GotthardG
248085b3c4
Updated several frontend dependencies including MUI packages and added new ones like `@mui/x-charts`. Adjusted the Python path setup in the CI configuration to correctly point to the `aaredb` backend, ensuring accurate module resolution.
58 KiB
58 KiB
In [1]:
import json #from nbclient.client import timestamp import backend.aareDBclient as aareDBclient from aareDBclient.rest import ApiException from pprint import pprint from app.schemas import characterizationParameters, ResultCreate #from app.data.data import sample #from aareDBclient import SamplesApi, ShipmentsApi, PucksApi #from aareDBclient.models import SampleEventCreate, SetTellPosition #from examples.examples import api_response print(aareDBclient.__version__) configuration = aareDBclient.Configuration( #host = "https://mx-aare-test.psi.ch:1492" host = "https://127.0.0.1:8000" ) print(configuration.host) configuration.verify_ssl = False # Disable SSL verification #print(dir(SamplesApi))
0.1.0a26 https://127.0.0.1:8000
In [ ]:
## Fetch all Shipments, list corresponding dewars and pucks from datetime import date, datetime from aareDBclient import ShipmentsApi, SamplesApi, GridScanParamers from aareDBclient.models import Shipment with aareDBclient.ApiClient(configuration) as api_client: api_instance = aareDBclient.ShipmentsApi(api_client) try: # Fetch all shipments all_shipments_response = api_instance.fetch_shipments_shipments_get() # Print shipment names and their associated puck names for shipment in all_shipments_response: print(f"Shipment ID: {shipment.id}, Shipment Name: {shipment.shipment_name}") if hasattr(shipment, 'dewars') and shipment.dewars: # Ensure 'dewars' exists for dewar in shipment.dewars: print(f" Dewar ID: {dewar.id}, Dewar Name: {dewar.dewar_name}, Dewar Unique ID: {dewar.unique_id} ") if hasattr(dewar, 'pucks') and dewar.pucks: # Ensure 'pucks' exists for puck in dewar.pucks: print(f" Puck ID: {puck.id}, Puck Name: {puck.puck_name}") else: print(" No pucks found in this dewar.") else: print(" No dewars found in this shipment.") except ApiException as e: print(f"Exception when calling ShipmentsApi->fetch_shipments_shipments_get: {e}")
In [43]:
from datetime import date from aareDBclient import LogisticsApi from aareDBclient.models import LogisticsEventCreate # Import required model with aareDBclient.ApiClient(configuration) as api_client: api_instance = aareDBclient.LogisticsApi(api_client) try: # Create payload using the required model logistics_event_create = LogisticsEventCreate( dewar_qr_code='923db239427869be', location_qr_code='A2-X06SA', transaction_type='incoming', timestamp=date.today() # Adjust if the API expects datetime ) # Pass the payload to the API function api_response = api_instance.scan_dewar_logistics_dewar_scan_post( logistics_event_create=logistics_event_create # Pass as an object ) print("API Response:", api_response) except ApiException as e: print(f"Exception when calling LogisticsApi->scan_dewar_logistics_dewar_scan_post: {e}") try: # Create payload using the required model logistics_event_create = LogisticsEventCreate( dewar_qr_code='923db239427869be', location_qr_code='A2-X06SA', transaction_type='refill', timestamp=date.today() # Adjust if the API expects datetime ) # Pass the payload to the API function api_response = api_instance.scan_dewar_logistics_dewar_scan_post( logistics_event_create=logistics_event_create # Pass as an object ) print("API Response:", api_response) except ApiException as e: print(f"Exception when calling LogisticsApi->scan_dewar_logistics_dewar_scan_post: {e}") try: # Create payload using the required model logistics_event_create = LogisticsEventCreate( dewar_qr_code='923db239427869be', location_qr_code='X06DA-Beamline', transaction_type='beamline', timestamp=date.today() # Adjust if the API expects datetime ) # Pass the payload to the API function api_response = api_instance.scan_dewar_logistics_dewar_scan_post( logistics_event_create=logistics_event_create # Pass as an object ) print("API Response:", api_response) except ApiException as e: print(f"Exception when calling LogisticsApi->scan_dewar_logistics_dewar_scan_post: {e}")
