[imager] [cytation] image is an np.array

Author: rickwierenga

pylabrobot/plate_reading/biotek_backend.py

@@ -1194,14 +1194,11 @@ async def _acquire_image(
         timeout = int(self.cam.ExposureTime.GetValue() / 1000 + 1000)  # from example
         image_result = self.cam.GetNextImage(timeout)
         if not image_result.IsIncomplete():
-          t0 = time.time()
           processor = PySpin.ImageProcessor()
           processor.SetColorProcessing(color_processing_algorithm)
           image_converted = processor.Convert(image_result, pixel_format)
           image_result.Release()
-          logger.debug("[cytation5] acquired image in %d tries", num_tries + 1)
-          logger.debug("[cytation5] Convert took %.2f seconds for BS", time.time() - t0)
-          return image_converted.GetNDArray().tolist()  # type: ignore
+          return image_converted.GetNDArray()  # type: ignore
       except SpinnakerException as e:
         # the image is not ready yet, try again
         logger.debug("Failed to get image: %s", e)

pylabrobot/plate_reading/imager.py

@@ -134,6 +134,11 @@ async def capture(
     gain: Gain = "machine-auto",
     **backend_kwargs,
   ) -> ImagingResult:
+    if not isinstance(exposure_time, (int, float, AutoExposure)):
+      raise TypeError(f"Invalid exposure time: {exposure_time}")
+    if not isinstance(focal_height, (int, float)) and focal_height != "machine-auto":
+      raise TypeError(f"Invalid focal height: {focal_height}")
+
     if isinstance(well, tuple):
       row, column = well
     else:

pylabrobot/plate_reading/standard.py

@@ -1,8 +1,13 @@
 import enum
 from dataclasses import dataclass
-from typing import Awaitable, Callable, List, Literal, Union
+from typing import Awaitable, Callable, List, Literal, TypeAlias, Union
 
-Image = List[List[float]]
+try:
+  import numpy as np
+
+  Image = np.ndarray
+except ImportError:
+  Image = object  # type: ignore
 
 
 class Objective(enum.Enum):