Add ophys devices from ndx-ophys-devices #22
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alessandratrapani
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use_updated_ndx_template
alessandratrapani
changed the base branch from
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main
* update to new template * add ndx-ophys-devices as requirement * Import ndx-ophys-devices first * minor fixes --------- Co-authored-by: rly <rly@lbl.gov>
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Entity relationship diagram
%%{init: {'theme': 'base', 'themeVariables': {'primaryColor': '#ffffff', "primaryBorderColor': '#144E73', 'lineColor': '#D96F32'}}}%% classDiagram direction BT class MicroscopySeries { <<TimeSeries>> -------------------------------------- links -------------------------------------- microscope : Microscope excitation_light_path : ExcitationLightPath emission_light_path : EmissionLightPath } class PlanarMicroscopySeries { <<MicroscopySeries>> -------------------------------------- datasets -------------------------------------- data : numeric, frame x height x width --> unit : text -------------------------------------- links -------------------------------------- imaging_space : PlanarImagingSpace } class VariableDepthMicroscopySeries { <<MicroscopySeries>> -------------------------------------- datasets -------------------------------------- data : numeric, frame x height x width --> unit : text depth_per_frame_in_um : numeric, length of frames -------------------------------------- links -------------------------------------- imaging_space : PlanarImagingSpace } class VolumetricMicroscopySeries { <<MicroscopySeries>> -------------------------------------- datasets -------------------------------------- data : numeric, frame x height x width x depth --> unit : text -------------------------------------- links -------------------------------------- imaging_space : VolumetricImageSpace } class MultiChannelMicroscopyVolume { <<NWBDataInterface>> -------------------------------------- attributes -------------------------------------- description : text, optional unit : text, optional conversion : numeric, optional offset : numeric, optional -------------------------------------- datasets -------------------------------------- data : numeric, frame x height x width x depth x emission_light_paths --> unit : text excitation_light_paths : ExcitationLightPath, excitation_light_paths emission_light_paths : EmissionLightPath, emission_light_paths -------------------------------------- links -------------------------------------- imaging_space : VolumetricImageSpace microscope : Microscope } class ImagingSpace{ <<NWBContainer>> -------------------------------------- datasets -------------------------------------- description : text origin_coordinates : numeric, length 3, optional --> unit : text, default="micrometers" -------------------------------------- attributes -------------------------------------- location : text, optional } class PlanarImagingSpace{ <<ImagingSpace>> -------------------------------------- datasets -------------------------------------- grid_spacing : numeric, length 2, optional --> unit : text, default="micrometers" -------------------------------------- attributes -------------------------------------- reference_frame : text, optional } class VolumetricImagingSpace{ <<ImagingSpace>> -------------------------------------- datasets -------------------------------------- grid_spacing : numeric, length 2, optional --> unit : text, default="micrometers" -------------------------------------- attributes -------------------------------------- reference_frame : text, optional } class ExcitationLightPath{ <<NWBContainer>> -------------------------------------- links -------------------------------------- excitation_source : ExcitationSource, optional excitation_filter : OpticalFilter, optional -------------------------------------- attributes -------------------------------------- excitation_wavelength_in_nm : numeric } class EmissionLightPath{ <<NWBContainer>> -------------------------------------- links -------------------------------------- photodetector : Photodetector, optional emission_filter : OpticalFilter, optional indicator: Indicator -------------------------------------- attributes -------------------------------------- emission_wavelength_in_nm : numeric } class Microscope{ <<Device>> -------------------------------------- attributes -------------------------------------- model : text, optional } PlanarMicroscopySeries *-- MicroscopySeries : extends PlanarMicroscopySeries -- PlanarImagingSpace : links VariableDepthMicroscopySeries *-- MicroscopySeries : extends VariableDepthMicroscopySeries -- PlanarImagingSpace : links VolumetricMicroscopySeries *-- MicroscopySeries : extends VolumetricMicroscopySeries -- VolumetricImagingSpace : links MultiChannelMicroscopyVolume *-- MicroscopySeries : extends MultiChannelMicroscopyVolume -- VolumetricImagingSpace : links PlanarImagingSpace *-- ImagingSpace : extends VolumetricImagingSpace *-- ImagingSpace : extends MicroscopySeries ..> Microscope : links MicroscopySeries ..> ExcitationLightPath : links MicroscopySeries ..> EmissionLightPath : links