
| camera_binning | 0..1 QuantityValue |
Camera binning factor | direct |
| exposure_time_per_frame | 0..1 QuantityValue |
Exposure time per frame, typically specified in milliseconds | direct |
| frames_per_movie | 0..1 QuantityValue |
Number of frames per movie | direct |
| total_exposure_time | 0..1 QuantityValue |
Total exposure time | direct |
| total_dose | 0..1 QuantityValue |
Total electron dose, typically specified in e-/Angstrom^2 | direct |
| dose_rate | 0..1 QuantityValue |
Dose rate, typically specified in e-/pixel/s or e-/Angstrom^2/s | direct |
| spot_size | 0..1 QuantityValue |
Condenser spot size setting used for this session (a dimensionless index on t... | direct |
| c2_aperture | 0..1 QuantityValue |
C2 condenser aperture diameter used for this session, typically specified in ... | direct |
| beam_diameter | 0..1 QuantityValue |
Illuminated beam diameter at the specimen used for this session, typically sp... | direct |
| energy_filter_slit_width | 0..1 QuantityValue |
Energy filter slit width used for this session, typically specified in eV | direct |
| phase_plate_used | 0..1 Boolean |
Whether a phase plate was in the beam path for this session | direct |
| defocus_target | 0..1 QuantityValue |
Target defocus value, typically specified in micrometers | direct |
| defocus_range_min | 0..1 QuantityValue |
Minimum defocus range, typically specified in micrometers | direct |
| defocus_range_max | 0..1 QuantityValue |
Maximum defocus range, typically specified in micrometers | direct |
| defocus_range_increment | 0..1 QuantityValue |
Defocus range increment, typically specified in micrometers | direct |
| astigmatism_target | 0..1 QuantityValue |
Target astigmatism, typically specified in Angstroms | direct |
| coma | 0..1 QuantityValue |
Coma aberration, typically specified in nanometers | direct |
| stage_tilt | 0..1 QuantityValue |
Fixed stage tilt angle for a single-orientation acquisition, typically specif... | direct |
| tilting_scheme | 0..1 TiltingSchemeEnum |
Stage tilting scheme used during data collection | direct |
| tilt_angle_min | 0..1 QuantityValue |
Lowest (most negative) tilt angle in the tilt series, typically specified in ... | direct |
| tilt_angle_max | 0..1 QuantityValue |
Highest (most positive) tilt angle in the tilt series, typically specified in... | direct |
| tilt_angle_increment | 0..1 QuantityValue |
Tilt angle increment between successive tilt steps | direct |
| tilt_axis_angle | 0..1 QuantityValue |
In-plane azimuth of the tilt axis relative to the detector x-axis, typically ... | direct |
| number_of_tilt_images | 0..1 QuantityValue |
Number of images collected in the tilt series | direct |
| dose_per_tilt | 0..1 QuantityValue |
Electron dose applied at each tilt step, typically specified in e-/Angstrom^2 | direct |
| dual_tilt_axis_rotation | 0..1 QuantityValue |
Rotation between the two tilt axes in a dual-axis tomography acquisition, typ... | direct |
| fiducial_size | 0..1 QuantityValue |
Size of fiducial markers used for tomographic alignment | direct |
| rotation_rate | 0..1 QuantityValue |
Continuous rotation rate during data collection (e | direct |
| camera_length | 0..1 QuantityValue |
Camera length for electron diffraction (e | direct |
| frames_per_second | 0..1 QuantityValue |
Frame acquisition rate | direct |
| autoloader_slot | 0..1 String |
Autoloader slot identifier | direct |
| shots_per_hole | 0..1 QuantityValue |
Number of shots taken per hole | direct |
| holes_per_group | 0..1 QuantityValue |
Number of holes per group | direct |
| acquisition_software | 0..1 String |
Acquisition software used (e | direct |
| acquisition_software_version | 0..1 String |
Version of acquisition software | direct |
| detector | 0..1 String |
Run-specific detector identifier or detector component used for data collecti... | direct |
| wavelength | 0..1 QuantityValue |
X-ray wavelength, typically specified in Angstroms (Å) | direct |
| energy | 0..1 QuantityValue |
X-ray beam energy for this run | direct |
| oscillation_angle | 0..1 QuantityValue |
Oscillation angle per image, typically specified in degrees | direct |
| start_angle | 0..1 QuantityValue |
Starting rotation angle, typically specified in degrees | direct |
| sweep_start | 0..1 QuantityValue |
Starting angle of an X-ray oscillation sweep, typically specified in degrees | direct |
| sweep_end | 0..1 QuantityValue |
Ending angle of an X-ray oscillation sweep, typically specified in degrees | direct |
| number_of_images | 0..1 QuantityValue |
Total number of diffraction images collected | direct |
| beam_center_x | 0..1 QuantityValue |
Beam center X coordinate, typically specified in pixels ([px]) | direct |
| beam_center_y | 0..1 QuantityValue |
Beam center Y coordinate, typically specified in pixels ([px]) | direct |
| beam_center_pixels | 0..1 BeamCenterPixels |
Combined beam center pixel coordinates as reported by systems such as NSLS-II... | direct |
| detector_distance | 0..1 QuantityValue |
Distance from sample to detector, typically specified in millimeters (mm) | direct |
| pixel_size_x | 0..1 QuantityValue |
Pixel size X dimension, typically specified in micrometers (µm) | direct |
| pixel_size_y | 0..1 QuantityValue |
Pixel size Y dimension, typically specified in micrometers (µm) | direct |
| total_rotation | 0..1 QuantityValue |
Total rotation range collected, typically specified in degrees | direct |
| transmission | 0..1 QuantityValue |
X-ray beam transmission as a percentage (0-100) | direct |
| flux | 0..1 QuantityValue |
Photon flux at sample position, typically specified in photons per second | direct |
| flux_end | 0..1 QuantityValue |
Photon flux at end of data collection, typically specified in photons per sec... | direct |
| slit_gap_horizontal | 0..1 QuantityValue |
Horizontal slit gap aperture, typically specified in micrometers (µm) | direct |
| slit_gap_vertical | 0..1 QuantityValue |
Vertical slit gap aperture, typically specified in micrometers (µm) | direct |
| undulator_gap | 0..1 QuantityValue |
Undulator gap setting, typically specified in millimeters (mm) | direct |
| synchrotron_mode | 0..1 String |
Synchrotron storage ring fill mode | direct |
| exposure_time | 0..1 QuantityValue |
Exposure time per image, typically specified in seconds (s) | direct |
| start_time | 0..1 String |
Data collection start timestamp | direct |
| end_time | 0..1 String |
Data collection end timestamp | direct |
| resolution | 0..1 QuantityValue |
Resolution at edge of detector, typically specified in Angstroms (Å) | direct |
| resolution_at_corner | 0..1 QuantityValue |
Resolution at corner of detector, typically specified in Angstroms (Å) | direct |
| ispyb_data_collection_id | 0..1 QuantityValue |
ISPyB DataCollection | direct |
| ispyb_session_id | 0..1 QuantityValue |
ISPyB BLSession | direct |
| id | 1 Uriorcurie |
Globally unique identifier as an IRI or CURIE for machine processing and exte... | NamedThing |
| title | 0..1 String |
A human-readable name or title for this entity | NamedThing |
| description | 0..1 String |
A detailed textual description of this entity | NamedThing |
Usages
| used by | used in | type | used |
|---|---|---|---|
| Dataset | experiment_runs | range | ExperimentRun |
| StudyExperimentAssociation | experiment_id | range | ExperimentRun |
| ExperimentSampleAssociation | experiment_id | range | ExperimentRun |
| ExperimentInstrumentAssociation | experiment_id | range | ExperimentRun |
| WorkflowExperimentAssociation | experiment_id | range | ExperimentRun |
| ExperimentPersonAssociation | experiment_id | range | ExperimentRun |
Identifier and Mapping Information
Schema Source
- from schema: http://w3id.org/lambda/
Mappings
| Mapping Type | Mapped Value |
|---|---|
| self | lambda:ExperimentRun |
| native | lambda:ExperimentRun |
| related | IHMCIF:_ihm_dataset_list, IHMCIF:_ihm_dataset_group |
LinkML Source
Direct
name: ExperimentRun
description: An experimental data collection session
from_schema: http://w3id.org/lambda/
related_mappings:
- IHMCIF:_ihm_dataset_list
- IHMCIF:_ihm_dataset_group
is_a: NamedThing
attributes:
experiment_code:
name: experiment_code
description: Human-friendly laboratory or facility identifier for the experiment
(e.g., 'SIBYLS-2024-02-01-hetBGL', 'CRYOEM-RUN-240815-001'). Used for local
tracking and cross-referencing within laboratory systems.
from_schema: http://w3id.org/lambda/
rank: 1000
domain_of:
- ExperimentRun
required: true
experiment_date:
name: experiment_date
description: Date of the experiment
from_schema: http://w3id.org/lambda/
rank: 1000
domain_of:
- ExperimentRun
range: string
operator_id:
name: operator_id
description: Identifier or name of the person who performed the experiment data
collection (e.g., 'jsmith', 'John Smith', or personnel ID)
comments:
- Free text, and retained for sources that publish only a bare operator string.
