Click on the log titles below to expand the log entries present in this DC resource.
dclab-export_2024-07-10_18.15.49
{"dclab version": [0, 60, 3], "kwargs": {"features": ["area_cvx", "area_msd", "circ", "contour", "fl1_area", "fl1_dist", "fl1_max", "fl1_npeaks", "fl1_pos", "fl1_width", "fl2_area", "fl2_dist", "fl2_max", "fl2_npeaks", "fl2_pos", "fl2_width", "frame", "image", "inert_ratio_cvx", "inert_ratio_raw", "mask", "nevents", "pos_x", "pos_y", "size_x", "size_y", "trace"], "filtered": true, "logs": false, "tables": false, "basins": false, "meta_prefix": "src_", "skip_checks": false}}
dclab-tdms2rtdc
{
"ancillary features": [
"mask"
],
"files": [
{
"index": 1,
"md5-5M": "330cb07027b81b5a0b72fe498121b835",
"name": "M1_20170616_1546_dsRNA_N2_col.tdms"
}
],
"libraries": {
"dclab": "0.60.3",
"h5py": "3.11.0",
"imageio": "2.34.2",
"nptdms": "1.8.0",
"numpy": "1.26.4"
},
"python": {
"build": "tags/v3.11.1:a7a450f, Dec 6 2022 19:58:39",
"implementation": "CPython",
"version": "3.11.1"
},
"system": {
"info": "Windows-10-10.0.19045-SP0",
"machine": "AMD64",
"name": "Windows",
"release": "10",
"version": "10.0.19045"
},
"utc": {
"date": "2024-07-10",
"time": "16:16:11"
}
}
dclab-tdms2rtdc-warnings
LimitingExportSizeWarning
in dclab.rtdc_dataset.export line 305:
Not all features have the same length! Limiting output event count to 8560 (max 8561) in '8560'.
FG_Config.mcf
[Kamerasektion]
ConfigFileVersion=2.0;
Hersteller='Generic-CameraLink';
Typ='vas';
HapName='C:/Lib/SiliconSoftware/Runtime5.4.1/Hardware Applets/mE4VD4-CL/PR_BG_subtr_141204_ext_trig_noerode.hap';
Version='1.5';
LoadAppletId=0;
AktivePort=0;
[ID0]
FG_WIDTH=256;
FG_HEIGHT=96;
FG_TIMEOUT=1000000;
FG_FORMAT=3;
FG_PORT=0;
FG_GLOBAL_ACCESS=0;
Device1_Process0_UpperBits_BitOffset=4;
Device1_Process0_module9_SyncMode=0;
Device1_Process0_Camera_DvalMode=1;
Device1_Process0_Camera_FullMode=0;
Device1_Process0_DMA_PixelsPerLine=0;
Device1_Process0_DMA_BytesPerLine=0;
Device1_Process0_LowerBits_BitOffset=0;
Device1_Process0_Buffer1_XOffset=0;
Device1_Process0_Buffer1_XLength=256;
Device1_Process0_Buffer1_YOffset=0;
Device1_Process0_Buffer1_YLength=96;
Device1_Process0_Buffer1_FillLevel=75;
Device1_Process0_Buffer1_Overflow=0;
Device1_Process0_Buffer1_InfiniteSource=0;
Device1_Process0_Buffer0_XOffset=0;
Device1_Process0_Buffer0_XLength=256;
Device1_Process0_Buffer0_YOffset=0;
Device1_Process0_Buffer0_YLength=96;
Device1_Process0_Buffer0_FillLevel=75;
Device1_Process0_Buffer0_Overflow=0;
Device1_Process0_Buffer0_InfiniteSource=0;
Device1_Process0_module12_BufferWidth=400;
Device1_Process0_module12_BufferHeight=96;
Device1_Process0_module12_XOffset=0;
Device1_Process0_module12_XLength=256;
Device1_Process0_module12_YOffset=0;
Device1_Process0_module12_YLength=96;
Device1_Process0_module12_UpdateROI=1;
Device1_Process0_module12_CoefficientFile 0='coefficients_0.tif';
Device1_Process0_module12_LoadCoefficients=1;
Device1_Process0_module13_SyncMode=0;
Device1_Process0_module16_from=18446744073709551360;
Device1_Process0_module16_to=18446744073709551610;
Device1_Process0_module17_Value=0;
Device1_Process0_module20_PixelsPerLine=0;
Device1_Process0_module20_BytesPerLine=0;
Device1_Process0_module21_Number=0;
Device1_Process0_module26_ScaleFactorMaxBits=8;
Device1_Process0_module26_ScaleFactor=255;
Device1_Process0_module28_TriggerMode=2;
Device1_Process0_module28_ExsyncEnable=1;
Device1_Process0_module28_FlashEnable=1;
Device1_Process0_module28_SoftwareTrgPulse=1;
Device1_Process0_module28_SoftwareTrgIsBusy=0;
Device1_Process0_module28_ImgTrgInSource=0;
Device1_Process0_module28_ImgTrgInPolarity=0;
Device1_Process0_module28_ImgTrgDownscale=1;
Device1_Process0_module28_Accuracy=2;
Device1_Process0_module28_ExsyncFramesPerSec=2000;
Device1_Process0_module28_ExsyncExposure=20;
Device1_Process0_module28_ExsyncDelay=0;
Device1_Process0_module28_ExsyncPolarity=0;
Device1_Process0_module28_FlashDelay=0;
Device1_Process0_module28_SoftwareTrgDeadTime=10000;
Device1_Process0_module28_FlashPolarity=1;
Device1_Process0_module28_CC1output=0;
Device1_Process0_module28_CC2output=8;
Device1_Process0_module28_CC3output=8;
Device1_Process0_module28_CC4output=8;
Device1_Process0_module28_DebouncingMaxTime=65.52;
Device1_Process0_module28_DebouncingTime=0.112;
[ID1]
FG_WIDTH=256;
FG_HEIGHT=96;
FG_TIMEOUT=1000000;
FG_FORMAT=3;
M1_camera.ini
[Framerate]
Shutter Time = 20
Frame Rate = 2000
Tap Mode = 8x8 Bit
Tap Code = 6
[ROI]
x-pos = 504
y-pos = 472
width = 256
height = 96
M1_log.ini
[EVENT LOG] fRT-DC V1.06170206
Reset global variables..
