Adding Instrument metadata to an Image in OMERO

add_instrument_metadata.py

# See https://www.openmicroscopy.org/community/viewtopic.php?f=4&t=8397#p18758

import omero
from omero.gateway import BlitzGateway
from omero.model import InstrumentI, MicroscopeI, ObjectiveSettingsI, ObjectiveI
from omero.rtypes import rstring, rdouble

conn = BlitzGateway("user", "password", host="server.org", port=4064)
conn.connect()

image_id = 72495

update_service = conn.getUpdateService()

# Objects listed at http://docs.openmicroscopy.org/latest/omero/developers/Model/EveryObject.html
microscope = MicroscopeI()
microscope.manufacturer = rstring("XYZ Microscope Co")
microscope.model = rstring("ABC-123")

# To see enumeration types:, e.g. ['MicroscopeType', 'Immersion',...]
# conn.getEnumerations()

# To see values for a particular enumeration: e.g. ['Upright', 'Inverted',...]
# for t in conn.getEnumerationEntries('MicroscopeType'):
#     print t.getValue()

# Lookup the enumeration we need
t = conn.getTypesService().getEnumeration('MicroscopeType', 'Upright')
microscope.type = t

instrument = InstrumentI()
instrument.microscope = microscope

# Objective and Objective Settings.
objective = ObjectiveI()
objective.nominalMagnification = rdouble(40)
i = conn.getTypesService().getEnumeration('Immersion', 'Oil')
objective.immersion = i
c = conn.getTypesService().getEnumeration('Correction', 'PlanApo')
objective.correction = c
objective.instrument = instrument

obj_settings = ObjectiveSettingsI()
obj_settings.objective = objective

# Image
image = conn.getQueryService().get('Image', image_id)
image.instrument = instrument
image.objectiveSettings = obj_settings

update_service.saveObject(image)

conn.close()