pycromanager.ipynb

PycroManagerTest-Kaibu.py

import asyncio
import numpy as np

class ImJoyPlugin():
    async def setup(self):
        bridge = Bridge()
        self._core = bridge.get_core()
        self._core.set_exposure(float(100))
        exposure = self._core.get_exposure()
        api.showMessage('MMcore loaded, exposure: ' + str(exposure))
    
    def snapImage(self):
        self._core.snap_image()
        tagged_image = self._core.get_tagged_image()
        image_array = np.reshape(tagged_image.pix, newshape=[tagged_image.tags['Height'], tagged_image.tags['Width']])
        image_array = (image_array/image_array.max()*255).astype('uint8')
        return image_array

    async def run(self, ctx):
        viewer = await api.createWindow(src="https://kaibu.org/#/app")

        image = np.random.randint(0, 255, [500, 500], dtype='uint8')

        # view image
        await viewer.view_image(self.snapImage(), type="itk-vtk", name="new image")

        async def snap_image():
            await viewer.view_image(self.snapImage(), type="itk-vtk", name="new image")

        await viewer.set_ui({"title": "Microscope Control",
                             "elements": [
                                 {"_rintf": True,
                                  "type": "button",
                                  "label": "Snap Image",
                                  "callback": snap_image
                                 }
                             ]
                            })

api.export(ImJoyPlugin(), {"name": "demo"})

PycroManagerTest.py

import numpy as np
from imjoy_rpc import api
from pycromanager import Bridge

class ImJoyPlugin():
    async def setup(self):
        bridge = Bridge()
        self._core = bridge.get_core()
        exp = await api.prompt('Exposure time')
        self._core.set_exposure(float(exp))
        exposure = self._core.get_exposure()
        api.showMessage('MMcore loaded, exposure: ' + str(exposure))
    
    def snapImage(self):
        self._core.snap_image()
        tagged_image = self._core.get_tagged_image()
        image_array = np.reshape(tagged_image.pix, newshape=[tagged_image.tags['Height'], tagged_image.tags['Width']])
        image_array = (image_array/image_array.max()*255).astype('uint8')
        return image_array

    async def run(self, ctx):
        viewer = await api.showDialog(type="itk-vtk-viewer",
                                      src="https://oeway.github.io/itk-vtk-viewer/?imjoy=1")
        api.showMessage('Acquiring 10 images')
        for i in range(10):
            await viewer.imshow(self.snapImage())
        api.showMessage('Done.')
        
api.export(ImJoyPlugin(), {"name": "demo"})