Circular Buffer Size is: 1000000
Ambient Temperature [C] = 25.0015
Start pulse train for BG Aquisition..
Now refreshing the background image stored in the framegrabber
STATE: 3
Starting time: 2.18164e+008
Use analog input: pci/ai4,pci/ai5
Samplerate per channel: 500000
Buffersize in byte: 1000000
Rising Edge, Continuous Sampling
N_callback: 125
Callbacks per frame: 2
Callback registered
Configure tasks for online measurement..
Timing: start directly
Freq: 2000
Duty cycle: 0.5
Reset global variables: i0, i1, samplesThisRun
Start the Fragegrabber ..
Start the NI-DAQ Card..
Stop after time: 0
Stop after nr. of cells: 10000
Ran for 550 frames Cell Events: 18 mean_circ: 0.95024
Ran for 1050 frames Cell Events: 31 mean_circ: 0.95115
Ran for 1550 frames Cell Events: 45 mean_circ: 0.946323
Ran for 2050 frames Cell Events: 71 mean_circ: 0.952185
Ran for 2550 frames Cell Events: 86 mean_circ: 0.952913
Ran for 3050 frames Cell Events: 102 mean_circ: 0.954338
Ran for 4550 frames Cell Events: 163 mean_circ: 0.956678
Ran for 5550 frames Cell Events: 195 mean_circ: 0.954617
Ran for 6050 frames Cell Events: 213 mean_circ: 0.954941
Ran for 6550 frames Cell Events: 236 mean_circ: 0.95388
Ran for 7550 frames Cell Events: 271 mean_circ: 0.954561
Ran for 8050 frames Cell Events: 293 mean_circ: 0.954622
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Ran for 10050 frames Cell Events: 378 mean_circ: 0.954196
Ran for 10550 frames Cell Events: 403 mean_circ: 0.953865
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Ran for 14050 frames Cell Events: 524 mean_circ: 0.953086
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Ran for 15050 frames Cell Events: 565 mean_circ: 0.953461
Ran for 16050 frames Cell Events: 607 mean_circ: 0.952516
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Ran for 68550 frames Cell Events: 2738 mean_circ: 0.952558
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Ran for 74050 frames Cell Events: 2934 mean_circ: 0.952451
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Ran for 76050 frames Cell Events: 3003 mean_circ: 0.952509
Ran for 76550 frames Cell Events: 3021 mean_circ: 0.952504
Ran for 77050 frames Cell Events: 3036 mean_circ: 0.95249
Ran for 78050 frames Cell Events: 3074 mean_circ: 0.952434
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Ran for 84050 frames Cell Events: 3306 mean_circ: 0.952589
Ran for 85050 frames Cell Events: 3341 mean_circ: 0.952541
Ran for 85550 frames Cell Events: 3358 mean_circ: 0.952572
Ran for 86550 frames Cell Events: 3396 mean_circ: 0.952513
Ran for 88050 frames Cell Events: 3459 mean_circ: 0.952463
Ran for 88550 frames Cell Events: 3471 mean_circ: 0.952418
Ran for 89050 frames Cell Events: 3493 mean_circ: 0.952453
Ran for 89550 frames Cell Events: 3503 mean_circ: 0.952493
Ran for 90550 frames Cell Events: 3551 mean_circ: 0.952397
Ran for 91050 frames Cell Events: 3569 mean_circ: 0.952422
Ran for 93550 frames Cell Events: 3651 mean_circ: 0.952443
Ran for 95050 frames Cell Events: 3720 mean_circ: 0.952332
Ran for 95550 frames Cell Events: 3745 mean_circ: 0.952334
Ran for 96550 frames Cell Events: 3792 mean_circ: 0.952323
Ran for 97550 frames Cell Events: 3832 mean_circ: 0.952154
Ran for 98050 frames Cell Events: 3846 mean_circ: 0.952125
Ran for 99050 frames Cell Events: 3898 mean_circ: 0.952089
Ran for 100050 frames Cell Events: 3945 mean_circ: 0.95201
Ran for 100550 frames Cell Events: 3970 mean_circ: 0.952049
Ran for 101550 frames Cell Events: 4023 mean_circ: 0.951926
Ran for 102050 frames Cell Events: 4032 mean_circ: 0.951858
Ran for 102550 frames Cell Events: 4047 mean_circ: 0.951906
Ran for 103050 frames Cell Events: 4067 mean_circ: 0.951877