--------------------------------------------------------------------------- TypeError Traceback (most recent call last) Cell In[43], line 19 15 try: 16 with open(file_path, "rb") as file_data: 17 # Use the low-level call_api method; note that the files parameter here is 18 # a dictionary with key matching the FastAPI parameter name. ---> 19 response = api_client.call_api( 20 f"/{sample_id}/upload_images", 21 "POST", 22 path_params={"sample_id": sample_id}, 23 files={"uploaded_file": (filename, file_data, mime_type)} 24 ) 25 print("API Response:") 26 print(response) TypeError: ApiClient.call_api() got an unexpected keyword argument 'path_params'
In [2]:
# Get a list of pucks that are "at the beamline" with aareDBclient.ApiClient(configuration) as api_client: # Create an instance of the API class api_instance = aareDBclient.PucksApi(api_client) get_pucks_at_beamline = aareDBclient.PucksApi(api_client) try: # Create Return Address api_response = api_instance.get_pucks_by_slot_pucks_slot_slot_identifier_get(slot_identifier='X06DA') print("The response of PucksApi->get_pucks_by_slot_pucks_slot_slot_identifier_get:\n") pprint(api_response) except ApiException as e: print("Exception when calling PucksApi->get_pucks_by_slot_pucks_slot_slot_identifier_get: %s\n" % e)
The response of PucksApi->get_pucks_by_slot_pucks_slot_slot_identifier_get: [PuckWithTellPosition(id=1, puck_name='PUCK-001', puck_type='Unipuck', puck_location_in_dewar=1, dewar_id=1, dewar_name='Dewar One', pgroup='p20001', samples=None, tell_position='A2'), PuckWithTellPosition(id=2, puck_name='PUCK002', puck_type='Unipuck', puck_location_in_dewar=2, dewar_id=1, dewar_name='Dewar One', pgroup='p20001', samples=None, tell_position='A1'), PuckWithTellPosition(id=3, puck_name='PUCK003', puck_type='Unipuck', puck_location_in_dewar=3, dewar_id=1, dewar_name='Dewar One', pgroup='p20001', samples=None, tell_position='F2'), PuckWithTellPosition(id=4, puck_name='PUCK004', puck_type='Unipuck', puck_location_in_dewar=4, dewar_id=1, dewar_name='Dewar One', pgroup='p20001', samples=None, tell_position=None), PuckWithTellPosition(id=5, puck_name='PUCK005', puck_type='Unipuck', puck_location_in_dewar=5, dewar_id=1, dewar_name='Dewar One', pgroup='p20001', samples=None, tell_position=None), PuckWithTellPosition(id=6, puck_name='PUCK006', puck_type='Unipuck', puck_location_in_dewar=6, dewar_id=1, dewar_name='Dewar One', pgroup='p20001', samples=None, tell_position='F1'), PuckWithTellPosition(id=7, puck_name='PUCK007', puck_type='Unipuck', puck_location_in_dewar=7, dewar_id=1, dewar_name='Dewar One', pgroup='p20001', samples=None, tell_position=None)]
/Library/Frameworks/Python.framework/Versions/3.12/lib/python3.12/site-packages/urllib3/connectionpool.py:1097: InsecureRequestWarning: Unverified HTTPS request is being made to host '127.0.0.1'. Adding certificate verification is strongly advised. See: https://urllib3.readthedocs.io/en/latest/advanced-usage.html#tls-warnings warnings.warn(
In [78]:
from aareDBclient import SetTellPosition, SetTellPositionRequest with aareDBclient.ApiClient(configuration) as api_client: # Create an instance of the API class api_instance = aareDBclient.PucksApi(api_client) # Payload with SetTellPosition objects payload = SetTellPositionRequest( tell="X06DA", #pucks=[ # SetTellPosition(puck_name='PSIMX074', segment='B', puck_in_segment=1), # SetTellPosition(puck_name='PSIMX080', segment='B', puck_in_segment=2), # SetTellPosition(puck_name='PSIMX081', segment='C', puck_in_segment=3), # SetTellPosition(puck_name='PSIMX084', segment='C', puck_in_segment=4), # SetTellPosition(puck_name='PSIMX104', segment='E', puck_in_segment=5), # SetTellPosition(puck_name='PSIMX107', segment='E', puck_in_segment=1), # SetTellPosition(puck_name='PSIMX117', segment='F', puck_in_segment=2), #] #pucks=[ # SetTellPosition(puck_name='PSIMX074', segment='F', puck_in_segment=1), # SetTellPosition(puck_name='PSIMX080', segment='F', puck_in_segment=2), # SetTellPosition(puck_name='PSIMX107', segment='A', puck_in_segment=1), # SetTellPosition(puck_name='PSIMX117', segment='A', puck_in_segment=2), #] pucks=[ SetTellPosition(puck_name='PUCK006', segment='F', puck_in_segment=1), SetTellPosition(puck_name='PUCK003', segment='F', puck_in_segment=2), SetTellPosition(puck_name='PUCK002', segment='A', puck_in_segment=1), SetTellPosition(puck_name='PUCK001', segment='A', puck_in_segment=2), ] #pucks = [] ) # Call the PUT method to update the tell_position try: api_response = api_instance.set_tell_positions_pucks_set_tell_positions_put( set_tell_position_request=payload ) # Pass the entire payload as a single parameter print("The response of PucksApi->pucks_puck_id_tell_position_put:\n") pprint(api_response) except Exception as e: print(f"Exception when calling PucksApi: {e}")