Where the person can be resolved, prefer a Person record linked by ExperimentPersonAssociation
with role 'operator' - that is what carries an ORCID and survives a name change.
from_schema: http://w3id.org/lambda/
domain_of:
- SamplePreparation
- ExperimentRun
range: string
technique:
name: technique
description: Technique used for data collection
from_schema: http://w3id.org/lambda/
related_mappings:
- IHMCIF:_ihm_dataset_list.data_type
domain_of:
- SANSInstrument
- ExperimentRun
range: TechniqueEnum
required: true
experimental_method:
name: experimental_method
description: Specific experimental method for structure determination (particularly
for diffraction techniques)
from_schema: http://w3id.org/lambda/
rank: 1000
domain_of:
- ExperimentRun
- BiophysicalProperty
range: ExperimentalMethodEnum
experimental_conditions:
name: experimental_conditions
description: Environmental and experimental conditions
from_schema: http://w3id.org/lambda/
rank: 1000
domain_of:
- ExperimentRun
range: ExperimentalConditions
data_collection_strategy:
name: data_collection_strategy
description: Strategy for data collection
from_schema: http://w3id.org/lambda/
rank: 1000
domain_of:
- ExperimentRun
range: DataCollectionStrategy
quality_metrics:
name: quality_metrics
description: Quality metrics for the experiment
from_schema: http://w3id.org/lambda/
domain_of:
- Sample
- ExperimentRun
range: QualityMetrics
raw_data_location:
name: raw_data_location
description: Location of raw data files
from_schema: http://w3id.org/lambda/
rank: 1000
domain_of:
- ExperimentRun
processing_status:
name: processing_status
description: Current processing status
from_schema: http://w3id.org/lambda/
rank: 1000
domain_of:
- ExperimentRun
range: ProcessingStatusEnum
daq_system:
name: daq_system
description: Data acquisition system used to collect this experiment
from_schema: http://w3id.org/lambda/
domain_of:
- BeamlineInstrument
- ExperimentRun
range: DataAcquisitionSystemEnum
accelerating_voltage:
name: accelerating_voltage
description: Accelerating voltage used for this session, typically specified in
kV. Data providers may specify alternative units by including the unit in the
QuantityValue.
from_schema: http://w3id.org/lambda/
exact_mappings:
- mmCIF:_em_imaging.accelerating_voltage
domain_of:
- CryoEMInstrument
- ExperimentRun
range: QuantityValue
inlined: true
cs:
name: cs
description: Nominal spherical aberration (Cs) of the objective lens in effect
for this session, typically specified in millimeters. Data providers may specify
alternative units by including the unit in the QuantityValue.
comments:
- Fixed for a given microscope, but recorded per imaging session by mmCIF and
by facility acquisition sheets, and needed with the run's data for CTF estimation.
from_schema: http://w3id.org/lambda/
exact_mappings:
- mmCIF:_em_imaging.nominal_cs
domain_of:
- CryoEMInstrument
- ExperimentRun
range: QuantityValue
inlined: true
magnification:
name: magnification
description: Magnification used during data collection
from_schema: http://w3id.org/lambda/
exact_mappings:
- mmCIF:_em_imaging.nominal_magnification
rank: 1000
domain_of:
- ExperimentRun
- OpticalImage
range: QuantityValue
inlined: true
nominal_pixel_size:
name: nominal_pixel_size
description: Nominal pixel size at the specimen for the chosen magnification and
binning, as set at the microscope, typically specified in Angstroms per pixel.
Data providers may specify alternative units by including the unit in the QuantityValue.
comments:
- Use calibrated_pixel_size for the value measured against a standard; the two
commonly differ by a fraction of a percent.
from_schema: http://w3id.org/lambda/
rank: 1000
domain_of:
- ExperimentRun
range: QuantityValue
inlined: true
calibrated_pixel_size:
name: calibrated_pixel_size
description: Calibrated pixel size, typically specified in Angstroms per pixel.
Data providers may specify alternative units by including the unit in the QuantityValue.
from_schema: http://w3id.org/lambda/
exact_mappings:
- mmCIF:_em_image_recording.calibrated_pixel_size
rank: 1000
domain_of:
- ExperimentRun
range: QuantityValue
inlined: true
camera_binning:
name: camera_binning
description: Camera binning factor. This must be a positive float value (e.g.,
1, 1.5, 2, 3).
from_schema: http://w3id.org/lambda/
rank: 1000
domain_of:
- ExperimentRun
range: QuantityValue
inlined: true
exposure_time_per_frame:
name: exposure_time_per_frame
description: Exposure time per frame, typically specified in milliseconds. Data
providers may specify alternative units by including the unit in the QuantityValue.
from_schema: http://w3id.org/lambda/
exact_mappings:
- mmCIF:_em_image_recording.average_exposure_time
rank: 1000
domain_of:
- ExperimentRun
range: QuantityValue
inlined: true
frames_per_movie:
name: frames_per_movie
description: Number of frames per movie
from_schema: http://w3id.org/lambda/
exact_mappings:
- mmCIF:_em_image_recording.num_frames_per_image
rank: 1000
domain_of:
- ExperimentRun
range: QuantityValue
inlined: true
total_exposure_time:
name: total_exposure_time
description: Total exposure time. Data providers may specify alternative units
(e.g., seconds, milliseconds) by including the unit in the QuantityValue.
from_schema: http://w3id.org/lambda/
rank: 1000
domain_of:
- ExperimentRun
range: QuantityValue
inlined: true
total_dose:
name: total_dose
description: Total electron dose, typically specified in e-/Angstrom^2. Data providers
may specify alternative units by including the unit in the QuantityValue.
from_schema: http://w3id.org/lambda/
exact_mappings:
- mmCIF:_em_image_recording.avg_electron_dose_per_image
rank: 1000
domain_of:
- ExperimentRun
- DataCollectionStrategy
range: QuantityValue
inlined: true
dose_rate:
name: dose_rate
description: Dose rate, typically specified in e-/pixel/s or e-/Angstrom^2/s.
Data providers may specify alternative units by including the unit in the QuantityValue.
from_schema: http://w3id.org/lambda/
rank: 1000
domain_of:
- ExperimentRun
range: QuantityValue
inlined: true
spot_size:
name: spot_size
description: Condenser spot size setting used for this session (a dimensionless
index on the microscope, e.g. 4)
from_schema: http://w3id.org/lambda/
rank: 1000
domain_of:
- ExperimentRun
range: QuantityValue
inlined: true
c2_aperture:
name: c2_aperture
description: C2 condenser aperture diameter used for this session, typically specified
in micrometers. Data providers may specify alternative units by including the
unit in the QuantityValue.
from_schema: http://w3id.org/lambda/
exact_mappings:
- mmCIF:_em_imaging.c2_aperture_diameter
domain_of:
- CryoEMInstrument
- ExperimentRun
range: QuantityValue
inlined: true
beam_diameter:
name: beam_diameter
description: Illuminated beam diameter at the specimen used for this session,
typically specified in micrometers. Data providers may specify alternative units
by including the unit in the QuantityValue.
from_schema: http://w3id.org/lambda/
rank: 1000
domain_of:
- ExperimentRun
range: QuantityValue
inlined: true
energy_filter_slit_width:
name: energy_filter_slit_width
description: Energy filter slit width used for this session, typically specified
in eV. Omit when no energy filter was used. Data providers may specify alternative
units by including the unit in the QuantityValue.
from_schema: http://w3id.org/lambda/
exact_mappings:
- mmCIF:_em_imaging_optics.energyfilter_slit_width
domain_of:
- CryoEMInstrument
- ExperimentRun
range: QuantityValue
inlined: true
phase_plate_used:
name: phase_plate_used
description: Whether a phase plate was in the beam path for this session
from_schema: http://w3id.org/lambda/
rank: 1000
domain_of:
- ExperimentRun
range: boolean
defocus_target:
name: defocus_target
description: Target defocus value, typically specified in micrometers. Data providers
may specify alternative units by including the unit in the QuantityValue.
from_schema: http://w3id.org/lambda/
rank: 1000
domain_of:
- ExperimentRun
range: QuantityValue
inlined: true
defocus_range_min:
name: defocus_range_min
description: Minimum defocus range, typically specified in micrometers. Data providers
may specify alternative units by including the unit in the QuantityValue.
from_schema: http://w3id.org/lambda/
exact_mappings:
- mmCIF:_em_imaging.nominal_defocus_min
rank: 1000
domain_of:
- ExperimentRun
range: QuantityValue
inlined: true
defocus_range_max:
name: defocus_range_max
description: Maximum defocus range, typically specified in micrometers. Data providers
may specify alternative units by including the unit in the QuantityValue.
