{ "cells": [ { "metadata": { "ExecuteTime": { "end_time": "2025-05-05T13:24:28.514707Z", "start_time": "2025-05-05T13:24:27.932416Z" } }, "cell_type": "code", "source": [ "import json\n", "import requests\n", "#from nbclient.client import timestamp\n", "\n", "import backend.aareDBclient as aareDBclient\n", "from aareDBclient.rest import ApiException\n", "from pprint import pprint\n", "\n", "from app.schemas import characterizationParameters, ResultCreate, BeamtimeCreate\n", "\n", "#from app.data.data import sample\n", "\n", "#from aareDBclient import SamplesApi, ShipmentsApi, PucksApi\n", "#from aareDBclient.models import SampleEventCreate, SetTellPosition\n", "#from examples.examples import api_response\n", "\n", "print(aareDBclient.__version__)\n", "\n", "configuration = aareDBclient.Configuration(\n", " #host = \"https://mx-aare-test.psi.ch:1492\"\n", " host = \"https://localhost:8000\"\n", ")\n", "\n", "# 1. Get the token\n", "login_resp = requests.post(\n", " \"https://localhost:8000/auth/token/login\",\n", " data={\"username\": \"testuser\", \"password\": \"testpass\"},\n", " verify=False # Only for self-signed/dev certs!\n", ")\n", "\n", "token = login_resp.json()[\"access_token\"]\n", "\n", "print(configuration.host)\n", "\n", "configuration.verify_ssl = False # Disable SSL verification\n", "#print(dir(SamplesApi))" ], "id": "3b7c27697a4d5c83", "outputs": [ { "name": "stderr", "output_type": "stream", "text": [ "DEBUG:urllib3.connectionpool:Starting new HTTPS connection (1): localhost:8000\n", "/Library/Frameworks/Python.framework/Versions/3.12/lib/python3.12/site-packages/urllib3/connectionpool.py:1103: InsecureRequestWarning: Unverified HTTPS request is being made to host 'localhost'. Adding certificate verification is strongly advised. See: https://urllib3.readthedocs.io/en/latest/advanced-usage.html#tls-warnings\n", " warnings.warn(\n", "DEBUG:urllib3.connectionpool:https://localhost:8000 \"POST /auth/token/login HTTP/1.1\" 200 233\n" ] }, { "name": "stdout", "output_type": "stream", "text": [ "0.1.1a2\n", "https://localhost:8000\n" ] } ], "execution_count": 1 }, { "metadata": {}, "cell_type": "code", "outputs": [], "execution_count": null, "source": [ "## Fetch all Shipments, list corresponding dewars and pucks\n", "\n", "from datetime import date, datetime\n", "from aareDBclient import ShipmentsApi, SamplesApi, GridScanParamers\n", "from aareDBclient.models import Shipment\n", "\n", "with aareDBclient.ApiClient(configuration) as api_client:\n", " api_instance = aareDBclient.ShipmentsApi(api_client)\n", "\n", " try:\n", " # Fetch all shipments\n", " all_shipments_response = api_instance.fetch_shipments_shipments_get()\n", "\n", " # Print shipment names and their associated puck names\n", " for shipment in all_shipments_response:\n", " print(f\"Shipment ID: {shipment.id}, Shipment Name: {shipment.shipment_name}\")\n", " if hasattr(shipment, 'dewars') and shipment.dewars: # Ensure 'dewars' exists\n", " for dewar in shipment.dewars:\n", " print(f\" Dewar ID: {dewar.id}, Dewar Name: {dewar.dewar_name}, Dewar Unique ID: {dewar.unique_id} \")\n", "\n", " if hasattr(dewar, 'pucks') and dewar.pucks: # Ensure 'pucks' exists\n", " for puck in dewar.pucks:\n", " print(f\" Puck ID: {puck.id}, Puck Name: {puck.puck_name}\")\n", " else:\n", " print(\" No pucks found in this dewar.\")\n", " else:\n", " print(\" No dewars found in this shipment.\")\n", "\n", " except ApiException as e:\n", " print(f\"Exception when calling ShipmentsApi->fetch_shipments_shipments_get: {e}\")\n" ], "id": "4955b858f2cef93e" }, { "metadata": { "ExecuteTime": { "end_time": "2025-02-25T15:47:34.956061Z", "start_time": "2025-02-25T15:47:34.941372Z" } }, "cell_type": "code", "source": [ "from datetime import date\n", "from aareDBclient import LogisticsApi\n", "from aareDBclient.models import LogisticsEventCreate # Import required model\n", "\n", "with aareDBclient.ApiClient(configuration) as api_client:\n", " api_instance = aareDBclient.LogisticsApi(api_client)\n", "\n", " try:\n", " # Create payload using the required model\n", " logistics_event_create = LogisticsEventCreate(\n", " dewar_qr_code='923db239427869be',\n", " location_qr_code='A2-X06SA',\n", " transaction_type='incoming',\n", " timestamp=date.today() # Adjust if the API expects datetime\n", " )\n", "\n", " # Pass the payload to the API function\n", " api_response = api_instance.scan_dewar_logistics_dewar_scan_post(\n", " logistics_event_create=logistics_event_create # Pass as an object\n", " )\n", " print(\"API Response:\", api_response)\n", "\n", " except ApiException as e:\n", " print(f\"Exception when calling LogisticsApi->scan_dewar_logistics_dewar_scan_post: {e}\")\n", "\n", " try:\n", " # Create payload using the required model\n", " logistics_event_create = LogisticsEventCreate(\n", " dewar_qr_code='923db239427869be',\n", " location_qr_code='A2-X06SA',\n", " transaction_type='refill',\n", " timestamp=date.today() # Adjust if the API expects datetime\n", " )\n", "\n", " # Pass the payload to the API function\n", " api_response = api_instance.scan_dewar_logistics_dewar_scan_post(\n", " logistics_event_create=logistics_event_create # Pass as an object\n", " )\n", " print(\"API Response:\", api_response)\n", "\n", " except ApiException as e:\n", " print(f\"Exception when calling LogisticsApi->scan_dewar_logistics_dewar_scan_post: {e}\")\n", "\n", " try:\n", " # Create payload using the required model\n", " logistics_event_create = LogisticsEventCreate(\n", " dewar_qr_code='923db239427869be',\n", " location_qr_code='X06DA-Beamline',\n", " transaction_type='beamline',\n", " timestamp=date.today() # Adjust if the API expects datetime\n", " )\n", "\n", " # Pass the payload to the API function\n", " api_response = api_instance.scan_dewar_logistics_dewar_scan_post(\n", " logistics_event_create=logistics_event_create # Pass as an object\n", " )\n", " print(\"API Response:\", api_response)\n", "\n", " except ApiException as e:\n", " print(f\"Exception when calling LogisticsApi->scan_dewar_logistics_dewar_scan_post: {e}\")\n" ], "id": "8fd3638bffaecd23", "outputs": [ { "ename": "TypeError", "evalue": "ApiClient.call_api() got an unexpected keyword argument 'path_params'", "output_type": "error", "traceback": [ "\u001B[0;31m---------------------------------------------------------------------------\u001B[0m", "\u001B[0;31mTypeError\u001B[0m Traceback (most recent call last)", "Cell \u001B[0;32mIn[43], line 19\u001B[0m\n\u001B[1;32m 15\u001B[0m \u001B[38;5;28;01mtry\u001B[39;00m:\n\u001B[1;32m 16\u001B[0m \u001B[38;5;28;01mwith\u001B[39;00m \u001B[38;5;28mopen\u001B[39m(file_path, \u001B[38;5;124m\"\u001B[39m\u001B[38;5;124mrb\u001B[39m\u001B[38;5;124m\"\u001B[39m) \u001B[38;5;28;01mas\u001B[39;00m file_data:\n\u001B[1;32m 17\u001B[0m \u001B[38;5;66;03m# Use the low-level call_api method; note that the files parameter here is\u001B[39;00m\n\u001B[1;32m 18\u001B[0m \u001B[38;5;66;03m# a dictionary with key matching the FastAPI parameter name.