The response of PucksApi->pucks_puck_id_tell_position_put:
[{'message': 'Tell position updated successfully.',
'new_position': 'F1',
'previous_position': None,
'puck_name': 'PUCK006',
'status': 'updated',
'tell': 'X06DA'},
{'message': 'Tell position updated successfully.',
'new_position': 'F2',
'previous_position': None,
'puck_name': 'PUCK003',
'status': 'updated',
'tell': 'X06DA'},
{'message': 'Tell position updated successfully.',
'new_position': 'A1',
'previous_position': None,
'puck_name': 'PUCK002',
'status': 'updated',
'tell': 'X06DA'},
{'message': 'Tell position updated successfully.',
'new_position': 'A2',
'previous_position': None,
'puck_name': 'PUCK001',
'status': 'updated',
'tell': 'X06DA'}]
/Library/Frameworks/Python.framework/Versions/3.12/lib/python3.12/site-packages/urllib3/connectionpool.py:1097: InsecureRequestWarning: Unverified HTTPS request is being made to host '127.0.0.1'. Adding certificate verification is strongly advised. See: https://urllib3.readthedocs.io/en/latest/advanced-usage.html#tls-warnings warnings.warn(
In [2]:
# Get puck_id puck_name sample_id sample_name of pucks in the tell with aareDBclient.ApiClient(configuration) as api_client: # Create an instance of the API class api_instance = aareDBclient.PucksApi(api_client) # GET request: Fetch all pucks in the tell try: # Call the API method to fetch pucks all_pucks_response = api_instance.get_pucks_with_tell_position_pucks_with_tell_position_get(tell='X06DA') # Debug response structure by printing it in JSON format formatted_response = json.dumps( [p.to_dict() for p in all_pucks_response], # Assuming the API response can be converted to dicts indent=4 # Use indentation for readability ) #print("The response of PucksApi->get_all_pucks_in_tell (formatted):\n") #print(formatted_response) # Iterate through each puck and print information for p in all_pucks_response: print(f"Puck ID: {p.id}, Puck Name: {p.puck_name}") ## Check if the puck has any samples if hasattr(p, 'samples') and p.samples: # Ensure 'samples' attribute exists and is not empty for sample in p.samples: print(f" Sample ID: {sample.id}, Sample Name: {sample.sample_name}, Position: {sample.position}, Mount count: {sample.mount_count}") else: print(" No samples found in this puck.") except ApiException as e: print("Exception when calling PucksApi->get_all_pucks_in_tell: %s\n" % e)
/Library/Frameworks/Python.framework/Versions/3.12/lib/python3.12/site-packages/urllib3/connectionpool.py:1097: InsecureRequestWarning: Unverified HTTPS request is being made to host '127.0.0.1'. Adding certificate verification is strongly advised. See: https://urllib3.readthedocs.io/en/latest/advanced-usage.html#tls-warnings warnings.warn(
In [2]:
sample_id = 247
In [5]:
from aareDBclient import SampleEventCreate # Create an event for a sample with aareDBclient.ApiClient(configuration) as api_client: # Instance of the API client api_instance = aareDBclient.SamplesApi(api_client) #sample_id=293 try: # Define the payload with only `event_type` sample_event_create = SampleEventCreate( sample_id=sample_id, event_type="Centering" # Valid event type #event_type="Collecting" # Valid event type ) # Debug the payload before sending print("Payload being sent to API:") print(sample_event_create.json()) # Ensure it matches `SampleEventCreate` # Call the API api_response = api_instance.create_sample_event_samples_samples_sample_id_events_post( sample_id=sample_id, # Ensure this matches a valid sample ID in the database sample_event_create=sample_event_create ) print("API response:") #pprint(api_response) for p in api_response: print(p) except ApiException as e: print("Exception when calling post_sample_event:") print(f"Status Code: {e.status}") if e.body: print(f"Error Details: {e.body}")
DEBUG:urllib3.connectionpool:Starting new HTTPS connection (1): 127.0.0.1:8000 /Library/Frameworks/Python.framework/Versions/3.12/lib/python3.12/site-packages/urllib3/connectionpool.py:1097: InsecureRequestWarning: Unverified HTTPS request is being made to host '127.0.0.1'. Adding certificate verification is strongly advised. See: https://urllib3.readthedocs.io/en/latest/advanced-usage.html#tls-warnings warnings.warn( DEBUG:urllib3.connectionpool:https://127.0.0.1:8000 "POST /samples/samples/247/events HTTP/1.1" 200 405