from_schema: http://w3id.org/lambda/
exact_mappings:
- mmCIF:_em_imaging.nominal_defocus_max
rank: 1000
domain_of:
- ExperimentRun
range: QuantityValue
inlined: true
defocus_range_increment:
name: defocus_range_increment
description: Defocus range increment, typically specified in micrometers. Data
providers may specify alternative units by including the unit in the QuantityValue.
from_schema: http://w3id.org/lambda/
rank: 1000
domain_of:
- ExperimentRun
range: QuantityValue
inlined: true
astigmatism_target:
name: astigmatism_target
description: Target astigmatism, typically specified in Angstroms. Data providers
may specify alternative units by including the unit in the QuantityValue.
from_schema: http://w3id.org/lambda/
rank: 1000
domain_of:
- ExperimentRun
range: QuantityValue
inlined: true
coma:
name: coma
description: Coma aberration, typically specified in nanometers. Data providers
may specify alternative units by including the unit in the QuantityValue.
from_schema: http://w3id.org/lambda/
rank: 1000
domain_of:
- ExperimentRun
range: QuantityValue
inlined: true
stage_tilt:
name: stage_tilt
description: Fixed stage tilt angle for a single-orientation acquisition, typically
specified in degrees. Data providers may specify alternative units by including
the unit in the QuantityValue.
comments:
- For a tilt series, use tilt_angle_min, tilt_angle_max, and tilt_angle_increment
rather than this slot.
from_schema: http://w3id.org/lambda/
rank: 1000
domain_of:
- ExperimentRun
range: QuantityValue
inlined: true
tilting_scheme:
name: tilting_scheme
description: Stage tilting scheme used during data collection. Use `none` for
untilted acquisitions such as single-particle collection; the other values describe
tomographic and continuous-rotation (MicroED) collection.
from_schema: http://w3id.org/lambda/
rank: 1000
domain_of:
- ExperimentRun
range: TiltingSchemeEnum
tilt_angle_min:
name: tilt_angle_min
description: Lowest (most negative) tilt angle in the tilt series, typically specified
in degrees. Data providers may specify alternative units by including the unit
in the QuantityValue.
from_schema: http://w3id.org/lambda/
exact_mappings:
- mmCIF:_em_imaging.tilt_angle_min
- mmCIF:_em_tomography.axis1_min_angle
rank: 1000
domain_of:
- ExperimentRun
range: QuantityValue
inlined: true
tilt_angle_max:
name: tilt_angle_max
description: Highest (most positive) tilt angle in the tilt series, typically
specified in degrees. Data providers may specify alternative units by including
the unit in the QuantityValue.
from_schema: http://w3id.org/lambda/
exact_mappings:
- mmCIF:_em_imaging.tilt_angle_max
- mmCIF:_em_tomography.axis1_max_angle
rank: 1000
domain_of:
- ExperimentRun
range: QuantityValue
inlined: true
tilt_angle_increment:
name: tilt_angle_increment
description: Tilt angle increment between successive tilt steps. Data providers
may specify alternative units by including the unit in the QuantityValue.
from_schema: http://w3id.org/lambda/
exact_mappings:
- mmCIF:_em_tomography.axis1_angle_increment
rank: 1000
domain_of:
- ExperimentRun
range: QuantityValue
inlined: true
tilt_axis_angle:
name: tilt_axis_angle
description: In-plane azimuth of the tilt axis relative to the detector x-axis,
typically specified in degrees. Required for tilt series alignment and reconstruction.
from_schema: http://w3id.org/lambda/
rank: 1000
domain_of:
- ExperimentRun
range: QuantityValue
inlined: true
number_of_tilt_images:
name: number_of_tilt_images
description: Number of images collected in the tilt series
comments:
- For a symmetric series this is usually (tilt_angle_max - tilt_angle_min) / tilt_angle_increment
+ 1, but record the actual count since tilts are often skipped or discarded.
from_schema: http://w3id.org/lambda/
rank: 1000
domain_of:
- ExperimentRun
range: QuantityValue
inlined: true
dose_per_tilt:
name: dose_per_tilt
description: Electron dose applied at each tilt step, typically specified in e-/Angstrom^2.
Data providers may specify alternative units by including the unit in the QuantityValue.
comments:
- Use total_dose for the accumulated dose across the whole tilt series.
from_schema: http://w3id.org/lambda/
close_mappings:
- mmCIF:_em_image_recording.avg_electron_dose_per_image
rank: 1000
domain_of:
- ExperimentRun
range: QuantityValue
inlined: true
dual_tilt_axis_rotation:
name: dual_tilt_axis_rotation
description: Rotation between the two tilt axes in a dual-axis tomography acquisition,
typically specified in degrees. Omit for the far more common single-axis case.
from_schema: http://w3id.org/lambda/
exact_mappings:
- mmCIF:_em_tomography.dual_tilt_axis_rotation
rank: 1000
domain_of:
- ExperimentRun
range: QuantityValue
inlined: true
fiducial_size:
name: fiducial_size
description: Size of fiducial markers used for tomographic alignment. Data providers
may specify alternative units by including the unit in the QuantityValue.
from_schema: http://w3id.org/lambda/
rank: 1000
domain_of:
- ExperimentRun
range: QuantityValue
inlined: true
rotation_rate:
name: rotation_rate
description: Continuous rotation rate during data collection (e.g., for MicroED).
Data providers may specify alternative units by including the unit in the QuantityValue.
comments:
- 'For the extent of a continuous-rotation sweep, use the rotation-method slots
shared with the diffraction techniques: start_angle, sweep_start, sweep_end,
total_rotation, and oscillation_angle.'
from_schema: http://w3id.org/lambda/
rank: 1000
domain_of:
- ExperimentRun
range: QuantityValue
inlined: true
camera_length:
name: camera_length
description: Camera length for electron diffraction (e.g., MicroED). Data providers
may specify alternative units by including the unit in the QuantityValue.
from_schema: http://w3id.org/lambda/
rank: 1000
domain_of:
- ExperimentRun
range: QuantityValue
inlined: true
frames_per_second:
name: frames_per_second
description: Frame acquisition rate. Data providers may specify alternative units
by including the unit in the QuantityValue.
from_schema: http://w3id.org/lambda/
rank: 1000
domain_of:
- ExperimentRun
range: QuantityValue
inlined: true
autoloader_slot:
name: autoloader_slot
description: Autoloader slot identifier
from_schema: http://w3id.org/lambda/
rank: 1000
domain_of:
- ExperimentRun
range: string
shots_per_hole:
name: shots_per_hole
description: Number of shots taken per hole
from_schema: http://w3id.org/lambda/
rank: 1000
domain_of:
- ExperimentRun
range: QuantityValue
inlined: true
holes_per_group:
name: holes_per_group
description: Number of holes per group. Data providers may include unit information
in the QuantityValue if needed.
from_schema: http://w3id.org/lambda/
rank: 1000
domain_of:
- ExperimentRun
range: QuantityValue
inlined: true
acquisition_software:
name: acquisition_software
description: Acquisition software used (e.g., SerialEM, EPU, Leginon)
from_schema: http://w3id.org/lambda/
rank: 1000
domain_of:
- ExperimentRun
range: string
acquisition_software_version:
name: acquisition_software_version
description: Version of acquisition software
from_schema: http://w3id.org/lambda/
rank: 1000
domain_of:
- ExperimentRun
range: string
detector:
name: detector
description: Run-specific detector identifier or detector component used for data
collection. Use this when a beamline/instrument can operate with multiple or
swappable detectors and the detector identity is specific to this ExperimentRun.
comments:
- This is optional and distinct from Instrument-level detector model/manufacturer
metadata.