\u001B[39;00m\n\u001B[0;32m---> 19\u001B[0m response \u001B[38;5;241m=\u001B[39m \u001B[43mapi_client\u001B[49m\u001B[38;5;241;43m.\u001B[39;49m\u001B[43mcall_api\u001B[49m\u001B[43m(\u001B[49m\n\u001B[1;32m 20\u001B[0m \u001B[43m \u001B[49m\u001B[38;5;124;43mf\u001B[39;49m\u001B[38;5;124;43m\"\u001B[39;49m\u001B[38;5;124;43m/\u001B[39;49m\u001B[38;5;132;43;01m{\u001B[39;49;00m\u001B[43msample_id\u001B[49m\u001B[38;5;132;43;01m}\u001B[39;49;00m\u001B[38;5;124;43m/upload_images\u001B[39;49m\u001B[38;5;124;43m\"\u001B[39;49m\u001B[43m,\u001B[49m\n\u001B[1;32m 21\u001B[0m \u001B[43m \u001B[49m\u001B[38;5;124;43m\"\u001B[39;49m\u001B[38;5;124;43mPOST\u001B[39;49m\u001B[38;5;124;43m\"\u001B[39;49m\u001B[43m,\u001B[49m\n\u001B[1;32m 22\u001B[0m \u001B[43m \u001B[49m\u001B[43mpath_params\u001B[49m\u001B[38;5;241;43m=\u001B[39;49m\u001B[43m{\u001B[49m\u001B[38;5;124;43m\"\u001B[39;49m\u001B[38;5;124;43msample_id\u001B[39;49m\u001B[38;5;124;43m\"\u001B[39;49m\u001B[43m:\u001B[49m\u001B[43m \u001B[49m\u001B[43msample_id\u001B[49m\u001B[43m}\u001B[49m\u001B[43m,\u001B[49m\n\u001B[1;32m 23\u001B[0m \u001B[43m \u001B[49m\u001B[43mfiles\u001B[49m\u001B[38;5;241;43m=\u001B[39;49m\u001B[43m{\u001B[49m\u001B[38;5;124;43m\"\u001B[39;49m\u001B[38;5;124;43muploaded_file\u001B[39;49m\u001B[38;5;124;43m\"\u001B[39;49m\u001B[43m:\u001B[49m\u001B[43m \u001B[49m\u001B[43m(\u001B[49m\u001B[43mfilename\u001B[49m\u001B[43m,\u001B[49m\u001B[43m \u001B[49m\u001B[43mfile_data\u001B[49m\u001B[43m,\u001B[49m\u001B[43m \u001B[49m\u001B[43mmime_type\u001B[49m\u001B[43m)\u001B[49m\u001B[43m}\u001B[49m\n\u001B[1;32m 24\u001B[0m \u001B[43m \u001B[49m\u001B[43m)\u001B[49m\n\u001B[1;32m 25\u001B[0m \u001B[38;5;28mprint\u001B[39m(\u001B[38;5;124m\"\u001B[39m\u001B[38;5;124mAPI Response:\u001B[39m\u001B[38;5;124m\"\u001B[39m)\n\u001B[1;32m 26\u001B[0m \u001B[38;5;28mprint\u001B[39m(response)\n", "\u001B[0;31mTypeError\u001B[0m: ApiClient.call_api() got an unexpected keyword argument 'path_params'" ] } ], "execution_count": 43 }, { "metadata": { "ExecuteTime": { "end_time": "2025-04-28T14:36:56.694422Z", "start_time": "2025-04-28T14:36:56.656426Z" } }, "cell_type": "code", "source": [ "# Get a list of pucks that are \"at the beamline\"\n", "\n", "with aareDBclient.ApiClient(configuration) as api_client:\n", " # Create an instance of the API class\n", " api_instance = aareDBclient.PucksApi(api_client)\n", " get_pucks_at_beamline = aareDBclient.PucksApi(api_client)\n", "\n", " try:\n", " # Create Return Address\n", " api_response = api_instance.get_pucks_by_slot_pucks_slot_slot_identifier_get(slot_identifier='X06DA')\n", " print(\"The response of PucksApi->get_pucks_by_slot_pucks_slot_slot_identifier_get:\\n\")\n", " pprint(api_response)\n", "\n", " except ApiException as e:\n", " print(\"Exception when calling PucksApi->get_pucks_by_slot_pucks_slot_slot_identifier_get: %s\\n\" % e)" ], "id": "9cf3457093751b61", "outputs": [ { "name": "stderr", "output_type": "stream", "text": [ "DEBUG:urllib3.connectionpool:Starting new HTTPS connection (1): localhost:8000\n", "/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 'localhost'. Adding certificate verification is strongly advised. See: https://urllib3.readthedocs.io/en/latest/advanced-usage.html#tls-warnings\n", " warnings.warn(\n", "DEBUG:urllib3.connectionpool:https://localhost:8000 \"GET /pucks/slot/X06DA HTTP/1.1\" 200 693\n" ] }, { "name": "stdout", "output_type": "stream", "text": [ "The response of PucksApi->get_pucks_by_slot_pucks_slot_slot_identifier_get:\n", "\n", "[PuckWithTellPosition(id=27, puck_name='PKK004', puck_type='Unipuck', puck_location_in_dewar=4, dewar_id=5, dewar_name='Dewar Five', pgroup='p20003', samples=None, tell_position=None),\n", " PuckWithTellPosition(id=28, puck_name='PKK005', puck_type='Unipuck', puck_location_in_dewar=5, dewar_id=5, dewar_name='Dewar Five', pgroup='p20003', samples=None, tell_position=None),\n", " PuckWithTellPosition(id=29, puck_name='PKK006', puck_type='Unipuck', puck_location_in_dewar=6, dewar_id=5, dewar_name='Dewar Five', pgroup='p20003', samples=None, tell_position=None),\n", " PuckWithTellPosition(id=30, puck_name='PKK007', puck_type='Unipuck', puck_location_in_dewar=7, dewar_id=5, dewar_name='Dewar Five', pgroup='p20003', samples=None, tell_position=None)]\n" ] } ], "execution_count": 3 }, { "metadata": { "ExecuteTime": { "end_time": "2025-04-28T14:37:09.989924Z", "start_time": "2025-04-28T14:37:09.960196Z" } }, "cell_type": "code", "source": [ "from aareDBclient import SetTellPosition, SetTellPositionRequest\n", "\n", "with aareDBclient.ApiClient(configuration) as api_client:\n", " # Create an instance of the API class\n", " api_instance = aareDBclient.PucksApi(api_client)\n", "\n", " # Payload with SetTellPosition objects\n", " payload = SetTellPositionRequest(\n", " tell=\"X06DA\",\n", " #pucks=[\n", " # SetTellPosition(puck_name='PSIMX074', segment='B', puck_in_segment=1),\n", " # SetTellPosition(puck_name='PSIMX080', segment='B', puck_in_segment=2),\n", " # SetTellPosition(puck_name='PSIMX081', segment='C', puck_in_segment=3),\n", " # SetTellPosition(puck_name='PSIMX084', segment='C', puck_in_segment=4),\n", " # SetTellPosition(puck_name='PSIMX104', segment='E', puck_in_segment=5),\n", " # SetTellPosition(puck_name='PSIMX107', segment='E', puck_in_segment=1),\n", " # SetTellPosition(puck_name='PSIMX117', segment='F', puck_in_segment=2),\n", " #]\n", " #pucks=[\n", " # SetTellPosition(puck_name='PSIMX074', segment='F', puck_in_segment=1),\n", " # SetTellPosition(puck_name='PSIMX080', segment='F', puck_in_segment=2),\n", " # SetTellPosition(puck_name='PSIMX107', segment='A', puck_in_segment=1),\n", " # SetTellPosition(puck_name='PSIMX117', segment='A', puck_in_segment=2),\n", " #]\n", " pucks=[\n", " SetTellPosition(puck_name='PKK006', segment='F', puck_in_segment=1),\n", " SetTellPosition(puck_name='PKK005', segment='F', puck_in_segment=2),\n", " SetTellPosition(puck_name='PKK007', segment='A', puck_in_segment=1),\n", " SetTellPosition(puck_name='PKK004', segment='A', puck_in_segment=2),\n", " ]\n", " #pucks = []\n", " )\n", "\n", " # Call the PUT method to update the tell_position\n", " try:\n", " api_response = api_instance.set_tell_positions_pucks_set_tell_positions_put(\n", " set_tell_position_request=payload\n", " ) # Pass the entire payload as a single parameter\n", "\n", " print(\"The response of PucksApi->pucks_puck_id_tell_position_put:\\n\")\n", " pprint(api_response)\n", "\n", " except Exception as e:\n", " print(f\"Exception when calling PucksApi: {e}\")\n" ], "id": "37e3eac6760150ee", "outputs": [ { "name": "stderr", "output_type": "stream", "text": [ "DEBUG:urllib3.connectionpool:Starting new HTTPS connection (1): localhost:8000\n", "/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 'localhost'. Adding certificate verification is strongly advised. See: https://urllib3.readthedocs.io/en/latest/advanced-usage.html#tls-warnings\n", " warnings.warn(\n", "DEBUG:urllib3.connectionpool:https://localhost:8000 \"PUT /pucks/set-tell-positions HTTP/1.1\" 200 601\n" ] }, { "name": "stdout", "output_type": "stream", "text": [ "The response of PucksApi->pucks_puck_id_tell_position_put:\n", "\n", "[{'message': 'Tell position updated successfully.',\n", " 'new_position': 'F1',\n", " 'previous_position': None,\n", " 'puck_name': 'PKK006',\n", " 'status': 'updated',\n", " 'tell': 'X06DA'},\n", " {'message': 'Tell position updated successfully.',\n", " 'new_position': 'F2',\n", " 'previous_position': None,\n", " 'puck_name': 'PKK005',\n", " 'status': 'updated',\n", " 'tell': 'X06DA'},\n", " {'message': 'Tell position updated successfully.',\n", " 'new_position': 'A1',\n", " 'previous_position': None,\n", " 'puck_name': 'PKK007',\n", " 'status': 'updated',\n", " 'tell': 'X06DA'},\n", " {'message': 'Tell position updated successfully.',\n", " 'new_position': 'A2',\n", " 'previous_position': None,\n", " 'puck_name': 'PKK004',\n", " 'status': 'updated',\n", " 'tell': 'X06DA'}]\n" ] } ], "execution_count": 4 }, { "metadata": { "ExecuteTime": { "end_time": "2025-04-28T14:37:23.148869Z", "start_time": "2025-04-28T14:37:23.115094Z" } }, "cell_type": "code", "source": [ "# Get puck_id puck_name sample_id sample_name of pucks in the tell\n", "\n", "with aareDBclient.ApiClient(configuration) as api_client:\n", " # Create an instance of the API class\n", " api_instance = aareDBclient.PucksApi(api_client)\n", "\n", " # GET request: Fetch all pucks in the tell\n", " try:\n", " # Call the API method to fetch pucks\n", " all_pucks_response = api_instance.get_pucks_with_tell_position_pucks_with_tell_position_get(tell='X06DA')\n", "\n", " # Debug response structure by printing it in JSON format\n", " formatted_response = json.dumps(\n", " [p.to_dict() for p in all_pucks_response], # Assuming the API response can be converted to dicts\n", " indent=4 # Use indentation for readability\n", " )\n", " #print(\"The response of PucksApi->get_all_pucks_in_tell (formatted):\\n\")\n", " #print(formatted_response)\n", "\n", " # Iterate through each puck and print information\n", " for p in all_pucks_response:\n", " print(f\"Puck ID: {p.id}, Puck Name: {p.puck_name}\")\n", "\n", " ## Check if the puck has any samples\n", " if hasattr(p, 'samples') and p.samples: # Ensure 'samples' attribute exists and is not empty\n", " for sample in p.samples:\n", " print(f\" Sample ID: {sample.id}, Sample Name: {sample.sample_name}, Position: {sample.position}, Mount count: {sample.mount_count}\")\n", " else:\n", " print(\" No samples found in this puck.\")\n", "\n", " except ApiException as e:\n", " print(\"Exception when calling PucksApi->get_all_pucks_in_tell: %s\\n\" % e)" ], "id": "51578d944878db6a", "outputs": [ { "name": "stderr", "output_type": "stream", "text": [ "DEBUG:urllib3.connectionpool:Starting new HTTPS connection (1): localhost:8000\n", "/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 'localhost'. Adding certificate verification is strongly advised. See: https://urllib3.readthedocs.io/en/latest/advanced-usage.html#tls-warnings\n", " warnings.warn(\n", "DEBUG:urllib3.connectionpool:https://localhost:8000 \"GET /pucks/with-tell-position?tell=X06DA HTTP/1.1\" 200 7592\n" ] }, { "name": "stdout", "output_type": "stream", "text": [ "Puck ID: 29, Puck Name: PKK006\n", " Sample ID: 268, Sample Name: Sample268, Position: 13, Mount count: 0\n", " Sample ID: 265, Sample Name: Sample265, Position: 3, Mount count: 0\n", " Sample ID: 266, Sample Name: Sample266, Position: 4, Mount count: 0\n", " Sample ID: 269, Sample Name: Sample269, Position: 16, Mount count: 0\n", " Sample ID: 267, Sample Name: Sample267, Position: 6, Mount count: 0\n", "Puck ID: 30, Puck Name: PKK007\n", " Sample ID: 276, Sample Name: Sample276, Position: 15, Mount count: 0\n", " Sample ID: 270, Sample Name: Sample270, Position: 1, Mount count: 0\n", " Sample ID: 274, Sample Name: Sample274, Position: 6, Mount count: 0\n", " Sample ID: 277, Sample Name: Sample277, Position: 16, Mount count: 0\n", " Sample ID: 273, Sample Name: Sample273, Position: 5, Mount count: 0\n", " Sample ID: 271, Sample Name: Sample271, Position: 2, Mount count: 0\n", " Sample ID: 275, Sample Name: Sample275, Position: 7, Mount count: 0\n", " Sample ID: 272, Sample Name: Sample272, Position: 4, Mount count: 0\n", "Puck ID: 28, Puck Name: PKK005\n", " Sample ID: 264, Sample Name: Sample264, Position: 11, Mount count: 0\n", " Sample ID: 261, Sample Name: Sample261, Position: 6, Mount count: 0\n", " Sample ID: 262, Sample Name: Sample262, Position: 7, Mount count: 0\n", " Sample ID: 260, Sample Name: Sample260, Position: 5, Mount count: 0\n", " Sample ID: 263, Sample Name: Sample263, Position: 9, Mount count: 0\n", "Puck ID: 27, Puck Name: PKK004\n", " Sample ID: 251, Sample Name: Sample251, Position: 3, Mount count: 0\n", " Sample ID: 253, Sample Name: Sample253, Position: 7, Mount count: 0\n", " Sample ID: 252, Sample Name: Sample252, Position: 4, Mount count: 0\n", " Sample ID: 255, Sample Name: Sample255, Position: 9, Mount count: 0\n", " Sample ID: 250, Sample Name: Sample250, Position: 2, Mount count: 0\n", " Sample ID: 254, Sample Name: Sample254, Position: 8, Mount count: 0\n", " Sample ID: 258, Sample Name: Sample258, Position: 14, Mount count: 0\n", " Sample ID: 256, Sample Name: Sample256, Position: 12, Mount count: 0\n", " Sample ID: 249, Sample Name: Sample249, Position: 1, Mount count: 0\n", " Sample ID: 257, Sample Name: Sample257, Position: 13, Mount count: 0\n", " Sample ID: 259, Sample Name: Sample259, Position: 16, Mount count: 0\n" ] } ], "execution_count": 5 }, { "metadata": { "ExecuteTime": { "end_time": "2025-05-05T13:31:12.902282Z", "start_time": "2025-05-05T13:31:12.900432Z" } }, "cell_type": "code", "source": "sample_id = 277", "id": "54d4d46ca558e7b9", "outputs": [], "execution_count": 7 }, { "metadata": { "ExecuteTime": { "end_time": "2025-05-05T13:31:16.752616Z", "start_time": "2025-05-05T13:31:16.720296Z" } }, "cell_type": "code", "source": [ "from aareDBclient import SampleEventCreate\n", "\n", "# Create an event for a sample\n", "\n", "with aareDBclient.ApiClient(configuration) as api_client:\n", " # Instance of the API client\n", " api_instance = aareDBclient.SamplesApi(api_client)\n", " #sample_id=293\n", " try:\n", " # Define the payload with only `event_type`\n", " sample_event_create = SampleEventCreate(\n", " sample_id=sample_id,\n", " #event_type=\"Centering\" # Valid event type\n", " event_type=\"Collecting\" # Valid event type\n", " )\n", "\n", " # Debug the payload before sending\n", " print(\"Payload being sent to API:\")\n", " print(sample_event_create.json()) # Ensure it matches `SampleEventCreate`\n", "\n", " # Call the API\n", " api_response = api_instance.create_sample_event_samples_samples_sample_id_events_post(\n", " sample_id=sample_id, # Ensure this matches a valid sample ID in the database\n", " sample_event_create=sample_event_create\n", " )\n", "\n", " print(\"API response:\")\n", " #pprint(api_response)\n", "\n", " for p in api_response:\n", " print(p)\n", "\n", " except ApiException as e:\n", " print(\"Exception when calling post_sample_event:\")\n", " print(f\"Status Code: {e.status}\")\n", " if e.body:\n", " print(f\"Error Details: {e.body}\")\n" ], "id": "4a0665f92756b486", "outputs": [ { "name": "stderr", "output_type": "stream", "text": [ "DEBUG:urllib3.connectionpool:Starting new HTTPS connection (1): localhost:8000\n", "/Library/Frameworks/Python.framework/Versions/3.12/lib/python3.12/site-packages/urllib3/connectionpool.py:1103: InsecureRequestWarning: Unverified HTTPS request is being made to host 'localhost'. Adding certificate verification is strongly advised. See: https://urllib3.readthedocs.io/en/latest/advanced-usage.html#tls-warnings\n", " warnings.warn(\n", "DEBUG:urllib3.connectionpool:https://localhost:8000 \"POST /samples/samples/277/events HTTP/1.1\" 200 413\n" ] }, { "name": "stdout", "output_type": "stream", "text": [ "Payload being sent to API:\n", "{\"event_type\":\"Collecting\"}\n", "API response:\n", "('id', 277)\n", "('sample_name', 'Sample277')\n", "('position', 15)\n", "('puck_id', 30)\n", "('crystalname', None)\n", "('proteinname', None)\n", "('positioninpuck', None)\n", "('priority', None)\n", "('comments', None)\n", "('data_collection_parameters', None)\n", "('events', [SampleEventResponse(event_type='Mounting', id=533, sample_id=277, timestamp=datetime.datetime(2025, 5, 4, 14, 9)), SampleEventResponse(event_type='Collecting', id=534, sample_id=277, timestamp=datetime.datetime(2025, 5, 5, 13, 31, 16, 741949))])\n", "('mount_count', 0)\n", "('unmount_count', 0)\n" ] } ], "execution_count": 8 }, { "metadata": { "ExecuteTime": { "end_time": "2025-04-29T14:27:46.730515Z", "start_time": "2025-04-29T14:27:46.622922Z" } }, "cell_type": "code", "source": [ "### not working\n", "with aareDBclient.ApiClient(configuration) as api_client:\n", " # Create an instance of the Samples API class\n", " api_instance = aareDBclient.SamplesApi(api_client)\n", "\n", " try:\n", " # Get the last sample event\n", " last_event_response = api_instance.get_last_sample_event_samples_samples_sample_id_events_last_get(27)\n", " print(\"The response of get_last_sample_event:\\n\")\n", " pprint(last_event_response)\n", "\n", " except ApiException as e:\n", " print(\"Exception when calling get_last_sample_event: %s\\n\" % e)\n" ], "id": "f1d171700d6cf7fe", "outputs": [ { "ename": "AttributeError", "evalue": "'SamplesApi' object has no attribute 'get_last_sample_event_samples_samples_sample_id_events_last_get'", "output_type": "error", "traceback": [ "\u001B[0;31m---------------------------------------------------------------------------\u001B[0m", "\u001B[0;31mAttributeError\u001B[0m Traceback (most recent call last)", "Cell \u001B[0;32mIn[48], line 8\u001B[0m\n\u001B[1;32m 4\u001B[0m api_instance \u001B[38;5;241m=\u001B[39m aareDBclient\u001B[38;5;241m.\u001B[39mSamplesApi(api_client)\n\u001B[1;32m 6\u001B[0m \u001B[38;5;28;01mtry\u001B[39;00m:\n\u001B[1;32m 7\u001B[0m \u001B[38;5;66;03m# Get the last sample event\u001B[39;00m\n\u001B[0;32m----> 8\u001B[0m last_event_response \u001B[38;5;241m=\u001B[39m \u001B[43mapi_instance\u001B[49m\u001B[38;5;241;43m.\u001B[39;49m\u001B[43mget_last_sample_event_samples_samples_sample_id_events_last_get\u001B[49m(\u001B[38;5;241m27\u001B[39m)\n\u001B[1;32m 9\u001B[0m \u001B[38;5;28mprint\u001B[39m(\u001B[38;5;124m\"\u001B[39m\u001B[38;5;124mThe response of get_last_sample_event:\u001B[39m\u001B[38;5;130;01m\\n\u001B[39;00m\u001B[38;5;124m\"\u001B[39m)\n\u001B[1;32m 10\u001B[0m pprint(last_event_response)\n", "\u001B[0;31mAttributeError\u001B[0m: 'SamplesApi' object has no attribute 'get_last_sample_event_samples_samples_sample_id_events_last_get'" ] } ], "execution_count": 48 }, { "metadata": { "ExecuteTime": { "end_time": "2025-05-05T13:31:21.833174Z", "start_time": "2025-05-05T13:31:21.791711Z" } }, "cell_type": "code", "source": [ "# Post multiple images to the sample database\n", "\n", "import os\n", "import mimetypes\n", "import requests\n", "\n", "# List of file paths to the images you want to upload\n", "#file_paths = [\n", "# \"backend/tests/sample_image/0_200.jpg\",\n", "# \"backend/tests/sample_image/90_200.jpg\",\n", "# \"backend/tests/sample_image/0_700.jpg\",\n", "# \"backend/tests/sample_image/90_700.jpg\",\n", "#]\n", "\n", "#file_paths = [\"backend/tests/sample_image/mount.jpeg.jpg\"]\n", "\n", "#file_paths = [\n", "# \"backend/tests/sample_image/bb_raster_90.jpg\"\n", "#]\n", "\n", "file_paths = [\"backend/tests/sample_image/after_dc.jpeg.jpg\"]\n", "\n", "\n", "\n", "# Base URL for the upload endpoint\n", "url = f\"https://127.0.0.1:8000/samples/{sample_id}/upload-images\"\n", "\n", "# Iterate through each file and upload it\n", "for file_path in file_paths:\n", " # Determine file name and MIME type\n", " filename = os.path.basename(file_path)\n", " mime_type, _ = mimetypes.guess_type(file_path)\n", " if mime_type is None:\n", " mime_type = \"application/octet-stream\"\n", "\n", " # Open the file for uploading\n", " with open(file_path, \"rb\") as file_data:\n", " files = {\n", " # Use key \"uploaded_file\" as required by your API\n", " \"uploaded_file\": (filename, file_data, mime_type)\n", " }\n", " headers = {\n", " \"accept\": \"application/json\"\n", " }\n", "\n", " # Send the POST request\n", " print(f\"Uploading {filename}...\")\n", " response = requests.post(url, headers=headers, files=files, verify=False)\n", "\n", " # Check the API response\n", " print(f\"API Response for {filename}:\")\n", " print(response.status_code)\n", " try:\n", " print(response.json())\n", " except Exception:\n", " print(response.text)\n" ], "id": "11f62976d2e7d9b1", "outputs": [ { "name": "stderr", "output_type": "stream", "text": [ "DEBUG:urllib3.connectionpool:Starting new HTTPS connection (1): 127.0.0.1:8000\n", "/Library/Frameworks/Python.framework/Versions/3.12/lib/python3.12/site-packages/urllib3/connectionpool.py:1103: 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\n", " warnings.warn(\n", "DEBUG:urllib3.connectionpool:https://127.0.0.1:8000 \"POST /samples/277/upload-images HTTP/1.1\" 200 205\n" ] }, { "name": "stdout", "output_type": "stream", "text": [ "Uploading after_dc.jpeg.jpg...