Payload being sent to API:
{"event_type":"Centering"}
API response:
('id', 247)
('sample_name', 'Sample247')
('position', 16)
('puck_id', 30)
('crystalname', None)
('proteinname', None)
('positioninpuck', None)
('priority', None)
('comments', None)
('data_collection_parameters', None)
('events', [SampleEventResponse(event_type='Mounting', id=482, sample_id=247, timestamp=datetime.datetime(2025, 3, 13, 13, 39)), SampleEventResponse(event_type='Centering', id=483, sample_id=247, timestamp=datetime.datetime(2025, 3, 14, 20, 35, 49))])
('mount_count', 0)
('unmount_count', 0)
In [ ]:
### not working with aareDBclient.ApiClient(configuration) as api_client: # Create an instance of the Samples API class api_instance = aareDBclient.SamplesApi(api_client) try: # Get the last sample event last_event_response = api_instance.get_last_sample_event_samples_samples_sample_id_events_last_get(27) print("The response of get_last_sample_event:\n") pprint(last_event_response) except ApiException as e: print("Exception when calling get_last_sample_event: %s\n" % e)
In [12]:
# Post multiple images to the sample database import os import mimetypes import requests # List of file paths to the images you want to upload #file_paths = [ # "backend/tests/sample_image/0_200.jpg", # "backend/tests/sample_image/90_200.jpg", # "backend/tests/sample_image/0_700.jpg", # "backend/tests/sample_image/90_700.jpg", #] #file_paths = ["backend/tests/sample_image/mount.jpeg.jpg"] #file_paths = [ # "backend/tests/sample_image/bb_raster_90.jpg" #] file_paths = ["backend/tests/sample_image/after_dc.jpeg.jpg"] # Base URL for the upload endpoint url = f"https://127.0.0.1:8000/samples/{sample_id}/upload-images" # Iterate through each file and upload it for file_path in file_paths: # Determine file name and MIME type filename = os.path.basename(file_path) mime_type, _ = mimetypes.guess_type(file_path) if mime_type is None: mime_type = "application/octet-stream" # Open the file for uploading with open(file_path, "rb") as file_data: files = { # Use key "uploaded_file" as required by your API "uploaded_file": (filename, file_data, mime_type) } headers = { "accept": "application/json" } # Send the POST request print(f"Uploading {filename}...") response = requests.post(url, headers=headers, files=files, verify=False) # Check the API response print(f"API Response for {filename}:") print(response.status_code) try: print(response.json()) except Exception: print(response.text)
DEBUG:urllib3.connectionpool:Starting new HTTPS connection (1): 127.0.0.1:8000 /Library/Frameworks/Python.framework/Versions/3.12/lib/python3.12/site-packages/urllib3/connectionpool.py:1097: InsecureRequestWarning: Unverified HTTPS request is being made to host '127.0.0.1'. Adding certificate verification is strongly advised. See: https://urllib3.readthedocs.io/en/latest/advanced-usage.html#tls-warnings warnings.warn( DEBUG:urllib3.connectionpool:https://127.0.0.1:8000 "POST /samples/247/upload-images HTTP/1.1" 200 205
Uploading after_dc.jpeg.jpg...
API Response for after_dc.jpeg.jpg:
200
{'pgroup': 'p20003', 'sample_id': 247, 'sample_event_id': 486, 'filepath': 'images/p20003/2025-03-14/Dewar Five/PKK007/16/Collecting_2025-03-14_20-54-48/after_dc.jpeg.jpg', 'status': 'active', 'comment': None, 'id': 8}
In [ ]:
help(api_instance.upload_sample_images_samples_samples_sample_id_upload_images_post)
In [11]:
# post experiment results to sample database from aareDBclient.models import ( ExperimentParametersCreate, RotationParameters, BeamlineParameters, GridScanParamers ) # Build the nested parameters rotation = RotationParameters( omegaStart_deg=0.0, omegaStep=0.1, phi=10.0, chi=0.0, numberOfImages=3600, exposureTime_s=0.02 ) #characterization = characterizationParameters( # omegaStart_deg=0.0, # omegaStep=90.0, # oscillation_deg=1.0, # phi=10.0, # chi=0.0, # numberOfImages=4, # exposureTime_s=0.02 #) #gridscan = GridScanParamers( # xStart=90.0, # xStep=0.1, # yStart=0.0, # yStep= 0.1, # zStart=0.0, # zStep=0.0, # numberOfImages=4600, # exposureTime_s=0.001 #) # If your client code requires you to build a detector model, # you can either use a Detector model or pass a dictionary. # Here we pass a dictionary. detector_data = { "manufacturer": "DECTRIS", "model": "PILATUS4 