Moved autofocus plugin to its own module

openflexure_microscope/plugins/default/plugin.py

@@ -1,58 +0,0 @@
-import time
-import numpy as np
-
-from openflexure_microscope.plugins import MicroscopePlugin
-from openflexure_microscope.utilities import set_properties
-
-from .focus_utils import sharpness_sum_lap2
-from .api import IdentifyAPI, MeasureSharpnessAPI, AutofocusAPI
-
-
-class Plugin(MicroscopePlugin):
-    """
-    A set of default plugins
-    """
-
-    api_views = {
-        '/identify': IdentifyAPI,
-        '/measure_sharpness': MeasureSharpnessAPI,
-        '/autofocus': AutofocusAPI,
-    }
-
-    def identify(self):
-        """
-        Demonstrate access to Microscope.camera, and Microscope.stage
-        """
-
-        response = "My parent camera is {}, and my parent stage is {}.".format(self.microscope.camera, self.microscope.stage)
-        return response
-
-    def autofocus(self, dz, settle=0.5, metric_fn=sharpness_sum_lap2):
-        """Perform a simple autofocus routine.
-        The stage is moved to z positions (relative to current position) in dz,
-        and at each position an image is captured and the sharpness function 
-        evaulated.  We then move back to the position where the sharpness was
-        highest.  No interpolation is performed.
-        dz is assumed to be in ascending order (starting at -ve values)
-        """
-        camera = self.microscope.camera
-        stage = self.microscope.stage
-
-        with set_properties(stage, backlash=256), stage.lock, camera.lock:
-            sharpnesses = []
-            positions = []
-            camera.annotate_text = ""
-
-            for i in stage.scan_z(dz, return_to_start=False):
-                positions.append(stage.position[2])
-                time.sleep(settle)
-                sharpnesses.append(self.measure_sharpness(metric_fn))
-
-            newposition = positions[np.argmax(sharpnesses)]
-            stage.focus_rel(newposition - stage.position[2])
-
-        return positions, sharpnesses
-
-    def measure_sharpness(self, metric_fn=sharpness_sum_lap2):
-        """Measure the sharpness of the camera's current view."""
-        return metric_fn(self.microscope.camera.array(use_video_port=True, resize=(640,480)))