\n", "API Response for after_dc.jpeg.jpg:\n", "200\n", "{'pgroup': 'p20003', 'sample_id': 277, 'sample_event_id': 534, 'filepath': 'images/p20003/2025-05-05/Dewar Five/PKK007/15/Collecting_2025-05-05_13-31-16/after_dc.jpeg.jpg', 'status': 'active', 'comment': None, 'id': 1}\n" ] } ], "execution_count": 9 }, { "metadata": {}, "cell_type": "code", "outputs": [], "execution_count": null, "source": "help(api_instance.upload_sample_images_samples_samples_sample_id_upload_images_post)", "id": "cb1b99e6327fff84" }, { "metadata": { "ExecuteTime": { "end_time": "2025-05-05T13:34:32.164108Z", "start_time": "2025-05-05T13:34:32.130230Z" } }, "cell_type": "code", "source": [ "# post experiment results to sample database\n", "\n", "from aareDBclient.models import (\n", " ExperimentParametersCreate,\n", " RotationParameters,\n", " BeamlineParameters,\n", " GridScanParamers,\n", " Detector\n", ")\n", "\n", "\n", "# Build the nested parameters\n", "rotation = RotationParameters(\n", " omegaStart_deg=0.0,\n", " omegaStep=0.2,\n", " phi=10.0,\n", " chi=0.0,\n", " numberOfImages=1800,\n", " exposureTime_s=0.01\n", ")\n", "\n", "#characterization = characterizationParameters(\n", "# omegaStart_deg=0.0,\n", "# omegaStep=90.0,\n", "# oscillation_deg=1.0,\n", "# phi=10.0,\n", "# chi=0.0,\n", "# numberOfImages=4,\n", "# exposureTime_s=0.02\n", "#)\n", "\n", "#gridscan = GridScanParamers(\n", "# xStart=90.0,\n", "# xStep=0.1,\n", "# yStart=0.0,\n", "# yStep= 0.1,\n", "# zStart=0.0,\n", "# zStep=0.0,\n", "# numberOfImages=4600,\n", "# exposureTime_s=0.001\n", "#)\n", "\n", "# If your client code requires you to build a detector model,\n", "# you can either use a Detector model or pass a dictionary.\n", "# Here we pass a dictionary.\n", "detector_data = Detector(\n", " manufacturer=\"DECTRIS\",\n", " model=\"PILATUS4 2M\",\n", " type=\"photon-counting\",\n", " serialNumber=\"16684dscsd668468\",\n", " detectorDistance_mm=232.0,\n", " beamCenterX_px=768.0,\n", " beamCenterY_px=857.0,\n", " pixelSizeX_um=150.0,\n", " pixelSizeY_um=150.0,\n", ")\n", "\n", "beamline_params = BeamlineParameters(\n", " synchrotron=\"Swiss Light Source\",\n", " beamline=\"PXIII\",\n", " detector=detector_data,\n", " wavelength=1.033,\n", " ringCurrent_A=0.4,\n", " ringMode=\"Machine Development\",\n", " monochromator=\"Si111\",\n", " transmission=10.00,\n", " focusingOptic=\"Kirkpatrick-Baez\",\n", " beamlineFluxAtSample_ph_s=0,\n", " beamSizeWidth=30.0,\n", " beamSizeHeight=30.0,\n", " #characterization=characterization\n", " rotation=rotation # Optional nested parameter\n", " #gridScan=gridscan\n", " # gridScan and jet are optional and can be added similarly\n", ")\n", "\n", "# Prepare the experiment parameters payload.\n", "# Note that the run_number will be set on the server side, so you can leave\n", "# it out or set it to a dummy value if your client model requires it.\n", "experiment_params_payload = ExperimentParametersCreate(\n", " # run_number can be omitted/ignored if computed on the server\n", " type=\"standard\",\n", " beamline_parameters=beamline_params,\n", " sample_id=sample_id # change sample_id to an existing sample in your database\n", ")\n", "\n", "# Now, use the API instance to send the POST request\n", "with aareDBclient.ApiClient(configuration) as api_client:\n", " api_instance = aareDBclient.SamplesApi(api_client)\n", "\n", " try:\n", " # Call the endpoint. The endpoint path expects the sample_id.\n", " api_response = api_instance.create_experiment_parameters_for_sample(\n", " sample_id=experiment_params_payload.sample_id,\n", " experiment_parameters_create=experiment_params_payload\n", ")\n", "\n", " print(\"API Response:\")\n", " print(api_response)\n", " except ApiException as e:\n", " print(\"Exception when calling ExperimentParametersApi->create_experiment_parameters_for_sample:\")\n", " print(e)\n" ], "id": "421ba0710f29a5fa", "outputs": [ { "name": "stderr", "output_type": "stream", "text": [ "DEBUG:urllib3.connectionpool:Starting new HTTPS connection (1): localhost:8000\n", "/Library/Frameworks/Python.framework/Versions/3.12/lib/python3.12/site-packages/urllib3/connectionpool.py:1103: InsecureRequestWarning: Unverified HTTPS request is being made to host 'localhost'. Adding certificate verification is strongly advised. See: https://urllib3.readthedocs.io/en/latest/advanced-usage.html#tls-warnings\n", " warnings.warn(\n", "DEBUG:urllib3.connectionpool:https://localhost:8000 \"POST /samples/samples/277/experiment_parameters HTTP/1.1\" 200 904\n" ] }, { "name": "stdout", "output_type": "stream", "text": [ "API Response:\n", "run_number=2 type='standard' 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=232.0, beam_center_x_px=768.0, beam_center_y_px=857.0, pixel_size_x_um=150.0, pixel_size_y_um=150.0), wavelength=1.033, ring_current_a=0.4, ring_mode='Machine Development', undulator=None, undulatorgap_mm=None, monochromator='Si111', transmission=10.0, 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=0.2, chi=0.0, phi=10.0, number_of_images=1800, exposure_time_s=0.01), grid_scan=None, jet=None, cryojet_temperature_k=None, humidifier_temperature_k=None, humidifier_humidity=None) dataset=None sample_id=277 id=2\n" ] } ], "execution_count": 13 }, { "metadata": { "ExecuteTime": { "end_time": "2025-05-05T13:34:49.891432Z", "start_time": "2025-05-05T13:34:49.872697Z" } }, "cell_type": "code", "source": [ "from datetime import datetime\n", "\n", "sample_id = sample_id\n", "run_id = 2\n", "\n", "def test_mark_run_written(sample_id, run_id, configuration):\n", " # Prepare your dataset dict as required by your API (.dict() results if using Pydantic model)\n", " dataset_payload = {\n", " \"filepath\": \"/das/work/p11/p11206/raw_data/vincent/20250415_6D_SLS2_1st_data/20250415_fullbeam_dtz220_Lyso102_again_360deg\",\n", " \"status\": \"written\",\n", " \"written_at\": datetime.now().isoformat()\n", " }\n", "\n", " # The API method and argument names may differ if autogenerated — adjust accordingly\n", " with aareDBclient.ApiClient(configuration) as api_client:\n", " api_instance = aareDBclient.SamplesApi(api_client)\n", " try:\n", " api_response = api_instance.update_dataset_for_experiment_run(\n", " sample_id=sample_id, run_id=run_id, datasets=dataset_payload\n", " )\n", " print(\"Dataset updated successfully:\")\n", " print(api_response)\n", " except ApiException as e:\n", " print(f\"API call failed: {e}\")\n", "\n", "# Usage example (replace with your actual IDs and configuration):\n", "test_mark_run_written(sample_id, run_id, configuration)" ], "id": "77793ecd843c1ef3", "outputs": [ { "name": "stderr", "output_type": "stream", "text": [ "DEBUG:urllib3.connectionpool:Starting new HTTPS connection (1): localhost:8000\n", "/Library/Frameworks/Python.framework/Versions/3.12/lib/python3.12/site-packages/urllib3/connectionpool.py:1103: InsecureRequestWarning: Unverified HTTPS request is being made to host 'localhost'. Adding certificate verification is strongly advised. See: https://urllib3.readthedocs.io/en/latest/advanced-usage.html#tls-warnings\n", " warnings.warn(\n", "DEBUG:urllib3.connectionpool:https://localhost:8000 \"PATCH /samples/update-dataset/277/2 HTTP/1.1\" 200 1085\n" ] }, { "name": "stdout", "output_type": "stream", "text": [ "Dataset updated successfully:\n", "run_number=2 type='standard' 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=232.0, beam_center_x_px=768.0, beam_center_y_px=857.0, pixel_size_x_um=150.0, pixel_size_y_um=150.0), wavelength=1.033, ring_current_a=0.4, ring_mode='Machine Development', undulator=None, undulatorgap_mm=None, monochromator='Si111', transmission=10.0, 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=0.2, chi=0.0, phi=10.0, number_of_images=1800, exposure_time_s=0.01), grid_scan=None, jet=None, cryojet_temperature_k=None, humidifier_temperature_k=None, humidifier_humidity=None) dataset=Datasets(filepath='/das/work/p11/p11206/raw_data/vincent/20250415_6D_SLS2_1st_data/20250415_fullbeam_dtz220_Lyso102_again_360deg', status='written', written_at=datetime.datetime(2025, 5, 5, 15, 34, 49, 874526)) sample_id=277 id=2\n" ] } ], "execution_count": 15 }, { "metadata": { "ExecuteTime": { "end_time": "2025-05-02T13:49:50.890862Z", "start_time": "2025-05-02T13:49:50.841161Z" } }, "cell_type": "code", "source": [ "from app.schemas import CurvePoint\n", "# %%\n", "from app.schemas import ResultCreate, Results\n", "from pprint import pprint\n", "import random\n", "import math\n", "import aareDBclient\n", "from aareDBclient.rest import ApiException\n", "\n", "# Your actual sample and experiment IDs\n", "sample_id = sample_id # Replace with valid IDs\n", "status = \"successful\"\n", "run_id = 1 # Replace with valid run_id\n", "\n", "# Function to generate list of CurvePoint (resolution, value pairs)\n", "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):\n", " resolutions = sorted([round(random.uniform(min_res, max_res), decimals) for _ in range(length)], reverse=True) # Reverse order\n", "\n", " curve = []\n", " for res in resolutions:\n", " # Exponential-like decay: Higher resolution (small number) -> value ~1, Lower resolution (big number) -> value ~0\n", " decay_factor = (res - max_res) / (min_res - max_res) # Normalize res to [0,1]\n", " value = max_value - ( math.exp(- 20 * decay_factor ) ) # Exponential decay\n", "\n", " # Add small random noise for realism\n", " noise_value = random.uniform(-noise, noise)\n", " value = min(max(value + noise_value, min_value), max_value) # Clamp between min_value and max_value\n", "\n", " curve.append(CurvePoint(resolution=res, value=round(value, decimals)))\n", "\n", " return curve\n", "\n", "# Create random Results payload\n", "results_data = Results(\n", " pipeline=\"autoproc\",\n", " resolution=round(random.uniform(1.0, 4.0), 2),\n", " unit_cell=f\"{random.uniform(20, 120):.2f}, {random.uniform(20, 120):.2f}, \"\n", " f\"{random.uniform(20, 120):.2f}, {random.uniform(60, 120):.2f}, \"\n", " f\"{random.uniform(60, 120):.2f}, {random.uniform(60, 120):.2f}\",\n", " spacegroup=random.choice(['P212121', 'C2', 'P1', 'P21', 'P21212', 'P41212']),\n", " rmerge=round(random.uniform(0.02, 0.10), 3),\n", " rmeas=round(random.uniform(0.02, 0.15), 3),\n", " isig=round(random.uniform(1.0, 30.0), 2),\n", " cc=logarithmic_decay_curve(100), # List of CurvePoint for CC curve\n", " cchalf=logarithmic_decay_curve(100), # List of CurvePoint for CC(1/2) curve\n", " completeness=round(random.uniform(85.0, 100.0), 2),\n", " multiplicity=round(random.uniform(1.0, 10.0), 2),\n", " nobs=random.randint(10000, 500000),\n", " total_refl=random.randint(5000, 250000),\n", " unique_refl=random.randint(5000, 100000),\n", " comments=\"Random auto-generated test entry\"\n", ")\n", "\n", "payload = ResultCreate(sample_id=sample_id, run_id=run_id, result=results_data)\n", "\n", "# correct serialization, passing exact required dict structure\n", "payload_dict = {\n", " \"sample_id\": sample_id,\n", " \"status\": status,\n", " \"run_id\": run_id,\n", " \"result\": results_data.model_dump(),\n", "}\n", "\n", "with aareDBclient.ApiClient(configuration) as api_client:\n", " api_instance = aareDBclient.SamplesApi(api_client)\n", "\n", " try:\n", " api_response = api_instance.create_result(\n", " result_create=payload_dict\n", " )\n", "\n", " print(\"API call successful:\")\n", " pprint(api_response)\n", "\n", " except ApiException as e:\n", " print(f\"API call failed: {e}\")\n" ], "id": "3e3974d5df795c32", "outputs": [ { "name": "stderr", "output_type": "stream", "text": [ "DEBUG:urllib3.connectionpool:Starting new HTTPS connection (1): localhost:8000\n", "/Library/Frameworks/Python.framework/Versions/3.12/lib/python3.12/site-packages/urllib3/connectionpool.py:1103: InsecureRequestWarning: Unverified HTTPS request is being made to host 'localhost'. Adding certificate verification is strongly advised. See: https://urllib3.readthedocs.io/en/latest/advanced-usage.html#tls-warnings\n", " warnings.warn(\n", "DEBUG:urllib3.connectionpool:https://localhost:8000 \"POST /samples/processing-results HTTP/1.1\" 200 7192\n" ] }, { "name": "stdout", "output_type": "stream", "text": [ "API call successful:\n", "ResultResponse(id=2, sample_id=204, run_id=6, result=Results(pipeline='autoproc', resolution=3.73, unit_cell='86.44, 99.53, 23.45, 111.04, 110.10, 115.31', spacegroup='P21212', rmerge=0.029, rmeas=0.052, isig=16.74, cc=[CurvePoint(resolution=3.991, value=1.0), CurvePoint(resolution=3.93, value=1.0), CurvePoint(resolution=3.926, value=0.995), CurvePoint(resolution=3.894, value=0.997), CurvePoint(resolution=3.774, value=1.0), CurvePoint(resolution=3.658, value=0.996), CurvePoint(resolution=3.656, value=1.0), CurvePoint(resolution=3.612, value=1.0), CurvePoint(resolution=3.612, value=1.0), CurvePoint(resolution=3.594, value=1.0), CurvePoint(resolution=3.59, value=1.0), CurvePoint(resolution=3.571, value=1.0), CurvePoint(resolution=3.57, value=0.995), CurvePoint(resolution=3.562, value=0.999), CurvePoint(resolution=3.495, value=0.999), CurvePoint(resolution=3.436, value=0.999), CurvePoint(resolution=3.389, value=1.0), CurvePoint(resolution=3.365, value=0.997), CurvePoint(resolution=3.291, value=0.999), CurvePoint(resolution=3.224, value=0.999), CurvePoint(resolution=3.215, value=0.999), CurvePoint(resolution=3.201, value=1.0), CurvePoint(resolution=3.188, value=0.999), CurvePoint(resolution=3.161, value=1.0), CurvePoint(resolution=3.121, value=0.996), CurvePoint(resolution=3.111, value=0.997), CurvePoint(resolution=3.016, value=1.0), CurvePoint(resolution=2.973, value=0.996), CurvePoint(resolution=2.969, value=0.998), CurvePoint(resolution=2.925, value=0.998), CurvePoint(resolution=2.925, value=0.998), CurvePoint(resolution=2.908, value=1.0), CurvePoint(resolution=2.896, value=0.998), CurvePoint(resolution=2.854, value=1.0), CurvePoint(resolution=2.843, value=1.0), CurvePoint(resolution=2.841, value=0.997), CurvePoint(resolution=2.84, value=0.999), CurvePoint(resolution=2.831, value=1.0), CurvePoint(resolution=2.777, value=1.0), CurvePoint(resolution=2.759, value=0.999), CurvePoint(resolution=2.757, value=1.0), CurvePoint(resolution=2.74, value=1.0), CurvePoint(resolution=2.723, value=1.0), CurvePoint(resolution=2.698, value=1.0), CurvePoint(resolution=2.689, value=0.998), CurvePoint(resolution=2.614, value=1.0), CurvePoint(resolution=2.569, value=0.997), CurvePoint(resolution=2.561, value=1.0), CurvePoint(resolution=2.547, value=1.0), CurvePoint(resolution=2.518, value=1.0), CurvePoint(resolution=2.506, value=0.996), CurvePoint(resolution=2.455, value=1.0), CurvePoint(resolution=2.446, value=0.996), CurvePoint(resolution=2.374, value=1.0), CurvePoint(resolution=2.365, value=0.999), CurvePoint(resolution=2.298, value=0.996), CurvePoint(resolution=2.287, value=1.0), CurvePoint(resolution=2.278, value=0.996), CurvePoint(resolution=2.278, value=1.0), CurvePoint(resolution=2.272, value=0.995), CurvePoint(resolution=2.211, value=1.0), CurvePoint(resolution=2.195, value=1.0), CurvePoint(resolution=2.165, value=1.0), CurvePoint(resolution=2.14, value=1.0), CurvePoint(resolution=2.108, value=1.0), CurvePoint(resolution=2.067, value=0.999), CurvePoint(resolution=2.021, value=0.996), CurvePoint(resolution=1.992, value=0.995), CurvePoint(resolution=1.947, value=0.995), CurvePoint(resolution=1.937, value=1.0), CurvePoint(resolution=1.904, value=0.995), CurvePoint(resolution=1.865, value=0.992), CurvePoint(resolution=1.8, value=0.992), CurvePoint(resolution=1.752, value=0.995), CurvePoint(resolution=1.751, value=0.989), CurvePoint(resolution=1.739, value=0.995), CurvePoint(resolution=1.716, value=0.993), CurvePoint(resolution=1.7, value=0.992), CurvePoint(resolution=1.659, value=0.988), CurvePoint(resolution=1.594, value=0.982), CurvePoint(resolution=1.586, value=0.984), CurvePoint(resolution=1.555, value=0.973), CurvePoint(resolution=1.555, value=0.979), CurvePoint(resolution=1.463, value=0.953), CurvePoint(resolution=1.442, value=0.943), CurvePoint(resolution=1.412, value=0.94), CurvePoint(resolution=1.407, value=0.935), CurvePoint(resolution=1.394, value=0.924), CurvePoint(resolution=1.377, value=0.923), CurvePoint(resolution=1.374, value=0.922), CurvePoint(resolution=1.358, value=0.905), CurvePoint(resolution=1.34, value=0.894), CurvePoint(resolution=1.319, value=0.879), CurvePoint(resolution=1.306, value=0.875), CurvePoint(resolution=1.257, value=0.817), CurvePoint(resolution=1.225, value=0.773), CurvePoint(resolution=1.141, value=0.608), CurvePoint(resolution=1.139, value=0.606), CurvePoint(resolution=1.059, value=0.322), CurvePoint(resolution=1.013, value=0.082)], cchalf=[CurvePoint(resolution=3.98, value=0.995), CurvePoint(resolution=3.98, value=1.0), CurvePoint(resolution=3.947, value=1.0), CurvePoint(resolution=3.837, value=1.0), CurvePoint(resolution=3.769, value=0.999), CurvePoint(resolution=3.757, value=1.0), CurvePoint(resolution=3.731, value=0.999), CurvePoint(resolution=3.723, value=1.0), CurvePoint(resolution=3.694, value=1.0), CurvePoint(resolution=3.685, value=0.995), CurvePoint(resolution=3.658, value=1.0), CurvePoint(resolution=3.643, value=1.0), CurvePoint(resolution=3.615, value=1.0), CurvePoint(resolution=3.522, value=0.999), CurvePoint(resolution=3.502, value=1.0), CurvePoint(resolution=3.491, value=0.998), CurvePoint(resolution=3.486, value=1.0), CurvePoint(resolution=3.474, value=1.0), CurvePoint(resolution=3.468, value=0.997), CurvePoint(resolution=3.464, value=1.0), CurvePoint(resolution=3.463, value=1.0), CurvePoint(resolution=3.43, value=1.0), CurvePoint(resolution=3.378, value=0.999), CurvePoint(resolution=3.297, value=0.998), CurvePoint(resolution=3.25, value=1.0), CurvePoint(resolution=3.244, value=1.0), CurvePoint(resolution=3.191, value=0.998), CurvePoint(resolution=3.188, value=0.998), CurvePoint(resolution=3.17, value=0.996), CurvePoint(resolution=3.158, value=0.995), CurvePoint(resolution=3.158, value=1.0), CurvePoint(resolution=3.145, value=0.996), CurvePoint(resolution=3.142, value=1.0), CurvePoint(resolution=3.122, value=0.996), CurvePoint(resolution=3.093, value=1.0), CurvePoint(resolution=3.089, value=0.995), CurvePoint(resolution=3.013, value=1.0), CurvePoint(resolution=2.975, value=1.0), CurvePoint(resolution=2.955, value=1.0), CurvePoint(resolution=2.813, value=0.999), CurvePoint(resolution=2.74, value=1.0), CurvePoint(resolution=2.723, value=0.997), CurvePoint(resolution=2.695, value=0.997), CurvePoint(resolution=2.692, value=0.995), CurvePoint(resolution=2.673, value=1.0), CurvePoint(resolution=2.645, value=0.997), CurvePoint(resolution=2.608, value=1.0), CurvePoint(resolution=2.582, value=1.0), CurvePoint(resolution=2.556, value=1.0), CurvePoint(resolution=2.457, value=1.0), CurvePoint(resolution=2.422, value=1.0), CurvePoint(resolution=2.408, value=0.998), CurvePoint(resolution=2.388, value=0.996), CurvePoint(resolution=2.377, value=0.996), CurvePoint(resolution=2.347, value=1.0), CurvePoint(resolution=2.325, value=0.998), CurvePoint(resolution=2.299, value=0.998), CurvePoint(resolution=2.275, value=0.998), CurvePoint(resolution=2.259, value=1.0), CurvePoint(resolution=2.242, value=0.995), CurvePoint(resolution=2.209, value=1.0), CurvePoint(resolution=2.186, value=1.0), CurvePoint(resolution=2.175, value=0.997), CurvePoint(resolution=2.165, value=0.999), CurvePoint(resolution=2.113, value=1.0), CurvePoint(resolution=2.041, value=1.0), CurvePoint(resolution=1.997, value=0.994), CurvePoint(resolution=1.993, value=1.0), CurvePoint(resolution=1.979, value=0.997), CurvePoint(resolution=1.972, value=0.995), CurvePoint(resolution=1.93, value=1.0), CurvePoint(resolution=1.884, value=1.0), CurvePoint(resolution=1.877, value=0.996), CurvePoint(resolution=1.869, value=0.998), CurvePoint(resolution=1.863, value=0.996), CurvePoint(resolution=1.861, value=1.0), CurvePoint(resolution=1.851, value=0.995), CurvePoint(resolution=1.825, value=0.997), CurvePoint(resolution=1.791, value=0.997), CurvePoint(resolution=1.757, value=0.995), CurvePoint(resolution=1.734, value=0.997), CurvePoint(resolution=1.675, value=0.987), CurvePoint(resolution=1.635, value=0.987), CurvePoint(resolution=1.606, value=0.979), CurvePoint(resolution=1.556, value=0.974), CurvePoint(resolution=1.53, value=0.972), CurvePoint(resolution=1.466, value=0.958), CurvePoint(resolution=1.443, value=0.945), CurvePoint(resolution=1.435, value=0.947), CurvePoint(resolution=1.409, value=0.936), CurvePoint(resolution=1.344, value=0.897), CurvePoint(resolution=1.305, value=0.873), CurvePoint(resolution=1.275, value=0.839), CurvePoint(resolution=1.194, value=0.729), CurvePoint(resolution=1.163, value=0.664), CurvePoint(resolution=1.149, value=0.625), CurvePoint(resolution=1.142, value=0.609), CurvePoint(resolution=1.116, value=0.54), CurvePoint(resolution=1.037, value=0.218), CurvePoint(resolution=1.027, value=0.164)], completeness=85.1, multiplicity=3.28, nobs=53636, total_refl=140858, unique_refl=24272, comments='Random