- Use ExperimentInstrumentAssociation with role=detector when the detector is
modeled as a separate Instrument record.
from_schema: http://w3id.org/lambda/
aliases:
- detector_id
- detector_name
rank: 1000
domain_of:
- ExperimentRun
range: string
wavelength:
name: wavelength
description: X-ray wavelength, typically specified in Angstroms (Å). Data providers
may specify alternative units by including the unit in the QuantityValue.
from_schema: http://w3id.org/lambda/
aliases:
- wavelength_a
exact_mappings:
- nsls2:Wavelength
- imgCIF:_diffrn_radiation_wavelength.wavelength
- mmCIF:_diffrn_radiation_wavelength.wavelength
- ispyb:DataCollection.wavelength
domain_of:
- SANSSource
- ExperimentRun
range: QuantityValue
inlined: true
energy:
name: energy
description: X-ray beam energy for this run. Data providers may specify eV, keV,
or another appropriate energy unit in the QuantityValue.
from_schema: http://w3id.org/lambda/
aliases:
- beam_energy
exact_mappings:
- nsls2:Energy
- ispyb:DataCollection.energy
domain_of:
- SANSSource
- ExperimentRun
- DataCollectionStrategy
range: QuantityValue
inlined: true
oscillation_angle:
name: oscillation_angle
description: Oscillation angle per image, typically specified in degrees. Data
providers may specify alternative units by including the unit in the QuantityValue.
from_schema: http://w3id.org/lambda/
aliases:
- oscillation_width
- oscillation_per_image_deg
exact_mappings:
- nsls2:Angle_increment
- imgCIF:_diffrn_scan_axis.angle_increment
- mmCIF:_diffrn_scan.angle_increment
- ispyb:DataCollection.axisRange
rank: 1000
domain_of:
- ExperimentRun
range: QuantityValue
inlined: true
start_angle:
name: start_angle
description: Starting rotation angle, typically specified in degrees. Data providers
may specify alternative units by including the unit in the QuantityValue.
from_schema: http://w3id.org/lambda/
exact_mappings:
- nsls2:Start_angle
- imgCIF:_diffrn_scan_axis.angle_start
- ispyb:DataCollection.axisStart
rank: 1000
domain_of:
- ExperimentRun
range: QuantityValue
inlined: true
sweep_start:
name: sweep_start
description: Starting angle of an X-ray oscillation sweep, typically specified
in degrees. For multi-sweep collections, use the value for this run or acquisition
segment.
from_schema: http://w3id.org/lambda/
exact_mappings:
- imgCIF:_diffrn_scan_axis.angle_start
- ispyb:DataCollection.axisStart
rank: 1000
domain_of:
- ExperimentRun
- DataCollectionStrategy
range: QuantityValue
inlined: true
sweep_end:
name: sweep_end
description: Ending angle of an X-ray oscillation sweep, typically specified in
degrees.
from_schema: http://w3id.org/lambda/
rank: 1000
domain_of:
- ExperimentRun
- DataCollectionStrategy
range: QuantityValue
inlined: true
number_of_images:
name: number_of_images
description: Total number of diffraction images collected
from_schema: http://w3id.org/lambda/
rank: 1000
domain_of:
- ExperimentRun
range: QuantityValue
inlined: true
beam_center_x:
name: beam_center_x
description: Beam center X coordinate, typically specified in pixels ([px]). Data
providers may specify alternative units by including the unit in the QuantityValue.
from_schema: http://w3id.org/lambda/
exact_mappings:
- nsls2:Beam_xy_x
- imgCIF:_diffrn_detector.beam_centre_x
- mmCIF:_diffrn_detector.beam_center_x
- ispyb:DataCollection.xBeam
rank: 1000
domain_of:
- ExperimentRun
range: QuantityValue
inlined: true
beam_center_y:
name: beam_center_y
description: Beam center Y coordinate, typically specified in pixels ([px]). Data
providers may specify alternative units by including the unit in the QuantityValue.
from_schema: http://w3id.org/lambda/
exact_mappings:
- nsls2:Beam_xy_y
- imgCIF:_diffrn_detector.beam_centre_y
- mmCIF:_diffrn_detector.beam_center_y
- ispyb:DataCollection.yBeam
rank: 1000
domain_of:
- ExperimentRun
range: QuantityValue
inlined: true
beam_center_pixels:
name: beam_center_pixels
description: Combined beam center pixel coordinates as reported by systems such
as NSLS-II AMX. Use beam_center_x and beam_center_y when coordinates are represented
as separate run-level values.
from_schema: http://w3id.org/lambda/
aliases:
- beam_center
rank: 1000
domain_of:
- ExperimentRun
- DataCollectionStrategy
range: BeamCenterPixels
inlined: true
detector_distance:
name: detector_distance
description: Distance from sample to detector, typically specified in millimeters
(mm). Data providers may specify alternative units by including the unit in
the QuantityValue.
from_schema: http://w3id.org/lambda/
aliases:
- detector_distance_mm
exact_mappings:
- nsls2:Detector_distance
- imgCIF:_diffrn_measurement.sample_detector_distance
- mmCIF:_diffrn_detector.distance
- ispyb:DataCollection.detectorDistance
rank: 1000
domain_of:
- ExperimentRun
range: QuantityValue
inlined: true
pixel_size_x:
name: pixel_size_x
description: Pixel size X dimension, typically specified in micrometers (µm).
Data providers may specify alternative units (e.g., Angstroms) by including
the unit in the QuantityValue.
comments:
- 'imgCIF: _array_element_size.size[1]'
from_schema: http://w3id.org/lambda/
exact_mappings:
- nsls2:Pixel_size_x
- imgCIF:_array_element_size.size
domain_of:
- SANSDetector
- ExperimentRun
range: QuantityValue
inlined: true
pixel_size_y:
name: pixel_size_y
description: Pixel size Y dimension, typically specified in micrometers (µm).
Data providers may specify alternative units (e.g., Angstroms) by including
the unit in the QuantityValue.
comments:
- 'imgCIF: _array_element_size.size[2]'
from_schema: http://w3id.org/lambda/
exact_mappings:
- nsls2:Pixel_size_y
- imgCIF:_array_element_size.size
domain_of:
- SANSDetector
- ExperimentRun
range: QuantityValue
inlined: true
total_rotation:
name: total_rotation
description: Total rotation range collected, typically specified in degrees. Data
providers may specify alternative units by including the unit in the QuantityValue.
from_schema: http://w3id.org/lambda/
exact_mappings:
- nsls2:Total_rotation_deg
- imgCIF:_diffrn_scan_axis.angle_range
rank: 1000
domain_of:
- ExperimentRun
range: QuantityValue
inlined: true
transmission:
name: transmission
description: X-ray beam transmission as a percentage (0-100). Data providers may
specify as a decimal fraction or percentage by including the unit in the QuantityValue.
comments:
- Percentage of full beam intensity used
from_schema: http://w3id.org/lambda/
aliases:
- attenuation
- transmission_percent
exact_mappings:
- ispyb:DataCollection.transmission
rank: 1000
domain_of:
- ExperimentRun
range: QuantityValue
inlined: true
flux:
name: flux
description: Photon flux at sample position, typically specified in photons per
second. Data providers may specify alternative units by including the unit in
the QuantityValue.
comments:
- Measured or calculated photon flux
from_schema: http://w3id.org/lambda/
exact_mappings:
- ispyb:DataCollection.flux
domain_of:
- SANSSource
- ExperimentRun
- XRFImage
range: QuantityValue
inlined: true
flux_end:
name: flux_end
description: Photon flux at end of data collection, typically specified in photons
per second. Data providers may specify alternative units by including the unit
in the QuantityValue.
from_schema: http://w3id.org/lambda/
exact_mappings:
- ispyb:DataCollection.flux_end
rank: 1000
domain_of:
- ExperimentRun
range: QuantityValue
inlined: true
slit_gap_horizontal:
name: slit_gap_horizontal
description: Horizontal slit gap aperture, typically specified in micrometers
(µm). Data providers may specify alternative units by including the unit in
the QuantityValue.
from_schema: http://w3id.org/lambda/
exact_mappings:
- ispyb:DataCollection.slitGapHorizontal
rank: 1000
domain_of:
- ExperimentRun
range: QuantityValue
inlined: true
slit_gap_vertical:
name: slit_gap_vertical
description: Vertical slit gap aperture, typically specified in micrometers (µm).
Data providers may specify alternative units by including the unit in the QuantityValue.
from_schema: http://w3id.org/lambda/
exact_mappings:
- ispyb:DataCollection.slitGapVertical
rank: 1000
domain_of:
- ExperimentRun
range: QuantityValue
inlined: true
undulator_gap:
name: undulator_gap
description: Undulator gap setting, typically specified in millimeters (mm). Data
providers may specify alternative units by including the unit in the QuantityValue.
