394 lines
8.3 KiB
YAML
394 lines
8.3 KiB
YAML
microscopes:
|
|
SpectralTIRF_lt538:
|
|
daq:
|
|
hardware:
|
|
name: daq
|
|
type: NI
|
|
sample_rate: 100000
|
|
sweep_time: 0.2
|
|
master_trigger_out_line: PCIE6738/port0/line1
|
|
camera_trigger_out_line: /PCIE6738/ctr0
|
|
trigger_source: /PCIE6738/PFI0
|
|
laser_port_switcher: PCIE6738/port0/line0
|
|
laser_switch_state: False
|
|
# dichroic:
|
|
# hardware:
|
|
# name: ASI
|
|
# type: ASI #synthetic #ASI
|
|
# port: COM17
|
|
# axes: [S]
|
|
# baudrate: 115200
|
|
# available_dichroics:
|
|
# 510LP: 0
|
|
# 570LP: 1
|
|
# 640LP: 2
|
|
camera:
|
|
hardware:
|
|
name: camera
|
|
type: HamamatsuOrca
|
|
serial_number: 003055
|
|
x_pixels: 2048.0
|
|
y_pixels: 2048.0
|
|
pixel_size_in_microns: 6.5
|
|
subsampling: [1, 2, 4]
|
|
sensor_mode: Normal # 12 for progressive, 1 for normal. Normal/Light-Sheet
|
|
readout_direction: Top-to-Bottom # Top-to-Bottom', 'Bottom-to-Top'
|
|
lightsheet_rolling_shutter_width: 608
|
|
defect_correct_mode: 2.0
|
|
binning: 1x1
|
|
readout_speed: 1.0
|
|
trigger_active: 1.0
|
|
trigger_mode: 1.0 # external light-sheet mode
|
|
trigger_polarity: 2.0 # positive pulse
|
|
trigger_source: 2.0 # 2 = external, 3 = software.
|
|
exposure_time: 20 # Use milliseconds throughout.
|
|
delay_percent: 10
|
|
pulse_percent: 1
|
|
line_interval: 0.000075
|
|
display_acquisition_subsampling: 4
|
|
average_frame_rate: 4.969
|
|
frames_to_average: 1
|
|
exposure_time_range:
|
|
min: 1
|
|
max: 1000
|
|
step: 1
|
|
x_pixels_step: 4
|
|
y_pixels_step: 4
|
|
x_pixels_min: 4
|
|
y_pixels_min: 4
|
|
remote_focus_device:
|
|
hardware:
|
|
name: daq
|
|
type: NI
|
|
channel: PCIE6738/ao2
|
|
min: 0
|
|
max: 5
|
|
delay_percent: 7.5
|
|
ramp_rising_percent: 85
|
|
ramp_falling_percent: 2.5
|
|
amplitude: 0.7
|
|
offset: 2.3
|
|
galvo:
|
|
-
|
|
hardware:
|
|
name: daq
|
|
type: NI
|
|
channel: PCIE6738/ao2 #galvo-x
|
|
min: -5
|
|
max: 5
|
|
waveform: sine
|
|
frequency: 99.9
|
|
period: 10
|
|
amplitude: 2.5
|
|
offset: 0
|
|
duty_cycle: 50
|
|
phase: 0
|
|
-
|
|
hardware:
|
|
name: daq
|
|
type: NI
|
|
channel: PCIE6738/ao3 #galvo-y
|
|
min: -5
|
|
max: 5
|
|
waveform: sine
|
|
frequency: 99.9
|
|
period: 10
|
|
amplitude: 2.5
|
|
offset: 0
|
|
duty_cycle: 50
|
|
phase: 90
|
|
filter_wheel:
|
|
-
|
|
hardware:
|
|
name: emission
|
|
type: ASI
|
|
wheel_number: 0
|
|
port: COM17
|
|
baudrate: 115200
|
|
filter_wheel_delay: .030 # in seconds
|
|
available_filters:
|
|
Empty 1: 0
|
|
482/35: 1
|
|
520/15: 2
|
|
NF03-488E: 3
|
|
Blocked2: 4
|
|
Blocked3: 5
|
|
Empty 2: 6
|
|
Blocked 4: 7
|
|
Blocked 5: 8
|
|
Blocked 6: 9
|
|
-
|
|
hardware:
|
|
name: emission
|
|
type: ASI
|
|
wheel_number: 1
|
|
port: COM17
|
|
baudrate: 115200
|
|
filter_wheel_delay: .030 # in seconds
|
|
available_filters:
|
|
Empty 1: 0
|
|
575/15: 1
|
|
647/57: 2
|
|
Blocked: 3
|
|
593/lp: 4
|
|
578/21: 5
|
|
Empty 2: 6
|
|
Blocked 4: 7
|
|
Blocked 5: 8
|
|
Blocked 6: 9
|
|
stage:
|
|
hardware:
|
|
-
|
|
name: ASI
|
|
type: ASI
|
|
port: COM17
|
|
baudrate: 115200
|
|
serial_number: 119060508
|
|
axes: [x, y, z]
|
|
axes_mapping: [X, Y, Z]
|
|
volts_per_micron: None
|
|
axes_channels: None
|
|
max: None
|
|
min: None
|
|
-
|
|
name: Synthetic
|
|
type: SyntheticStage
|
|
serial_number: 119060508
|
|
axes: [theta, f]
|
|
axes_mapping: [theta, f]
|
|
volts_per_micron: None
|
|
axes_channels: None
|
|
max: None
|
|
min: None
|
|
|
|
x_max: 50000
|
|