2M", "type": "photon-counting", "serialNumber": "16684dscsd668468", "detectorDistance_mm": 95.0, "beamCenterX_px": 512.0, "beamCenterY_px": 512.0, "pixelSizeX_um": 150.0, "pixelSizeY_um": 150.0, } beamline_params = BeamlineParameters( synchrotron="Swiss Light Source", beamline="PXIII", detector=detector_data, wavelength=1.0, ringCurrent_A=0.0, ringMode="Machine Down", monochromator="Si111", transmission=1.00, focusingOptic="Kirkpatrick-Baez", beamlineFluxAtSample_ph_s=0, beamSizeWidth=30.0, beamSizeHeight=30.0, #characterization=characterization rotation=rotation # Optional nested parameter #gridScan=gridscan # gridScan and jet are optional and can be added similarly ) # Prepare the experiment parameters payload. # Note that the run_number will be set on the server side, so you can leave # it out or set it to a dummy value if your client model requires it. experiment_params_payload = ExperimentParametersCreate( # run_number can be omitted/ignored if computed on the server beamline_parameters=beamline_params, sample_id=sample_id # change sample_id to an existing sample in your database ) # Now, use the API instance to send the POST request with aareDBclient.ApiClient(configuration) as api_client: api_instance = aareDBclient.SamplesApi(api_client) try: # Call the endpoint. The endpoint path expects the sample_id. api_response = api_instance.create_experiment_parameters_for_sample( sample_id=experiment_params_payload.sample_id, experiment_parameters_create=experiment_params_payload ) print("API Response:") print(api_response) except ApiException as e: print("Exception when calling ExperimentParametersApi->create_experiment_parameters_for_sample:") print(e)
DEBUG:urllib3.connectionpool:Starting new HTTPS connection (1): 127.0.0.1:8000 /Library/Frameworks/Python.framework/Versions/3.12/lib/python3.12/site-packages/urllib3/connectionpool.py:1097: InsecureRequestWarning: Unverified HTTPS request is being made to host '127.0.0.1'. Adding certificate verification is strongly advised. See: https://urllib3.readthedocs.io/en/latest/advanced-usage.html#tls-warnings warnings.warn( DEBUG:urllib3.connectionpool:https://127.0.0.1:8000 "POST /samples/samples/247/experiment_parameters HTTP/1.1" 200 860
API Response: run_number=3 beamline_parameters=BeamlineParameters(synchrotron='Swiss Light Source', beamline='PXIII', detector=Detector(manufacturer='DECTRIS', model='PILATUS4 2M', type='photon-counting', serial_number='16684dscsd668468', detector_distance_mm=95.0, beam_center_x_px=512.0, beam_center_y_px=512.0, pixel_size_x_um=150.0, pixel_size_y_um=150.0), wavelength=1.0, ring_current_a=0.0, ring_mode='Machine Down', undulator=None, undulatorgap_mm=None, monochromator='Si111', transmission=1.0, focusing_optic='Kirkpatrick-Baez', beamline_flux_at_sample_ph_s=0.0, beam_size_width=30.0, beam_size_height=30.0, characterization=None, rotation=RotationParameters(omega_start_deg=0.0, omega_step=0.1, chi=0.0, phi=10.0, number_of_images=3600, exposure_time_s=0.02), grid_scan=None, jet=None, cryojet_temperature_k=None, humidifier_temperature_k=None, humidifier_humidity=None) sample_id=247 id=3
In [36]:
from app.schemas import CurvePoint # %% from app.schemas import ResultCreate, Results from pprint import pprint import random import math import aareDBclient from aareDBclient.rest import ApiException # Your actual sample and experiment IDs sample_id = sample_id # Replace with valid IDs run_id = 1 # Replace with valid run_id # Function to generate list of CurvePoint (resolution, value pairs) def logarithmic_decay_curve(length, min_res=4.0, max_res=1.0, max_value=1.0, min_value=0.0, noise=0.005, decimals=3): resolutions = sorted([round(random.uniform(min_res, max_res), decimals) for _ in range(length)], reverse=True) # Reverse order curve = [] for res in resolutions: # Exponential-like decay: Higher resolution (small number) -> value ~1, Lower resolution (big number) -> value ~0 decay_factor = (res - max_res) / (min_res - max_res) # Normalize res to [0,1] value = max_value - ( math.exp(- 20 * decay_factor ) ) # Exponential decay # Add small random noise for realism noise_value = random.uniform(-noise, noise) value = min(max(value + noise_value, min_value), max_value) # Clamp between min_value and max_value curve.append(CurvePoint(resolution=res, value=round(value, decimals))) return curve # Create random Results payload results_data = Results( pipeline="autoproc", resolution=round(random.uniform(1.0, 