Primary undulator gap for beamlines with insertion devices.
comments:
- Primary undulator gap for beamlines with insertion devices
from_schema: http://w3id.org/lambda/
exact_mappings:
- ispyb:DataCollection.undulatorGap1
rank: 1000
domain_of:
- ExperimentRun
range: QuantityValue
inlined: true
synchrotron_mode:
name: synchrotron_mode
description: Synchrotron storage ring fill mode
comments:
- e.g., 'Top-up', 'Decay', 'Hybrid'
from_schema: http://w3id.org/lambda/
exact_mappings:
- ispyb:DataCollection.synchrotronMode
rank: 1000
domain_of:
- ExperimentRun
range: string
exposure_time:
name: exposure_time
description: Exposure time per image, typically specified in seconds (s). Data
providers may specify alternative units by including the unit in the QuantityValue.
from_schema: http://w3id.org/lambda/
exact_mappings:
- nsls2:Exposure_time
- ispyb:DataCollection.exposureTime
rank: 1000
domain_of:
- ExperimentRun
- Image
- ExperimentalConditions
- DataCollectionStrategy
range: QuantityValue
inlined: true
start_time:
name: start_time
description: Data collection start timestamp
from_schema: http://w3id.org/lambda/
exact_mappings:
- ispyb:DataCollection.startTime
rank: 1000
domain_of:
- ExperimentRun
range: string
end_time:
name: end_time
description: Data collection end timestamp
from_schema: http://w3id.org/lambda/
exact_mappings:
- ispyb:DataCollection.endTime
rank: 1000
domain_of:
- ExperimentRun
range: string
resolution:
name: resolution
description: Resolution at edge of detector, typically specified in Angstroms
(Å). Data providers may specify alternative units by including the unit in the
QuantityValue.
from_schema: http://w3id.org/lambda/
exact_mappings:
- ispyb:DataCollection.resolution
rank: 1000
domain_of:
- ExperimentRun
- QualityMetrics
range: QuantityValue
inlined: true
resolution_at_corner:
name: resolution_at_corner
description: Resolution at corner of detector, typically specified in Angstroms
(Å). Data providers may specify alternative units by including the unit in the
QuantityValue.
from_schema: http://w3id.org/lambda/
exact_mappings:
- ispyb:DataCollection.resolutionAtCorner
rank: 1000
domain_of:
- ExperimentRun
range: QuantityValue
inlined: true
ispyb_data_collection_id:
name: ispyb_data_collection_id
description: ISPyB DataCollection.dataCollectionId for traceability
from_schema: http://w3id.org/lambda/
rank: 1000
domain_of:
- ExperimentRun
range: QuantityValue
inlined: true
ispyb_session_id:
name: ispyb_session_id
description: ISPyB BLSession.sessionId
from_schema: http://w3id.org/lambda/
rank: 1000
domain_of:
- ExperimentRun
range: QuantityValue
inlined: true
Induced
name: ExperimentRun
description: An experimental data collection session
from_schema: http://w3id.org/lambda/
related_mappings:
- IHMCIF:_ihm_dataset_list
- IHMCIF:_ihm_dataset_group
is_a: NamedThing
attributes:
experiment_code:
name: experiment_code
description: Human-friendly laboratory or facility identifier for the experiment
(e.g., 'SIBYLS-2024-02-01-hetBGL', 'CRYOEM-RUN-240815-001'). Used for local
tracking and cross-referencing within laboratory systems.
from_schema: http://w3id.org/lambda/
rank: 1000
alias: experiment_code
owner: ExperimentRun
domain_of:
- ExperimentRun
range: string
required: true
experiment_date:
name: experiment_date
description: Date of the experiment
from_schema: http://w3id.org/lambda/
rank: 1000
alias: experiment_date
owner: ExperimentRun
domain_of:
- ExperimentRun
range: string
operator_id:
name: operator_id
description: Identifier or name of the person who performed the experiment data
collection (e.g., 'jsmith', 'John Smith', or personnel ID)
comments:
- Free text, and retained for sources that publish only a bare operator string.
Where the person can be resolved, prefer a Person record linked by ExperimentPersonAssociation
with role 'operator' - that is what carries an ORCID and survives a name change.
from_schema: http://w3id.org/lambda/
alias: operator_id
owner: ExperimentRun
domain_of:
- SamplePreparation
- ExperimentRun
range: string
technique:
name: technique
description: Technique used for data collection
from_schema: http://w3id.org/lambda/
related_mappings:
- IHMCIF:_ihm_dataset_list.data_type
alias: technique
owner: ExperimentRun
domain_of:
- SANSInstrument
- ExperimentRun
range: TechniqueEnum
required: true
experimental_method:
name: experimental_method
description: Specific experimental method for structure determination (particularly
for diffraction techniques)
from_schema: http://w3id.org/lambda/
rank: 1000
alias: experimental_method
owner: ExperimentRun
domain_of:
- ExperimentRun
- BiophysicalProperty
range: ExperimentalMethodEnum
experimental_conditions:
name: experimental_conditions
description: Environmental and experimental conditions
from_schema: http://w3id.org/lambda/
rank: 1000
alias: experimental_conditions
owner: ExperimentRun
domain_of:
- ExperimentRun
range: ExperimentalConditions
data_collection_strategy:
name: data_collection_strategy
description: Strategy for data collection
from_schema: http://w3id.org/lambda/
rank: 1000
alias: data_collection_strategy
owner: ExperimentRun
domain_of:
- ExperimentRun
range: DataCollectionStrategy
quality_metrics:
name: quality_metrics
description: Quality metrics for the experiment
from_schema: http://w3id.org/lambda/
alias: quality_metrics
owner: ExperimentRun
domain_of:
- Sample
- ExperimentRun
range: QualityMetrics
raw_data_location:
name: raw_data_location
description: Location of raw data files
from_schema: http://w3id.org/lambda/
rank: 1000
alias: raw_data_location
owner: ExperimentRun
domain_of:
- ExperimentRun
range: string
processing_status:
name: processing_status
description: Current processing status
from_schema: http://w3id.org/lambda/
rank: 1000
alias: processing_status
owner: ExperimentRun
domain_of:
- ExperimentRun
range: ProcessingStatusEnum
daq_system:
name: daq_system
description: Data acquisition system used to collect this experiment
from_schema: http://w3id.org/lambda/
alias: daq_system
owner: ExperimentRun
domain_of:
- BeamlineInstrument
- ExperimentRun
range: DataAcquisitionSystemEnum
accelerating_voltage:
name: accelerating_voltage
description: Accelerating voltage used for this session, typically specified in
kV. Data providers may specify alternative units by including the unit in the
QuantityValue.
from_schema: http://w3id.org/lambda/
exact_mappings:
- mmCIF:_em_imaging.accelerating_voltage
alias: accelerating_voltage
owner: ExperimentRun
domain_of:
- CryoEMInstrument
- ExperimentRun
range: QuantityValue
inlined: true
cs:
name: cs
description: Nominal spherical aberration (Cs) of the objective lens in effect
for this session, typically specified in millimeters. Data providers may specify
alternative units by including the unit in the QuantityValue.
comments:
- Fixed for a given microscope, but recorded per imaging session by mmCIF and
by facility acquisition sheets, and needed with the run's data for CTF estimation.
from_schema: http://w3id.org/lambda/
exact_mappings:
- mmCIF:_em_imaging.nominal_cs
alias: cs
owner: ExperimentRun
domain_of:
- CryoEMInstrument
- ExperimentRun
range: QuantityValue
inlined: true
magnification:
name: magnification
description: Magnification used during data collection
from_schema: http://w3id.org/lambda/
exact_mappings:
- mmCIF:_em_imaging.nominal_magnification
rank: 1000
alias: magnification
owner: ExperimentRun
domain_of:
- ExperimentRun
- OpticalImage
range: QuantityValue
inlined: true
nominal_pixel_size:
name: nominal_pixel_size
description: Nominal pixel size at the specimen for the chosen magnification and
binning, as set at the microscope, typically specified in Angstroms per pixel.
Data providers may specify alternative units by including the unit in the QuantityValue.
comments:
- Use calibrated_pixel_size for the value measured against a standard; the two
commonly differ by a fraction of a percent.
from_schema: http://w3id.org/lambda/
rank: 1000
alias: nominal_pixel_size
owner: ExperimentRun
domain_of:
- ExperimentRun
range: QuantityValue
inlined: true
calibrated_pixel_size:
name: calibrated_pixel_size
description: Calibrated pixel size, typically specified in Angstroms per pixel.
Data providers may specify alternative units by including the unit in the QuantityValue.
from_schema: http://w3id.org/lambda/
exact_mappings:
- mmCIF:_em_image_recording.calibrated_pixel_size
rank: 1000
alias: calibrated_pixel_size
owner: ExperimentRun
domain_of:
- ExperimentRun
range: QuantityValue
inlined: true
camera_binning:
name: camera_binning
description: Camera binning factor. This must be a positive float value (e.g.,
1, 1.5, 2, 3).
from_schema: http://w3id.org/lambda/
rank: 1000
alias: camera_binning
owner: ExperimentRun
domain_of:
- ExperimentRun
range: QuantityValue
inlined: true
exposure_time_per_frame:
name: exposure_time_per_frame
description: Exposure time per frame, typically specified in milliseconds. Data
providers may specify alternative units by including the unit in the QuantityValue.
from_schema: http://w3id.org/lambda/
exact_mappings:
- mmCIF:_em_image_recording.average_exposure_time
rank: 1000
alias: exposure_time_per_frame
owner: ExperimentRun
domain_of:
- ExperimentRun
range: QuantityValue
inlined: true
frames_per_movie:
name: frames_per_movie
description: Number of frames per movie
from_schema: http://w3id.org/lambda/
exact_mappings:
- mmCIF:_em_image_recording.num_frames_per_image
rank: 1000
alias: frames_per_movie
owner: ExperimentRun
domain_of:
- ExperimentRun
range: QuantityValue
inlined: true
total_exposure_time:
name: total_exposure_time
description: Total exposure time. Data providers may specify alternative units
(e.g., seconds, milliseconds) by including the unit in the QuantityValue.
from_schema: http://w3id.org/lambda/
rank: 1000
alias: total_exposure_time
owner: ExperimentRun
domain_of:
- ExperimentRun
range: QuantityValue
inlined: true
total_dose:
name: total_dose
description: Total electron dose, typically specified in e-/Angstrom^2. Data providers
may specify alternative units by including the unit in the QuantityValue.
from_schema: http://w3id.org/lambda/
exact_mappings:
- mmCIF:_em_image_recording.avg_electron_dose_per_image
rank: 1000
alias: total_dose
owner: ExperimentRun
domain_of:
- ExperimentRun
- DataCollectionStrategy
range: QuantityValue
inlined: true
dose_rate:
name: dose_rate
description: Dose rate, typically specified in e-/pixel/s or e-/Angstrom^2/s.
