openflexure-microscope-server/openflexure_microscope/camera/base.py
2018-11-06 18:24:35 +00:00

375 lines
No EOL
12 KiB
Python

import time
import os
import io
import threading
import copy
import datetime
import uuid
from PIL import Image
try:
from greenlet import getcurrent as get_ident
except ImportError:
try:
from thread import get_ident
except ImportError:
from _thread import get_ident
# Slightly crappy debugger logging
DEBUG = True
def log(s):
if DEBUG:
print('DEBUG: {}'.format(s))
class StreamObject(object):
def __init__(self, write_to_file: bool=None, filename: str=None, folder: str=None, fmt: str='file') -> None:
# Store a nice ID
self.id = uuid.uuid4().hex
log("Created {}".format(self.id))
# Create file name
iterator = 0
f_name = self.build_file_path(filename, folder, fmt)
while os.path.isfile(f_name): # While file already exists
iterator += 1 # Add a file name iterator
f_name = self.build_file_path(filename, folder, fmt, iterator=iterator) # Rebuild file name
self.file = f_name
# Byte stream properties
self.stream = io.BytesIO() # Byte stream that data will be written to
# Set default write target
self.write_to_file = write_to_file
if self.write_to_file is False:
log("Default target for {} set to 'stream'".format(self.id))
self.target = self.stream
else:
log("Default target for {} set to 'file'".format(self.id))
self.target = self.file
# Keep on disk after close by default
self.keep_on_disk = True
# Object lock
self.locked = False # Is the StreamObject locked for writing? (Handled by StreamingCamera)
def __enter__(self):
log("Entering context for {}.\
Stored files will be cleaned up automatically.".format(self.id))
self.keep_on_disk = False # Flag file to be removed on close.
return self
def __exit__(self, *args):
log("Cleaning up {}".format(self.id))
self.close()
def build_file_path(self, filename: str, folder: str, fmt: str, iterator: int=0) -> str:
"""
Construct a full file path, based on filename, folder, and file format.
Defaults to datestamp. Iterator adds a numeric increment to the file name.
"""
if filename:
file_name = "{}.{}".format(filename, fmt)
else:
file_name_base = datetime.datetime.now().strftime("%Y-%m-%d_%H-%M-%S")
if iterator:
file_name_base = "{}_{}".format(file_name_base, iterator)
file_name = "{}.{}".format(file_name_base, fmt)
# Create folder and file
if folder:
if not os.path.exists(folder):
os.mkdir(folder)
file_path = os.path.join(folder, file_name)
else:
file_path = file_name
return file_path
def lock(self):
"""Set locked flag to True."""
self.locked = True
def unlock(self):
"""Set locked flag to False."""
self.locked = False
@property
def stream_exists(self, auto_rewind=True) -> bool:
"""Check if BytesIO stream is empty"""
if auto_rewind:
self.stream.seek(0) # Rewind the data bytes for reading
if self.stream.getvalue(): # If data stream contains data
self.stream.seek(0) # Rewind the data bytes for reading
return True
else:
self.stream.seek(0) # Rewind the data bytes for reading
return False
@property
def file_exists(self) -> bool:
"""Check if corresponding file exists"""
if os.path.isfile(self.file):
return True
else:
return False
@property
def metadata(self) -> dict:
d = {
'id': self.id,
'locked': self.locked,
'keep_on_disk': self.keep_on_disk,
'path': self.file,
}
# Get file path
if self.file_exists:
d['file'] = self.file
else:
d['file'] = None
# Check stream
if self.stream_exists:
d['stream'] = True
else:
d['stream'] = False
# Check if file was manually deleted
if self.keep_on_disk and not self.file_exists:
d['path'] = "{} (Deleted)".format(d['path'])
return d
@property
def data(self) -> io.BytesIO:
"""Return a byte string of the capture data."""
self.stream.seek(0) # Rewind the data bytes for reading
if self.stream_exists: # If data stream contains data
data = io.BytesIO(self.stream.getbuffer()) # Create a copy of the stream bytes
else: # If data stream is empty
if self.file_exists: # If data file exists
# TODO: Streamline this bit
log("No stream data. Opening from file {}".format(self.file))
with open(self.file, 'rb') as f:
d = io.BytesIO(f.read()) # Load bytes from file in disk
d.seek(0) # Rewind loaded stream
data = io.BytesIO(d.getbuffer()) # Create a copy of the stream bytes
else:
data = None
return data # Read and return bytes data
@property
def binary(self) -> bytes:
"""Return a byte string of the capture data."""
return self.data.getvalue()
def load_file(self) -> bool:
"""Load data stored on disk to the in-memory stream."""
if self.file_exists: # If data file exists
# TODO: Streamline this bit
with open(self.file, 'rb') as f:
self.stream = io.BytesIO(f.read()) # Load bytes from file in disk
self.stream.seek(0) # Rewind data bytes again
return True
else:
return False
def save_file(self) -> bool:
"""
Write the StreamObjects stream to a file.