x_min: -50000
|
|
y_max: 50000
|
|
y_min: -50000
|
|
z_max: 50000
|
|
z_min: -50000
|
|
f_max: 50000
|
|
f_min: 0
|
|
theta_max: 360
|
|
theta_min: 0
|
|
|
|
x_step: 500
|
|
y_step: 500
|
|
z_step: 500
|
|
theta_step: 30
|
|
f_step: 500
|
|
velocity: 1000
|
|
zoom:
|
|
hardware:
|
|
name: zoom
|
|
type: synthetic
|
|
servo_id: 1
|
|
position:
|
|
110x: 0
|
|
pixel_size:
|
|
110x: 0.059
|
|
shutter:
|
|
hardware:
|
|
name: daq
|
|
type: synthetic
|
|
channel: PCIE6738/port0/line0
|
|
min: 0
|
|
max: 5
|
|
lasers:
|
|
- wavelength: 405
|
|
onoff:
|
|
hardware:
|
|
name: daq
|
|
type: NI
|
|
channel: PCIE6738/port1/line1 #38/35
|
|
min: 0
|
|
max: 5
|
|
power:
|
|
hardware:
|
|
name: daq
|
|
type: NI
|
|
channel: PCIE6738/ao21
|
|
min: 0
|
|
max: 5
|
|
type: Obis
|
|
index: 0
|
|
delay_percent: 10
|
|
pulse_percent: 87
|
|
|
|
- wavelength: 445
|
|
onoff:
|
|
hardware:
|
|
name: daq
|
|
type: NI
|
|
channel: PCIE6738/ao4
|
|
min: 0
|
|
max: 5
|
|
power:
|
|
hardware:
|
|
name: daq
|
|
type: NI
|
|
channel: PCIE6738/ao5
|
|
min: 0
|
|
max: 5
|
|
type: LuxX
|
|
index: 0
|
|
delay_percent: 10
|
|
pulse_percent: 87
|
|
|
|
- wavelength: 488
|
|
onoff:
|
|
hardware:
|
|
name: daq
|
|
type: NI
|
|
channel: PCIE6738/ao6
|
|
min: 0
|
|
max: 5
|
|
power:
|
|
hardware:
|
|
name: daq
|
|
type: NI
|
|
channel: PCIE6738/ao7
|
|
min: 0
|
|
max: 5
|
|
type: LuxX
|
|
index: 0
|
|
delay_percent: 10
|
|
pulse_percent: 87
|
|
|
|
- wavelength: 514
|
|
onoff:
|
|
hardware:
|
|
name: daq
|
|
type: NI
|
|
channel: PCIE6738/ao8
|
|
min: 0
|
|
max: 5
|
|
power:
|
|
hardware:
|
|
name: daq
|
|
type: NI
|
|
channel: PCIE6738/ao9
|
|
min: 0
|
|
max: 5
|
|
type: LuxX
|
|
index: 0
|
|
delay_percent: 10
|
|
pulse_percent: 87
|
|
- wavelength: 532
|
|
onoff:
|
|
hardware:
|
|
name: daq
|
|
type: NI
|
|
channel: PCIE6738/ao10
|
|
min: 0
|
|
max: 5
|
|
power:
|
|
hardware:
|
|
name: daq
|
|
type: NI
|
|
channel: PCIE6738/ao11
|
|
min: 0
|
|
max: 5
|
|
type: LuxX
|
|
index: 0
|
|
delay_percent: 10
|
|
pulse_percent: 87
|
|
- wavelength: 562
|
|
onoff:
|
|
hardware:
|
|
name: daq
|
|
type: NI
|
|
channel: PCIE6738/ao12
|
|
min: 0
|
|
max: 5
|
|
power:
|
|
hardware:
|
|
name: daq
|
|
type: NI
|
|
channel: PCIE6738/ao13
|
|
min: 0
|
|
max: 5
|
|
type: Obis
|
|
index: 1
|
|
delay_percent: 10
|
|
pulse_percent: 87
|
|
|
|
- wavelength: 592
|
|
onoff:
|
|
hardware:
|
|
name: daq
|
|
type: NI
|
|
channel: PCIE6738/ao14
|
|
min: 0
|
|
max: 5
|
|
power:
|
|
hardware:
|
|
name: daq
|
|
type: NI
|
|
channel: PCIE6738/ao15
|
|
min: 0
|
|
max: 5
|
|
type: LuxX
|
|
index: 0
|
|
delay_percent: 10
|
|
pulse_percent: 87
|
|
|
|
|
|
- wavelength: 642
|
|
onoff:
|
|
hardware:
|
|
name: daq
|
|
type: NI
|
|
channel: PCIE6738/ao16
|
|
min: 0
|
|
max: 5
|
|
power:
|
|
hardware:
|
|
name: daq
|
|
type: NI
|
|
channel: PCIE6738/ao17
|
|
min: 0
|
|
max: 5
|
|
type: LuxX
|
|
index: 2
|
|
delay_percent: 10
|
|
pulse_percent: 87
|
|
|
|
|
|
gui:
|
|
channels:
|
|
count: 5
|
|
laser_power:
|
|
min: 0
|
|
max: 100
|
|
step: 10
|
|
exposure_time:
|
|
min: 1
|
|
max: 1000
|
|
step: 5
|
|
interval_time:
|
|
min: 0
|
|
max: 1000
|
|
step: 5
|
|
stack_acquisition:
|
|
step_size:
|
|
min: 0.200
|
|
max: 1000
|
|
step: 0.1
|
|
start_pos:
|
|
min: -5000
|
|
max: 5000
|
|
step: 1
|
|
end_pos:
|
|
min: -5000
|
|
max: 10000
|
|
step: 1
|
|
timepoint:
|
|
timepoints:
|
|
min: 1
|
|
max: 1000
|
|
step: 1
|
|
stack_pause:
|
|
min: 0
|
|
max: 1000
|
|
step: 1 |