4.0), 2), unit_cell=f"{random.uniform(20, 120):.2f}, {random.uniform(20, 120):.2f}, " f"{random.uniform(20, 120):.2f}, {random.uniform(60, 120):.2f}, " f"{random.uniform(60, 120):.2f}, {random.uniform(60, 120):.2f}", spacegroup=random.choice(['P212121', 'C2', 'P1', 'P21', 'P21212', 'P41212']), rmerge=round(random.uniform(0.02, 0.10), 3), rmeas=round(random.uniform(0.02, 0.15), 3), isig=round(random.uniform(1.0, 30.0), 2), cc=logarithmic_decay_curve(100), # List of CurvePoint for CC curve cchalf=logarithmic_decay_curve(100), # List of CurvePoint for CC(1/2) curve completeness=round(random.uniform(85.0, 100.0), 2), multiplicity=round(random.uniform(1.0, 10.0), 2), nobs=random.randint(10000, 500000), total_refl=random.randint(5000, 250000), unique_refl=random.randint(5000, 100000), comments="Random auto-generated test entry" ) payload = ResultCreate(sample_id=sample_id, run_id=run_id, result=results_data) # correct serialization, passing exact required dict structure payload_dict = { "sample_id": sample_id, "run_id": run_id, "result": results_data.model_dump(), } with aareDBclient.ApiClient(configuration) as api_client: api_instance = aareDBclient.SamplesApi(api_client) try: api_response = api_instance.create_result( result_create=payload_dict ) print("API call successful:") pprint(api_response) except ApiException as e: print(f"API call failed: {e}")
DEBUG:urllib3.connectionpool:Starting new HTTPS connection (1): 127.0.0.1:8000 /Users/gotthardg/PycharmProjects/aaredb/.venv/lib/python3.12/site-packages/urllib3/connectionpool.py:1097: InsecureRequestWarning: Unverified HTTPS request is being made to host '127.0.0.1'. Adding certificate verification is strongly advised. See: https://urllib3.readthedocs.io/en/latest/advanced-usage.html#tls-warnings warnings.warn( DEBUG:urllib3.connectionpool:https://127.0.0.1:8000 "POST /samples/processing-results HTTP/1.1" 200 7218
API call successful: ResultResponse(id=36, sample_id=247, run_id=1, result=Results(pipeline='autoproc', resolution=1.81, unit_cell='56.82, 75.31, 82.06, 91.76, 79.97, 79.75', spacegroup='P1', rmerge=0.097, rmeas=0.122, isig=13.86, cc=[CurvePoint(resolution=3.979, value=1.0), CurvePoint(resolution=3.964, value=0.997), CurvePoint(resolution=3.879, value=1.0), CurvePoint(resolution=3.814, value=0.999), CurvePoint(resolution=3.787, value=0.997), CurvePoint(resolution=3.767, value=1.0), CurvePoint(resolution=3.706, value=0.998), CurvePoint(resolution=3.68, value=1.0), CurvePoint(resolution=3.678, value=0.998), CurvePoint(resolution=3.677, value=0.998), CurvePoint(resolution=3.627, value=1.0), CurvePoint(resolution=3.619, value=1.0), CurvePoint(resolution=3.614, value=1.0), CurvePoint(resolution=3.598, value=0.998), CurvePoint(resolution=3.568, value=1.0), CurvePoint(resolution=3.477, value=0.999), CurvePoint(resolution=3.46, value=1.0), CurvePoint(resolution=3.44, value=1.0), 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In [6]:
# get experiment results to sample database with aareDBclient.ApiClient(configuration) as api_client: # Create an instance of the API class api_instance = aareDBclient.SamplesApi(api_client) # GET request: Fetch all pucks in the tell try: # Call the API method to fetch pucks all_results_response = api_instance.get_sample_results_samples_results_get(active_pgroup="p20003") pprint(all_results_response) ## Debug response structure by printing it in JSON format #formatted_response = json.dumps( # [p.to_dict() for p in all_results_response], # Assuming the API response can be converted to dicts # indent=4 # Use indentation for readability #) #print("The response of PucksApi->get_all_pucks_in_tell (formatted):\n") #print(formatted_response) ## Iterate through each puck and print information #for p in all_results_response: # print(f"Puck ID: {p.id}, Puck Name: {p.puck_name}") # # ## Check if the puck has any samples # if hasattr(p, 'samples') and p.samples: # Ensure 'samples' attribute exists and is not empty # for sample in p.samples: # print(f" Sample ID: {sample.id}, Sample Name: {sample.sample_name}, Position: {sample.position}, Mount count: {sample.mount_count}") # else: # print(" No samples found in this puck.") # except ApiException as e: print("Exception when calling PucksApi->get_all_pucks_in_tell: %s\n" % e)
DEBUG:urllib3.connectionpool:Starting new HTTPS connection (1): 127.0.0.1:8000 /Users/gotthardg/PycharmProjects/aaredb/.venv/lib/python3.12/site-packages/urllib3/connectionpool.py:1097: InsecureRequestWarning: Unverified HTTPS request is being made to host '127.0.0.1'. Adding certificate verification is strongly advised. See: https://urllib3.readthedocs.io/en/latest/advanced-usage.html#tls-warnings warnings.warn( DEBUG:urllib3.connectionpool:https://127.0.0.1:8000 "GET /samples/results?active_pgroup=p20003 HTTP/1.1" 200 7927