"""
if self.stream_exists: # If there's a stream to save
with open(self.file, 'ab') as f: # Load file as bytes
log("Writing stream to file {}".format(self.file))
f.seek(0, 0) # Seek to the start of the file
f.write(self.binary) # Write data bytes to file
return True
else:
return False
def delete_stream(self):
"""Clears the BytesIO stream of the StreamObject."""
self.stream = io.BytesIO()
def delete_file(self) -> bool:
"""
If the StreamObject has been saved to disk, deletes the file and returns True.
"""
if os.path.isfile(self.file):
log("Deleting file {}".format(self.file))
os.remove(self.file)
return True
else:
log("File not found {}".format(self.file))
return False
def shunt(self):
"""Demote the StreamObject from being stored in memory."""
if not self.file_exists: # If file doesn't already exist
self.save_file() # Save stream to disk, if it exists
self.delete_stream() # Delete the stream from memory
def close(self):
"""Both clear the stream, and delete any associated on-disk data"""
self.delete_stream()
if not self.keep_on_disk:
self.delete_file()
class CameraEvent(object):
"""An Event-like class that signals all active clients when a new frame is
available.
"""
def __init__(self):
self.events = {}
def wait(self, timeout: int=5):
"""Invoked from each client's thread to wait for the next frame."""
ident = get_ident()
if ident not in self.events:
# this is a new client
# add an entry for it in the self.events dict
# each entry has two elements, a threading.Event() and a timestamp
self.events[ident] = [threading.Event(), time.time()]
return self.events[ident][0].wait(timeout)
def set(self):
"""Invoked by the camera thread when a new frame is available."""
now = time.time()
remove = None
for ident, event in self.events.items():
if not event[0].isSet():
# if this client's event is not set, then set it
# also update the last set timestamp to now
event[0].set()
event[1] = now
else:
# if the client's event is already set, it means the client
# did not process a previous frame
# if the event stays set for more than 5 seconds, then assume
# the client is gone and remove it
if now - event[1] > 5:
remove = ident
if remove:
del self.events[remove]
def clear(self):
"""Invoked from each client's thread after a frame was processed."""
self.events[get_ident()][0].clear()
class BaseCamera(object):
thread = None # Background thread that reads frames from camera
camera = None # Camera object, for direct access to camera
frame = None # Current frame is stored here by background thread
last_access = 0 # Time of last client access to the camera
event = CameraEvent()
def __init__(self):
self.state = {} # Create dict for capture state
self.settings = {} # Create dict to store settings
def start_worker(self, timeout: int=5) -> bool:
"""Start the background camera thread if it isn't running yet."""
timeout_time = time.time() + timeout
self.last_access = time.time()
self.stop = False
if self.thread is None:
# start background frame thread
self.thread = threading.Thread(target=self._thread)
self.thread.start()
# wait until frames are available
log("Waiting for frames")
while self.get_frame() is None:
if time.time() > timeout_time:
raise TimeoutError("Timeout waiting for frames.")
break
else:
time.sleep(0)
return True
def stop_worker(self, timeout: int=5) -> bool:
"""Flags worker thread for stop. Waits for thread to close, or times out."""
timeout_time = time.time() + timeout
self.stop = True
while self.thread:
if time.time() > timeout_time:
raise TimeoutError("Timeout waiting for worker thread to close.")
break
else:
time.sleep(0)
return True
def get_frame(self):
"""Return the current camera frame."""
self.last_access = time.time()
# wait for a signal from the camera thread
self.event.wait()
self.event.clear()
return self.frame
def frames(self):
"""Generator that returns frames from the camera."""
raise RuntimeError('Must be implemented by subclasses.')
def close(self):
"""Handles closing the StreamingCamera"""
self.stop_worker()
def __enter__(self):
return self
def __exit__(self, exc_type, exc_value, traceback):
"""Close camera stream on context exit."""
self.close()
def _thread(self):
"""Camera background thread."""
self.frames_iterator = self.frames()
# Update state
self.state['stream_active'] = True
for frame in self.frames_iterator:
self.frame = frame
self.event.set() # send signal to clients
time.sleep(0)
# if there hasn't been any clients asking for frames in
# the last 10 seconds then stop the thread
if time.time() - self.last_access > 20:
self.frames_iterator.close()
break
try:
if self.stop is True:
self.frames_iterator.close()
break
except AttributeError:
pass
# Reset thread
self.thread = None
# Destroy any stored camera object (used especially for handling Pi cameras)
self.camera = None
# Update state
self.state['stream_active'] = False