auto-generated test entry'))\n" ] } ], "execution_count": 31 }, { "metadata": { "ExecuteTime": { "end_time": "2025-05-05T13:24:47.091043Z", "start_time": "2025-05-05T13:24:47.082140Z" } }, "cell_type": "code", "source": [ "# get experiment results to sample database\n", "\n", "with aareDBclient.ApiClient(configuration) as api_client:\n", " # Create an instance of the API class\n", " api_instance = aareDBclient.SamplesApi(api_client)\n", "\n", " # GET request: Fetch all pucks in the tell\n", " try:\n", " # Call the API method to fetch pucks\n", " all_results_response = api_instance.get_sample_results_samples_results_get(active_pgroup=\"p20003\")\n", " pprint(all_results_response)\n", " ## Debug response structure by printing it in JSON format\n", " #formatted_response = json.dumps(\n", " # [p.to_dict() for p in all_results_response], # Assuming the API response can be converted to dicts\n", " # indent=4 # Use indentation for readability\n", " #)\n", " #print(\"The response of PucksApi->get_all_pucks_in_tell (formatted):\\n\")\n", " #print(formatted_response)\n", "\n", " ## Iterate through each puck and print information\n", " #for p in all_results_response:\n", " # print(f\"Puck ID: {p.id}, Puck Name: {p.puck_name}\")\n", " #\n", " # ## Check if the puck has any samples\n", " # if hasattr(p, 'samples') and p.samples: # Ensure 'samples' attribute exists and is not empty\n", " # for sample in p.samples:\n", " # print(f\" Sample ID: {sample.id}, Sample Name: {sample.sample_name}, Position: {sample.position}, Mount count: {sample.mount_count}\")\n", " # else:\n", " # print(\" No samples found in this puck.\")\n", " #\n", " except ApiException as e:\n", " print(\"Exception when calling PucksApi->get_all_pucks_in_tell: %s\\n\" % e)" ], "id": "6079a4f10102e906", "outputs": [ { "ename": "AttributeError", "evalue": "'SamplesApi' object has no attribute 'get_sample_results_samples_results_get'", "output_type": "error", "traceback": [ "\u001B[0;31m---------------------------------------------------------------------------\u001B[0m", "\u001B[0;31mAttributeError\u001B[0m Traceback (most recent call last)", "Cell \u001B[0;32mIn[4], line 10\u001B[0m\n\u001B[1;32m 7\u001B[0m \u001B[38;5;66;03m# GET request: Fetch all pucks in the tell\u001B[39;00m\n\u001B[1;32m 8\u001B[0m \u001B[38;5;28;01mtry\u001B[39;00m:\n\u001B[1;32m 9\u001B[0m \u001B[38;5;66;03m# Call the API method to fetch pucks\u001B[39;00m\n\u001B[0;32m---> 10\u001B[0m all_results_response \u001B[38;5;241m=\u001B[39m \u001B[43mapi_instance\u001B[49m\u001B[38;5;241;43m.\u001B[39;49m\u001B[43mget_sample_results_samples_results_get\u001B[49m(active_pgroup\u001B[38;5;241m=\u001B[39m\u001B[38;5;124m\"\u001B[39m\u001B[38;5;124mp20003\u001B[39m\u001B[38;5;124m\"\u001B[39m)\n\u001B[1;32m 11\u001B[0m pprint(all_results_response)\n\u001B[1;32m 12\u001B[0m \u001B[38;5;66;03m## Debug response structure by printing it in JSON format\u001B[39;00m\n\u001B[1;32m 13\u001B[0m \u001B[38;5;66;03m#formatted_response = json.dumps(\u001B[39;00m\n\u001B[1;32m 14\u001B[0m \u001B[38;5;66;03m# [p.to_dict() for p in all_results_response], # Assuming the API response can be converted to dicts\u001B[39;00m\n\u001B[0;32m (...)\u001B[0m\n\u001B[1;32m 29\u001B[0m \u001B[38;5;66;03m# print(\" No samples found in this puck.\")\u001B[39;00m\n\u001B[1;32m 30\u001B[0m \u001B[38;5;66;03m#\u001B[39;00m\n", "\u001B[0;31mAttributeError\u001B[0m: 'SamplesApi' object has no attribute 'get_sample_results_samples_results_get'" ] } ], "execution_count": 4 }, { "metadata": { "ExecuteTime": { "end_time": "2025-05-05T13:39:17.528508Z", "start_time": "2025-05-05T13:39:17.496188Z" } }, "cell_type": "code", "source": [ "with aareDBclient.ApiClient(configuration) as api_client:\n", " api_client.default_headers[\"Authorization\"] = f\"Bearer {token}\"\n", " api_instance = aareDBclient.BeamtimesApi(api_client)\n", "\n", "\n", " payload = BeamtimeCreate(\n", " pgroups = \"p20003\",\n", " shift = \"morning\",\n", " beamtime_name = \"unscheduled beamtime\",\n", " beamline = \"X06DA\",\n", " start_date = \"2025-05-05\",\n", " end_date = \"2025-05-05\",\n", " status = \"unscheduled\",\n", " comments = \"unscheduled beamtime created by test functions\",\n", " proposal_id = 1,\n", " local_contact_id= 1\n", " )\n", "\n", " try:\n", " api_response = api_instance.create_beamtime_protected_beamtimes_post(payload.dict())\n", " pprint(api_response)\n", "\n", " print(\"The response of BeamtimesApi->beamtime_create:\\n\")\n", " pprint(api_response)\n", "\n", " except Exception as e:\n", " print(f\"Exception when calling BeamtimesApi: {e}\")\n" ], "id": "deff7388a205e169", "outputs": [ { "name": "stderr", "output_type": "stream", "text": [ "DEBUG:urllib3.connectionpool:Starting new HTTPS connection (1): localhost:8000\n", "/Library/Frameworks/Python.framework/Versions/3.12/lib/python3.12/site-packages/urllib3/connectionpool.py:1103: InsecureRequestWarning: Unverified HTTPS request is being made to host 'localhost'. Adding certificate verification is strongly advised. See: https://urllib3.readthedocs.io/en/latest/advanced-usage.html#tls-warnings\n", " warnings.warn(\n", "DEBUG:urllib3.connectionpool:https://localhost:8000 \"POST /protected/beamtimes/ HTTP/1.1\" 400 66\n" ] }, { "name": "stdout", "output_type": "stream", "text": [ "Exception when calling BeamtimesApi: (400)\n", "Reason: Bad Request\n", "HTTP response headers: HTTPHeaderDict({'date': 'Mon, 05 May 2025 13:39:16 GMT', 'server': 'uvicorn', 'content-length': '66', 'content-type': 'application/json'})\n", "HTTP response body: {\"detail\":\"A beamtime for this pgroup/shift/date already exists.\"}\n", "\n" ] } ], "execution_count": 18 } ], "metadata": { "kernelspec": { "display_name": "Python 3", "language": "python", "name": "python3" }, "language_info": { "codemirror_mode": { "name": "ipython", "version": 2 }, "file_extension": ".py", "mimetype": "text/x-python", "name": "python", "nbconvert_exporter": "python", "pygments_lexer": "ipython2", "version": "2.7.6" } }, "nbformat": 4, "nbformat_minor": 5 }