[SampleResult(sample_id=215, sample_name='Sample215', puck_name='PKK004', dewar_name='Dewar Five', images=[], experiment_runs=[]), SampleResult(sample_id=216, sample_name='Sample216', puck_name='PKK004', dewar_name='Dewar Five', images=[], experiment_runs=[]), SampleResult(sample_id=217, sample_name='Sample217', puck_name='PKK005', dewar_name='Dewar Five', images=[], experiment_runs=[]), SampleResult(sample_id=218, sample_name='Sample218', puck_name='PKK005', dewar_name='Dewar Five', images=[], experiment_runs=[]), SampleResult(sample_id=219, sample_name='Sample219', puck_name='PKK005', dewar_name='Dewar Five', images=[], experiment_runs=[]), SampleResult(sample_id=220, sample_name='Sample220', puck_name='PKK005', dewar_name='Dewar Five', images=[], experiment_runs=[]), SampleResult(sample_id=221, sample_name='Sample221', puck_name='PKK005', dewar_name='Dewar Five', images=[], experiment_runs=[]), SampleResult(sample_id=222, sample_name='Sample222', puck_name='PKK005', dewar_name='Dewar Five', images=[], experiment_runs=[]), SampleResult(sample_id=223, sample_name='Sample223', puck_name='PKK005', dewar_name='Dewar Five', images=[], experiment_runs=[]), SampleResult(sample_id=224, sample_name='Sample224', puck_name='PKK005', dewar_name='Dewar Five', images=[], experiment_runs=[]), SampleResult(sample_id=225, sample_name='Sample225', puck_name='PKK005', dewar_name='Dewar Five', images=[], experiment_runs=[]), SampleResult(sample_id=226, sample_name='Sample226', puck_name='PKK005', dewar_name='Dewar Five', images=[], experiment_runs=[]), SampleResult(sample_id=227, sample_name='Sample227', puck_name='PKK005', dewar_name='Dewar Five', images=[], experiment_runs=[]), SampleResult(sample_id=228, sample_name='Sample228', puck_name='PKK005', dewar_name='Dewar Five', images=[], experiment_runs=[]), SampleResult(sample_id=229, sample_name='Sample229', puck_name='PKK005', dewar_name='Dewar Five', images=[], experiment_runs=[]), SampleResult(sample_id=230, sample_name='Sample230', puck_name='PKK005', dewar_name='Dewar Five', images=[], experiment_runs=[]), SampleResult(sample_id=231, sample_name='Sample231', puck_name='PKK006', dewar_name='Dewar Five', images=[], experiment_runs=[]), SampleResult(sample_id=232, sample_name='Sample232', puck_name='PKK006', dewar_name='Dewar Five', images=[], experiment_runs=[]), SampleResult(sample_id=233, sample_name='Sample233', puck_name='PKK006', dewar_name='Dewar Five', images=[], experiment_runs=[]), SampleResult(sample_id=234, sample_name='Sample234', puck_name='PKK006', dewar_name='Dewar Five', images=[], experiment_runs=[]), SampleResult(sample_id=235, sample_name='Sample235', puck_name='PKK006', dewar_name='Dewar Five', images=[], experiment_runs=[]), SampleResult(sample_id=236, sample_name='Sample236', puck_name='PKK007', dewar_name='Dewar Five', images=[], experiment_runs=[]), SampleResult(sample_id=237, sample_name='Sample237', puck_name='PKK007', dewar_name='Dewar Five', images=[], experiment_runs=[]), SampleResult(sample_id=238, sample_name='Sample238', puck_name='PKK007', dewar_name='Dewar Five', images=[], experiment_runs=[]), SampleResult(sample_id=239, sample_name='Sample239', puck_name='PKK007', dewar_name='Dewar Five', images=[], experiment_runs=[]), SampleResult(sample_id=240, sample_name='Sample240', puck_name='PKK007', dewar_name='Dewar Five', images=[], experiment_runs=[]), SampleResult(sample_id=241, sample_name='Sample241', puck_name='PKK007', dewar_name='Dewar Five', images=[], experiment_runs=[]), SampleResult(sample_id=242, sample_name='Sample242', puck_name='PKK007', dewar_name='Dewar Five', images=[], experiment_runs=[]), SampleResult(sample_id=243, sample_name='Sample243', puck_name='PKK007', dewar_name='Dewar Five', images=[], experiment_runs=[]), SampleResult(sample_id=244, sample_name='Sample244', puck_name='PKK007', dewar_name='Dewar Five', images=[], experiment_runs=[]), SampleResult(sample_id=245, sample_name='Sample245', puck_name='PKK007', dewar_name='Dewar