DisperScripts/dispertech.yml at main · Dispertech/DisperScripts · GitHub

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%YAML 1.2
---
# Default parameters for the Tracking program
# All parameters can be changed to accommodate user needs.
# All parameters can be changed at runtime with the appropriate config window
user:
  name: Aquiles

electronics:
  arduino:
    device: 0
  vertical_axis: 1
  horizontal_axis: 2

laser:
  power: 0

mirror:
  speed: 1

info:
  folder: "C:\\Users\\aquic\\Data"
  cartridge_number: 2001001
  description: "Diffusion Movie"
  filename_fiber: fiber_end_{cartridge_number}_{i}.npy
  filename_laser: laser_position_{cartridge_number}_{i}.npy
  filename_microscope: microscope_{cartridge_number}_{i}.npy
  filename_movie: movie_{cartridge_number}_{i}.h5

centroid:
  laser_power: 30  # This is the laser power that will be used in order to be consistent with centroid extraction
  exposure_time: 1ms
  gain: 0.

saving:
  auto_save: False
  auto_save_waterfall: True
  directory:  C:\\Users\\aquic\\Data
  filename_video: Video # Can be the same filename for video and photo
  filename_photo: Snap
  filename_tracks: Tracks
  filename_waterfall: Waterfall
  filename_trajectory: Trajectory
  filename_log: Log
  max_memory: 500 # In megabytes

GUI:
  length_waterfall: 20 # Total length of the Waterfall (lines)
  refresh_time: 50 # Refresh rate of the GUI (in ms)

camera_fiber:
  model: basler # Should be a python file in model/cameras
  init: daA1280 # Initial arguments to pass when creating the camera
  #extra_args: [extra, arguments] # Extra arguments that can be passed when constructing the model
  model_camera: Dart # To keep a registry of which camera was used in the experiment
  config:
    exposure: 100ms # Initial exposure time (in ms)
    gain: 14.
    auto_exposure: Off
    auto_gain: Off
    pixel_format: Mono8
    binning: [1, 1] # Binning
    ROI: [[1, 1280], [1, 960]]
    buffer_size: 200MB  # Buffer size to allocate memory in the ring-buffer of Basler

camera_microscope:
  model: basler # Should be a python file in model/cameras
  init: a2A1920 # Initial arguments to pass when creating the camera
  #extra_args: [extra, arguments] # Extra arguments that can be passed when constructing the model
  model_camera: ACE # To keep a registry of which camera was used in the experiment
  config:
    exposure: 500us # Initial exposure time (in ms)
    gain: 0.
    ROI: [[1, 1920], [1, 1200]]
    pixel_format: Mono12
    auto_exposure: Off
    auto_gain: Off
    buffer_size: 1000MB

movie:
  buffer_length: 5000 # Frames

tracking:
  locate:
    diameter: 5  # Diameter of the particles (in pixels) to track, has to be an odd number
    invert: False
    minmass: 100
  link:
    memory: 3
    search_range: 5
  filter:  # Filter spurious trajectories
    min_length: 25
  process:
    compute_drift: False
    um_pixel: 0.15  # Microns per pixel (calibration of the microscope)
    min_traj_length: 2
    min_mass: 0.05
    max_size: 50.0
    max_ecc: 1
    fps: 30
  param_1: 0.
  param_2: 0

debug:
  logging_level: Nothing # One of Nothing, Debug, Info, Warning, Error
  queue_memory: False
  to_screen: True

sample:
  name: a123
  description: Short Description
  cartrdige_number: 19NNMM

laser_focusing:
  high:
    exposure_time: 50ms
    gain: 18.
  low:
    exposure_time: .01ms
    gain: 0.

microscope_focusing:
  high:
    exposure_time: 100ms
    gain: 24.
  low:
    exposure_time: 1ms
    gain: 0.