Data providers may specify alternative units by including the unit in the QuantityValue.
from_schema: http://w3id.org/lambda/
rank: 1000
alias: dose_rate
owner: ExperimentRun
domain_of:
- ExperimentRun
range: QuantityValue
inlined: true
spot_size:
name: spot_size
description: Condenser spot size setting used for this session (a dimensionless
index on the microscope, e.g. 4)
from_schema: http://w3id.org/lambda/
rank: 1000
alias: spot_size
owner: ExperimentRun
domain_of:
- ExperimentRun
range: QuantityValue
inlined: true
c2_aperture:
name: c2_aperture
description: C2 condenser aperture diameter used for this session, typically specified
in micrometers. Data providers may specify alternative units by including the
unit in the QuantityValue.
from_schema: http://w3id.org/lambda/
exact_mappings:
- mmCIF:_em_imaging.c2_aperture_diameter
alias: c2_aperture
owner: ExperimentRun
domain_of:
- CryoEMInstrument
- ExperimentRun
range: QuantityValue
inlined: true
beam_diameter:
name: beam_diameter
description: Illuminated beam diameter at the specimen used for this session,
typically specified in micrometers. Data providers may specify alternative units
by including the unit in the QuantityValue.
from_schema: http://w3id.org/lambda/
rank: 1000
alias: beam_diameter
owner: ExperimentRun
domain_of:
- ExperimentRun
range: QuantityValue
inlined: true
energy_filter_slit_width:
name: energy_filter_slit_width
description: Energy filter slit width used for this session, typically specified
in eV. Omit when no energy filter was used. Data providers may specify alternative
units by including the unit in the QuantityValue.
from_schema: http://w3id.org/lambda/
exact_mappings:
- mmCIF:_em_imaging_optics.energyfilter_slit_width
alias: energy_filter_slit_width
owner: ExperimentRun
domain_of:
- CryoEMInstrument
- ExperimentRun
range: QuantityValue
inlined: true
phase_plate_used:
name: phase_plate_used
description: Whether a phase plate was in the beam path for this session
from_schema: http://w3id.org/lambda/
rank: 1000
alias: phase_plate_used
owner: ExperimentRun
domain_of:
- ExperimentRun
range: boolean
defocus_target:
name: defocus_target
description: Target defocus value, typically specified in micrometers. Data providers
may specify alternative units by including the unit in the QuantityValue.
from_schema: http://w3id.org/lambda/
rank: 1000
alias: defocus_target
owner: ExperimentRun
domain_of:
- ExperimentRun
range: QuantityValue
inlined: true
defocus_range_min:
name: defocus_range_min
description: Minimum defocus range, typically specified in micrometers. Data providers
may specify alternative units by including the unit in the QuantityValue.
from_schema: http://w3id.org/lambda/
exact_mappings:
- mmCIF:_em_imaging.nominal_defocus_min
rank: 1000
alias: defocus_range_min
owner: ExperimentRun
domain_of:
- ExperimentRun
range: QuantityValue
inlined: true
defocus_range_max:
name: defocus_range_max
description: Maximum defocus range, typically specified in micrometers. Data providers
may specify alternative units by including the unit in the QuantityValue.
from_schema: http://w3id.org/lambda/
exact_mappings:
- mmCIF:_em_imaging.nominal_defocus_max
rank: 1000
alias: defocus_range_max
owner: ExperimentRun
domain_of:
- ExperimentRun
range: QuantityValue
inlined: true
defocus_range_increment:
name: defocus_range_increment
description: Defocus range increment, typically specified in micrometers. Data
providers may specify alternative units by including the unit in the QuantityValue.
from_schema: http://w3id.org/lambda/
rank: 1000
alias: defocus_range_increment
owner: ExperimentRun
domain_of:
- ExperimentRun
range: QuantityValue
inlined: true
astigmatism_target:
name: astigmatism_target
description: Target astigmatism, typically specified in Angstroms. Data providers
may specify alternative units by including the unit in the QuantityValue.
from_schema: http://w3id.org/lambda/
rank: 1000
alias: astigmatism_target
owner: ExperimentRun
domain_of:
- ExperimentRun
range: QuantityValue
inlined: true
coma:
name: coma
description: Coma aberration, typically specified in nanometers. Data providers
may specify alternative units by including the unit in the QuantityValue.
from_schema: http://w3id.org/lambda/
rank: 1000
alias: coma
owner: ExperimentRun
domain_of:
- ExperimentRun
range: QuantityValue
inlined: true
stage_tilt:
name: stage_tilt
description: Fixed stage tilt angle for a single-orientation acquisition, typically
specified in degrees. Data providers may specify alternative units by including
the unit in the QuantityValue.
comments:
- For a tilt series, use tilt_angle_min, tilt_angle_max, and tilt_angle_increment
rather than this slot.
from_schema: http://w3id.org/lambda/
rank: 1000
alias: stage_tilt
owner: ExperimentRun
domain_of:
- ExperimentRun
range: QuantityValue
inlined: true
tilting_scheme:
name: tilting_scheme
description: Stage tilting scheme used during data collection. Use `none` for
untilted acquisitions such as single-particle collection; the other values describe
tomographic and continuous-rotation (MicroED) collection.
from_schema: http://w3id.org/lambda/
rank: 1000
alias: tilting_scheme
owner: ExperimentRun
domain_of:
- ExperimentRun
range: TiltingSchemeEnum
tilt_angle_min:
name: tilt_angle_min
description: Lowest (most negative) tilt angle in the tilt series, typically specified
in degrees. Data providers may specify alternative units by including the unit
in the QuantityValue.
from_schema: http://w3id.org/lambda/
exact_mappings:
- mmCIF:_em_imaging.tilt_angle_min
- mmCIF:_em_tomography.axis1_min_angle
rank: 1000
alias: tilt_angle_min
owner: ExperimentRun
domain_of:
- ExperimentRun
range: QuantityValue
inlined: true
tilt_angle_max:
name: tilt_angle_max
description: Highest (most positive) tilt angle in the tilt series, typically
specified in degrees. Data providers may specify alternative units by including
the unit in the QuantityValue.
from_schema: http://w3id.org/lambda/
exact_mappings:
- mmCIF:_em_imaging.tilt_angle_max
- mmCIF:_em_tomography.axis1_max_angle
rank: 1000
alias: tilt_angle_max
owner: ExperimentRun
domain_of:
- ExperimentRun
range: QuantityValue
inlined: true
tilt_angle_increment:
name: tilt_angle_increment
description: Tilt angle increment between successive tilt steps. Data providers
may specify alternative units by including the unit in the QuantityValue.
from_schema: http://w3id.org/lambda/
exact_mappings:
- mmCIF:_em_tomography.axis1_angle_increment
rank: 1000
alias: tilt_angle_increment
owner: ExperimentRun
domain_of:
- ExperimentRun
range: QuantityValue
inlined: true
tilt_axis_angle:
name: tilt_axis_angle
description: In-plane azimuth of the tilt axis relative to the detector x-axis,
typically specified in degrees. Required for tilt series alignment and reconstruction.
from_schema: http://w3id.org/lambda/
rank: 1000
alias: tilt_axis_angle
owner: ExperimentRun
domain_of:
- ExperimentRun
range: QuantityValue
inlined: true
number_of_tilt_images:
name: number_of_tilt_images
description: Number of images collected in the tilt series
comments:
- For a symmetric series this is usually (tilt_angle_max - tilt_angle_min) / tilt_angle_increment
+ 1, but record the actual count since tilts are often skipped or discarded.
from_schema: http://w3id.org/lambda/
rank: 1000
alias: number_of_tilt_images
owner: ExperimentRun
domain_of:
- ExperimentRun
range: QuantityValue
inlined: true
dose_per_tilt:
name: dose_per_tilt
description: Electron dose applied at each tilt step, typically specified in e-/Angstrom^2.
