133 lines
4.5 KiB
Python
133 lines
4.5 KiB
Python
import io # Used in our capture action
|
|
import time # Used in our timelapse function
|
|
|
|
from flask import send_file # Used to send images from our server
|
|
from labthings import (
|
|
Schema,
|
|
current_action,
|
|
fields,
|
|
find_component,
|
|
update_action_progress,
|
|
)
|
|
from labthings.extensions import BaseExtension
|
|
from labthings.views import ActionView, PropertyView, View
|
|
|
|
# Used to convert our GUI dictionary into a complete eV extension GUI
|
|
from openflexure_microscope.api.utilities.gui import build_gui
|
|
|
|
# Used in our timelapse function
|
|
from openflexure_microscope.captures.capture_manager import generate_basename
|
|
|
|
## Extension methods
|
|
|
|
|
|
def timelapse(microscope, n_images, t_between):
|
|
"""
|
|
Save a set of images in a timelapse
|
|
|
|
Args:
|
|
microscope: Microscope object
|
|
n_images (int): Number of images to take
|
|
t_between (int/float): Time, in seconds, between sequential captures
|
|
"""
|
|
base_file_name = generate_basename()
|
|
folder = "TIMELAPSE_{}".format(base_file_name)
|
|
|
|
# Take exclusive control over both the camera and stage
|
|
with microscope.camera.lock, microscope.stage.lock:
|
|
for n in range(n_images):
|
|
# Elegantly handle action cancellation
|
|
if current_action() and current_action().stopped:
|
|
return
|
|
# Generate a filename
|
|
filename = f"{base_file_name}_image{n}"
|
|
# Create a file to save the image to
|
|
output = microscope.camera.new_image(
|
|
filename=filename, folder=folder, temporary=False
|
|
)
|
|
|
|
# Capture
|
|
microscope.camera.capture(output)
|
|
|
|
# Add system metadata
|
|
output.put_metadata(microscope.metadata, system=True)
|
|
|
|
# Update task progress (only does anyting if the function is running in a LabThings task)
|
|
progress_pct = ((n + 1) / n_images) * 100 # Progress, in percent
|
|
update_action_progress(progress_pct)
|
|
|
|
# Wait for the specified time
|
|
time.sleep(t_between)
|
|
|
|
|
|
## Extension views
|
|
|
|
|
|
class TimelapseAPI(ActionView):
|
|
"""
|
|
Take a series of images in a timelapse, running as a background task
|
|
"""
|
|
|
|
args = {
|
|
"n_images": fields.Integer(
|
|
required=True, example=5, description="Number of images"
|
|
),
|
|
"t_between": fields.Number(
|
|
missing=1, example=1, description="Time (seconds) between images"
|
|
),
|
|
}
|
|
|
|
def post(self, args):
|
|
# Find our microscope component
|
|
microscope = find_component("org.openflexure.microscope")
|
|
|
|
# Create and start "timelapse", running in a background task
|
|
return timelapse(microscope, args.get("n_images"), args.get("t_between"))
|
|
|
|
|
|
## Extension GUI (OpenFlexure eV)
|
|
# Alternate form without any dynamic parts
|
|
extension_gui = {
|
|
"icon": "timelapse", # Name of an icon from https://material.io/resources/icons/
|
|
"forms": [ # List of forms. Each form is a collapsible accordion panel
|
|
{
|
|
"name": "Start a timelapse", # Form title
|
|
"route": "/timelapse", # The URL rule (as given by "add_view") of your submission view
|
|
"isTask": True, # This forms submission starts a background task
|
|
"isCollapsible": False, # This form cannot be collapsed into an accordion
|
|
"submitLabel": "Start", # Label for the form submit button
|
|
"schema": [ # List of dictionaries. Each element is a form component.
|
|
{
|
|
"fieldType": "numberInput",
|
|
"name": "n_images", # Name of the view arg this value corresponds to
|
|
"label": "Number of images",
|
|
"min": 1, # HTML number input attribute
|
|
"default": 5, # HTML number input attribute
|
|
},
|
|
{
|
|
"fieldType": "numberInput",
|
|
"name": "t_between",
|
|
"label": "Time (seconds) between images",
|
|
"min": 0.1, # HTML number input attribute
|
|
"step": 0.1, # HTML number input attribute
|
|
"default": 1, # HTML number input attribute
|
|
},
|
|
],
|
|
}
|
|
],
|
|
}
|
|
|
|
|
|
## Create extension
|
|
|
|
# Create your extension object
|
|
my_extension = BaseExtension("com.myname.timelapse-extension", version="0.0.0")
|
|
|
|
# Add methods to your extension
|
|
my_extension.add_method(timelapse, "timelapse")
|
|
|
|
# Add API views to your extension
|
|
my_extension.add_view(TimelapseAPI, "/timelapse")
|
|
|
|
# Add OpenFlexure eV GUI to your extension
|
|
my_extension.add_meta("gui", build_gui(extension_gui, my_extension))
|