Five', images=[], experiment_runs=[]), SampleResult(sample_id=246, sample_name='Sample246', puck_name='PKK007', dewar_name='Dewar Five', images=[], experiment_runs=[]), SampleResult(sample_id=247, sample_name='Sample247', puck_name='PKK007', dewar_name='Dewar Five', images=[ImageInfo(id=1, filepath='images/p20003/2025-03-14/Dewar Five/PKK007/16/Mounting_2025-03-13_13-39-00/mount.jpeg.jpg', comment=None, event_type='Mounting'), ImageInfo(id=2, filepath='images/p20003/2025-03-14/Dewar Five/PKK007/16/Centering_2025-03-14_20-35-49/0_200.jpg', comment=None, event_type='Centering'), ImageInfo(id=3, filepath='images/p20003/2025-03-14/Dewar Five/PKK007/16/Centering_2025-03-14_20-35-49/90_200.jpg', comment=None, event_type='Centering'), ImageInfo(id=4, filepath='images/p20003/2025-03-14/Dewar Five/PKK007/16/Centering_2025-03-14_20-35-49/0_700.jpg', comment=None, event_type='Centering'), ImageInfo(id=5, filepath='images/p20003/2025-03-14/Dewar Five/PKK007/16/Centering_2025-03-14_20-35-49/90_700.jpg', comment=None, event_type='Centering'), ImageInfo(id=6, filepath='images/p20003/2025-03-14/Dewar Five/PKK007/16/Collecting_2025-03-14_20-37-45/bb_raster_0.jpg', comment=None, event_type='Collecting'), ImageInfo(id=7, filepath='images/p20003/2025-03-14/Dewar Five/PKK007/16/Collecting_2025-03-14_20-54-05/bb_raster_90.jpg', comment=None, event_type='Collecting'), ImageInfo(id=8, filepath='images/p20003/2025-03-14/Dewar Five/PKK007/16/Collecting_2025-03-14_20-54-48/after_dc.jpeg.jpg', comment=None, event_type='Collecting')], experiment_runs=[ExperimentParametersRead(run_number=1, beamline_parameters=BeamlineParameters(synchrotron='Swiss Light Source', beamline='PXIII', detector=Detector(manufacturer='DECTRIS', model='PILATUS4 2M', type='photon-counting', serial_number='16684dscsd668468', detector_distance_mm=95.0, beam_center_x_px=512.0, beam_center_y_px=512.0, pixel_size_x_um=150.0, pixel_size_y_um=150.0), wavelength=1.0, ring_current_a=0.0, ring_mode='Machine Down', undulator=None, undulatorgap_mm=None, monochromator='Si111', transmission=1.0, focusing_optic='Kirkpatrick-Baez', beamline_flux_at_sample_ph_s=0.0, beam_size_width=30.0, beam_size_height=30.0, characterization=None, rotation=None, grid_scan=GridScanParamers(x_start=0.0, x_step=0.1, y_start=0.0, y_step=0.1, z_start=0.0, z_step=0.0, number_of_images=4600, exposure_time_s=0.001), jet=None, cryojet_temperature_k=None, humidifier_temperature_k=None, humidifier_humidity=None), sample_id=247, id=1), ExperimentParametersRead(run_number=2, beamline_parameters=BeamlineParameters(synchrotron='Swiss Light Source', beamline='PXIII', detector=Detector(manufacturer='DECTRIS', model='PILATUS4 2M', type='photon-counting', serial_number='16684dscsd668468', detector_distance_mm=95.0, beam_center_x_px=512.0, beam_center_y_px=512.0, pixel_size_x_um=150.0, pixel_size_y_um=150.0), wavelength=1.0, ring_current_a=0.0, ring_mode='Machine Down', undulator=None, undulatorgap_mm=None, monochromator='Si111', transmission=1.0, focusing_optic='Kirkpatrick-Baez', beamline_flux_at_sample_ph_s=0.0, beam_size_width=30.0, beam_size_height=30.0, characterization=None, rotation=None, grid_scan=GridScanParamers(x_start=90.0, x_step=0.1, y_start=0.0, y_step=0.1, z_start=0.0, z_step=0.0, number_of_images=4600, exposure_time_s=0.001), jet=None, cryojet_temperature_k=None, humidifier_temperature_k=None, humidifier_humidity=None), sample_id=247, id=2), ExperimentParametersRead(run_number=3, beamline_parameters=BeamlineParameters(synchrotron='Swiss Light Source', beamline='PXIII', detector=Detector(manufacturer='DECTRIS', model='PILATUS4 2M', type='photon-counting', serial_number='16684dscsd668468', detector_distance_mm=95.0, beam_center_x_px=512.0, beam_center_y_px=512.0, pixel_size_x_um=150.0, pixel_size_y_um=150.0), wavelength=1.0, ring_current_a=0.0, ring_mode='Machine Down', undulator=None, undulatorgap_mm=None, monochromator='Si111', transmission=1.0, focusing_optic='Kirkpatrick-Baez', beamline_flux_at_sample_ph_s=0.0, beam_size_width=30.0, beam_size_height=30.0, characterization=None, rotation=RotationParameters(omega_start_deg=0.0, omega_step=0.1, chi=0.0, phi=10.0, number_of_images=3600, exposure_time_s=0.02), grid_scan=None, jet=None, cryojet_temperature_k=None, humidifier_temperature_k=None, humidifier_humidity=None), sample_id=247, id=3)])]