Data providers may specify alternative units by including the unit in the QuantityValue.
comments:
- Use total_dose for the accumulated dose across the whole tilt series.
from_schema: http://w3id.org/lambda/
close_mappings:
- mmCIF:_em_image_recording.avg_electron_dose_per_image
rank: 1000
alias: dose_per_tilt
owner: ExperimentRun
domain_of:
- ExperimentRun
range: QuantityValue
inlined: true
dual_tilt_axis_rotation:
name: dual_tilt_axis_rotation
description: Rotation between the two tilt axes in a dual-axis tomography acquisition,
typically specified in degrees. Omit for the far more common single-axis case.
from_schema: http://w3id.org/lambda/
exact_mappings:
- mmCIF:_em_tomography.dual_tilt_axis_rotation
rank: 1000
alias: dual_tilt_axis_rotation
owner: ExperimentRun
domain_of:
- ExperimentRun
range: QuantityValue
inlined: true
fiducial_size:
name: fiducial_size
description: Size of fiducial markers used for tomographic alignment. Data providers
may specify alternative units by including the unit in the QuantityValue.
from_schema: http://w3id.org/lambda/
rank: 1000
alias: fiducial_size
owner: ExperimentRun
domain_of:
- ExperimentRun
range: QuantityValue
inlined: true
rotation_rate:
name: rotation_rate
description: Continuous rotation rate during data collection (e.g., for MicroED).
Data providers may specify alternative units by including the unit in the QuantityValue.
comments:
- 'For the extent of a continuous-rotation sweep, use the rotation-method slots
shared with the diffraction techniques: start_angle, sweep_start, sweep_end,
total_rotation, and oscillation_angle.'
from_schema: http://w3id.org/lambda/
rank: 1000
alias: rotation_rate
owner: ExperimentRun
domain_of:
- ExperimentRun
range: QuantityValue
inlined: true
camera_length:
name: camera_length
description: Camera length for electron diffraction (e.g., MicroED). Data providers
may specify alternative units by including the unit in the QuantityValue.
from_schema: http://w3id.org/lambda/
rank: 1000
alias: camera_length
owner: ExperimentRun
domain_of:
- ExperimentRun
range: QuantityValue
inlined: true
frames_per_second:
name: frames_per_second
description: Frame acquisition rate. Data providers may specify alternative units
by including the unit in the QuantityValue.
from_schema: http://w3id.org/lambda/
rank: 1000
alias: frames_per_second
owner: ExperimentRun
domain_of:
- ExperimentRun
range: QuantityValue
inlined: true
autoloader_slot:
name: autoloader_slot
description: Autoloader slot identifier
from_schema: http://w3id.org/lambda/
rank: 1000
alias: autoloader_slot
owner: ExperimentRun
domain_of:
- ExperimentRun
range: string
shots_per_hole:
name: shots_per_hole
description: Number of shots taken per hole
from_schema: http://w3id.org/lambda/
rank: 1000
alias: shots_per_hole
owner: ExperimentRun
domain_of:
- ExperimentRun
range: QuantityValue
inlined: true
holes_per_group:
name: holes_per_group
description: Number of holes per group. Data providers may include unit information
in the QuantityValue if needed.
from_schema: http://w3id.org/lambda/
rank: 1000
alias: holes_per_group
owner: ExperimentRun
domain_of:
- ExperimentRun
range: QuantityValue
inlined: true
acquisition_software:
name: acquisition_software
description: Acquisition software used (e.g., SerialEM, EPU, Leginon)
from_schema: http://w3id.org/lambda/
rank: 1000
alias: acquisition_software
owner: ExperimentRun
domain_of:
- ExperimentRun
range: string
acquisition_software_version:
name: acquisition_software_version
description: Version of acquisition software
from_schema: http://w3id.org/lambda/
rank: 1000
alias: acquisition_software_version
owner: ExperimentRun
domain_of:
- ExperimentRun
range: string
detector:
name: detector
description: Run-specific detector identifier or detector component used for data
collection. Use this when a beamline/instrument can operate with multiple or
swappable detectors and the detector identity is specific to this ExperimentRun.
comments:
- This is optional and distinct from Instrument-level detector model/manufacturer
metadata.
- Use ExperimentInstrumentAssociation with role=detector when the detector is
modeled as a separate Instrument record.
from_schema: http://w3id.org/lambda/
aliases:
- detector_id
- detector_name
rank: 1000
alias: detector
owner: ExperimentRun
domain_of:
- ExperimentRun
range: string
wavelength:
name: wavelength
description: X-ray wavelength, typically specified in Angstroms (Å). Data providers
may specify alternative units by including the unit in the QuantityValue.
from_schema: http://w3id.org/lambda/
aliases:
- wavelength_a
exact_mappings:
- nsls2:Wavelength
- imgCIF:_diffrn_radiation_wavelength.wavelength
- mmCIF:_diffrn_radiation_wavelength.wavelength
- ispyb:DataCollection.wavelength
alias: wavelength
owner: ExperimentRun
domain_of:
- SANSSource
- ExperimentRun
range: QuantityValue
inlined: true
energy:
name: energy
description: X-ray beam energy for this run. Data providers may specify eV, keV,
or another appropriate energy unit in the QuantityValue.
from_schema: http://w3id.org/lambda/
aliases:
- beam_energy
exact_mappings:
- nsls2:Energy
- ispyb:DataCollection.energy
alias: energy
owner: ExperimentRun
domain_of:
- SANSSource
- ExperimentRun
- DataCollectionStrategy
range: QuantityValue
inlined: true
oscillation_angle:
name: oscillation_angle
description: Oscillation angle per image, typically specified in degrees. Data
providers may specify alternative units by including the unit in the QuantityValue.
from_schema: http://w3id.org/lambda/
aliases:
- oscillation_width
- oscillation_per_image_deg
exact_mappings:
- nsls2:Angle_increment
- imgCIF:_diffrn_scan_axis.angle_increment
- mmCIF:_diffrn_scan.angle_increment
- ispyb:DataCollection.axisRange
rank: 1000
alias: oscillation_angle
owner: ExperimentRun
domain_of:
- ExperimentRun
range: QuantityValue
inlined: true
start_angle:
name: start_angle
description: Starting rotation angle, typically specified in degrees. Data providers
may specify alternative units by including the unit in the QuantityValue.
from_schema: http://w3id.org/lambda/
exact_mappings:
- nsls2:Start_angle
- imgCIF:_diffrn_scan_axis.angle_start
- ispyb:DataCollection.axisStart
rank: 1000
alias: start_angle
owner: ExperimentRun
domain_of:
- ExperimentRun
range: QuantityValue
inlined: true
sweep_start:
name: sweep_start
description: Starting angle of an X-ray oscillation sweep, typically specified
in degrees. For multi-sweep collections, use the value for this run or acquisition
segment.
from_schema: http://w3id.org/lambda/
exact_mappings:
- imgCIF:_diffrn_scan_axis.angle_start
- ispyb:DataCollection.axisStart
rank: 1000
alias: sweep_start
owner: ExperimentRun
domain_of:
- ExperimentRun
- DataCollectionStrategy
range: QuantityValue
inlined: true
sweep_end:
name: sweep_end
description: Ending angle of an X-ray oscillation sweep, typically specified in
degrees.
from_schema: http://w3id.org/lambda/
rank: 1000
alias: sweep_end
owner: ExperimentRun
domain_of:
- ExperimentRun
- DataCollectionStrategy
range: QuantityValue
inlined: true
number_of_images:
name: number_of_images
description: Total number of diffraction images collected
from_schema: http://w3id.org/lambda/
rank: 1000
alias: number_of_images
owner: ExperimentRun
domain_of:
- ExperimentRun
range: QuantityValue
inlined: true
beam_center_x:
name: beam_center_x
description: Beam center X coordinate, typically specified in pixels ([px]). Data
providers may specify alternative units by including the unit in the QuantityValue.
from_schema: http://w3id.org/lambda/
exact_mappings:
- nsls2:Beam_xy_x
- imgCIF:_diffrn_detector.beam_centre_x
- mmCIF:_diffrn_detector.beam_center_x
- ispyb:DataCollection.xBeam
rank: 1000
alias: beam_center_x
owner: ExperimentRun
domain_of:
- ExperimentRun
range: QuantityValue
inlined: true
beam_center_y:
name: beam_center_y
description: Beam center Y coordinate, typically specified in pixels ([px]). Data
providers may specify alternative units by including the unit in the QuantityValue.
from_schema: http://w3id.org/lambda/
exact_mappings:
- nsls2:Beam_xy_y
- imgCIF:_diffrn_detector.beam_centre_y
- mmCIF:_diffrn_detector.beam_center_y
- ispyb:DataCollection.yBeam
rank: 1000
alias: beam_center_y
owner: ExperimentRun
domain_of:
- ExperimentRun
range: QuantityValue
inlined: true
beam_center_pixels:
name: beam_center_pixels
description: Combined beam center pixel coordinates as reported by systems such
as NSLS-II AMX. Use beam_center_x and beam_center_y when coordinates are represented
as separate run-level values.
from_schema: http://w3id.org/lambda/
aliases:
- beam_center
rank: 1000
alias: beam_center_pixels
owner: ExperimentRun
domain_of:
- ExperimentRun
- DataCollectionStrategy
range: BeamCenterPixels
inlined: true
detector_distance:
name: detector_distance
description: Distance from sample to detector, typically specified in millimeters
(mm). Data providers may specify alternative units by including the unit in
the QuantityValue.
from_schema: http://w3id.org/lambda/
aliases:
- detector_distance_mm
exact_mappings:
- nsls2:Detector_distance
- imgCIF:_diffrn_measurement.sample_detector_distance
- mmCIF:_diffrn_detector.distance
- ispyb:DataCollection.detectorDistance
rank: 1000
alias: detector_distance
owner: ExperimentRun
domain_of:
- ExperimentRun
range: QuantityValue
inlined: true
pixel_size_x:
name: pixel_size_x
description: Pixel size X dimension, typically specified in micrometers (µm).
Data providers may specify alternative units (e.g., Angstroms) by including
the unit in the QuantityValue.
comments:
- 'imgCIF: _array_element_size.size[1]'
from_schema: http://w3id.org/lambda/
exact_mappings:
- nsls2:Pixel_size_x
- imgCIF:_array_element_size.size
alias: pixel_size_x
owner: ExperimentRun
domain_of:
- SANSDetector
- ExperimentRun
range: QuantityValue
inlined: true
pixel_size_y:
name: pixel_size_y
description: Pixel size Y dimension, typically specified in micrometers (µm).
Data providers may specify alternative units (e.g., Angstroms) by including
the unit in the QuantityValue.
comments:
- 'imgCIF: _array_element_size.size[2]'
from_schema: http://w3id.org/lambda/
exact_mappings:
- nsls2:Pixel_size_y
- imgCIF:_array_element_size.size
alias: pixel_size_y
owner: ExperimentRun
domain_of:
- SANSDetector
- ExperimentRun
range: QuantityValue
inlined: true
total_rotation:
name: total_rotation
description: Total rotation range collected, typically specified in degrees. Data
providers may specify alternative units by including the unit in the QuantityValue.
from_schema: http://w3id.org/lambda/
exact_mappings:
- nsls2:Total_rotation_deg
- imgCIF:_diffrn_scan_axis.angle_range
rank: 1000
alias: total_rotation
owner: ExperimentRun
domain_of:
- ExperimentRun
range: QuantityValue
inlined: true
transmission:
name: transmission
description: X-ray beam transmission as a percentage (0-100). Data providers may
specify as a decimal fraction or percentage by including the unit in the QuantityValue.
comments:
- Percentage of full beam intensity used
from_schema: http://w3id.org/lambda/
aliases:
- attenuation
- transmission_percent
exact_mappings:
- ispyb:DataCollection.transmission
rank: 1000
alias: transmission
owner: ExperimentRun
domain_of:
- ExperimentRun
range: QuantityValue
inlined: true
flux:
name: flux
description: Photon flux at sample position, typically specified in photons per
second. Data providers may specify alternative units by including the unit in
the QuantityValue.
comments:
- Measured or calculated photon flux
from_schema: http://w3id.org/lambda/
exact_mappings:
- ispyb:DataCollection.flux
alias: flux
owner: ExperimentRun
domain_of:
- SANSSource
- ExperimentRun
- XRFImage
range: QuantityValue
inlined: true
flux_end:
name: flux_end
description: Photon flux at end of data collection, typically specified in photons
per second. Data providers may specify alternative units by including the unit
in the QuantityValue.
from_schema: http://w3id.org/lambda/
exact_mappings:
- ispyb:DataCollection.flux_end
rank: 1000
alias: flux_end
owner: ExperimentRun
domain_of:
- ExperimentRun
range: QuantityValue
inlined: true
slit_gap_horizontal:
name: slit_gap_horizontal
description: Horizontal slit gap aperture, typically specified in micrometers
(µm). Data providers may specify alternative units by including the unit in
the QuantityValue.
from_schema: http://w3id.org/lambda/
exact_mappings:
- ispyb:DataCollection.slitGapHorizontal
rank: 1000
alias: slit_gap_horizontal
owner: ExperimentRun
domain_of:
- ExperimentRun
range: QuantityValue
inlined: true
slit_gap_vertical:
name: slit_gap_vertical
description: Vertical slit gap aperture, typically specified in micrometers (µm).
Data providers may specify alternative units by including the unit in the QuantityValue.
from_schema: http://w3id.org/lambda/
exact_mappings:
- ispyb:DataCollection.slitGapVertical
rank: 1000
alias: slit_gap_vertical
owner: ExperimentRun
domain_of:
- ExperimentRun
range: QuantityValue
inlined: true
undulator_gap:
name: undulator_gap
description: Undulator gap setting, typically specified in millimeters (mm). Data
providers may specify alternative units by including the unit in the QuantityValue.
Primary undulator gap for beamlines with insertion devices.
comments:
- Primary undulator gap for beamlines with insertion devices
from_schema: http://w3id.org/lambda/
exact_mappings:
- ispyb:DataCollection.undulatorGap1
rank: 1000
alias: undulator_gap
owner: ExperimentRun
domain_of:
- ExperimentRun
range: QuantityValue
inlined: true
synchrotron_mode:
name: synchrotron_mode
description: Synchrotron storage ring fill mode
comments:
- e.g., 'Top-up', 'Decay', 'Hybrid'
from_schema: http://w3id.org/lambda/
exact_mappings:
- ispyb:DataCollection.synchrotronMode
rank: 1000
alias: synchrotron_mode
owner: ExperimentRun
domain_of:
- ExperimentRun
range: string
exposure_time:
name: exposure_time
description: Exposure time per image, typically specified in seconds (s). Data
providers may specify alternative units by including the unit in the QuantityValue.
from_schema: http://w3id.org/lambda/
exact_mappings:
- nsls2:Exposure_time
- ispyb:DataCollection.exposureTime
rank: 1000
alias: exposure_time
owner: ExperimentRun
domain_of:
- ExperimentRun
- Image
- ExperimentalConditions
- DataCollectionStrategy
range: QuantityValue
inlined: true
start_time:
name: start_time
description: Data collection start timestamp
from_schema: http://w3id.org/lambda/
exact_mappings:
- ispyb:DataCollection.startTime
rank: 1000
alias: start_time
owner: ExperimentRun
domain_of:
- ExperimentRun
range: string
end_time:
name: end_time
description: Data collection end timestamp
from_schema: http://w3id.org/lambda/
exact_mappings:
- ispyb:DataCollection.endTime
rank: 1000
alias: end_time
owner: ExperimentRun
domain_of:
- ExperimentRun
range: string
resolution:
name: resolution
description: Resolution at edge of detector, typically specified in Angstroms
(Å). Data providers may specify alternative units by including the unit in the
QuantityValue.
from_schema: http://w3id.org/lambda/
exact_mappings:
- ispyb:DataCollection.resolution
rank: 1000
alias: resolution
owner: ExperimentRun
domain_of:
- ExperimentRun
- QualityMetrics
range: QuantityValue
inlined: true
resolution_at_corner:
name: resolution_at_corner
description: Resolution at corner of detector, typically specified in Angstroms
(Å). Data providers may specify alternative units by including the unit in the
QuantityValue.
from_schema: http://w3id.org/lambda/
exact_mappings:
- ispyb:DataCollection.resolutionAtCorner
rank: 1000
alias: resolution_at_corner
owner: ExperimentRun
domain_of:
- ExperimentRun
range: QuantityValue
inlined: true
ispyb_data_collection_id:
name: ispyb_data_collection_id
description: ISPyB DataCollection.dataCollectionId for traceability
from_schema: http://w3id.org/lambda/
rank: 1000
alias: ispyb_data_collection_id
owner: ExperimentRun
domain_of:
- ExperimentRun
range: QuantityValue
inlined: true
ispyb_session_id:
name: ispyb_session_id
description: ISPyB BLSession.sessionId
from_schema: http://w3id.org/lambda/
rank: 1000
alias: ispyb_session_id
owner: ExperimentRun
domain_of:
- ExperimentRun
range: QuantityValue
inlined: true
id:
name: id
description: Globally unique identifier as an IRI or CURIE for machine processing
and external references. Used for linking data across systems and semantic web
integration.
from_schema: http://w3id.org/lambda/
rank: 1000
identifier: true
alias: id
owner: ExperimentRun
domain_of:
- NamedThing
- Attribute
range: uriorcurie
required: true
title:
name: title
description: A human-readable name or title for this entity
from_schema: http://w3id.org/lambda/
rank: 1000
slot_uri: dcterms:title
alias: title
owner: ExperimentRun
domain_of:
- NamedThing
range: string
description:
name: description
description: A detailed textual description of this entity
from_schema: http://w3id.org/lambda/
rank: 1000
alias: description
owner: ExperimentRun
domain_of:
- NamedThing
- AttributeGroup
- SampleComponentInteraction
range: string