Ran for 103550 frames Cell Events: 4091 mean_circ: 0.951904
Ran for 104050 frames Cell Events: 4106 mean_circ: 0.951875
Ran for 104550 frames Cell Events: 4129 mean_circ: 0.951852
Ran for 105550 frames Cell Events: 4166 mean_circ: 0.951847
Ran for 106050 frames Cell Events: 4190 mean_circ: 0.951872
Ran for 108050 frames Cell Events: 4304 mean_circ: 0.951968
Ran for 108550 frames Cell Events: 4322 mean_circ: 0.951958
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Ran for 122050 frames Cell Events: 4885 mean_circ: 0.951864
Ran for 122550 frames Cell Events: 4893 mean_circ: 0.951855
Ran for 123050 frames Cell Events: 4912 mean_circ: 0.951835
Ran for 123550 frames Cell Events: 4942 mean_circ: 0.951856
Ran for 124050 frames Cell Events: 4960 mean_circ: 0.951837
Ran for 125550 frames Cell Events: 5014 mean_circ: 0.951771
Ran for 126050 frames Cell Events: 5032 mean_circ: 0.951744
Ran for 127050 frames Cell Events: 5076 mean_circ: 0.951746
Ran for 128050 frames Cell Events: 5126 mean_circ: 0.951666
Ran for 128550 frames Cell Events: 5152 mean_circ: 0.95165
Ran for 129050 frames Cell Events: 5179 mean_circ: 0.951599
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Ran for 140550 frames Cell Events: 5705 mean_circ: 0.951687
Ran for 141050 frames Cell Events: 5722 mean_circ: 0.951707
Ran for 141550 frames Cell Events: 5745 mean_circ: 0.951727
Ran for 142050 frames Cell Events: 5769 mean_circ: 0.951755
Ran for 142550 frames Cell Events: 5790 mean_circ: 0.95174
Ran for 143050 frames Cell Events: 5812 mean_circ: 0.951737
Ran for 144550 frames Cell Events: 5862 mean_circ: 0.951727
Ran for 146050 frames Cell Events: 5940 mean_circ: 0.951764
Ran for 146550 frames Cell Events: 5963 mean_circ: 0.951766
Ran for 147550 frames Cell Events: 6001 mean_circ: 0.951821
Ran for 148050 frames Cell Events: 6025 mean_circ: 0.951827
Ran for 148550 frames Cell Events: 6050 mean_circ: 0.951833
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Ran for 156050 frames Cell Events: 6410 mean_circ: 0.951902
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Ran for 158050 frames Cell Events: 6497 mean_circ: 0.951859
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Ran for 205550 frames Cell Events: 8536 mean_circ: 0.951636
Ran for 206050 frames Cell Events: 8558 mean_circ: 0.951652
End this measurment..
Stopping time: 2.18268e+008
****************************************
Measurement finished
Mean Circularitiy: 0.951544
Mean Area: 586.396
Mean FL-1 intensity: 3199.05
Mean FL-2 intensity: 3884.02
Mean FL-3 intensity: 0
frames processed: 205330
Total Time: 103129ms
Number of Runs (new bg img) 0
Frames collected: 206125
Skipped frames: 28710
Rescued Frames: 2600739
Samples DAQ: 51531666
Samples written: 103062254
Samples per Channel: 51531127
FPS: 1998.71
Samples per second: 499677
Expected samples/s: 500000
Events: 8562
Events per second: 83.0223
jumped back (PMT): 5486
#Frames read, frequency
# 0 frames :299528
# 1 frames :95458
# 2 frames :5250
# 3 frames :1568
# 4 frames :994
# 5 frames :346
# 6 frames :1355
# 7 frames :2251
# 8 frames :935
# 9 frames :681
# 10 frames :1347
# 11 frames :473
# 12 frames :390
# 13 frames :204
# 14 frames :201
# 15 frames :251
# 16 frames :191
# 17 frames :141
# 18 frames :109
# 19 frames :76
# 20 frames :56
# 21 frames :67
# 22 frames :55
# 23 frames :40
# 24 frames :40
# 25 frames :38
# 26 frames :24
# 27 frames :5
# 28 frames :10
# 29 frames :10
# 30 frames :5
# 31 frames :7
# 32 frames :5
# 33 frames :6
# 34 frames :4
# 35 frames :11
# 36 frames :5
# 37 frames :2
# 38 frames :5
# 39 frames :1
# 40 frames :1
# 41 frames :1
# 42 frames :1
# 43 frames :1
# 44 frames :2
# 46 frames :1
# 48 frames :1
# 50 frames :1
# 51 frames :1
# 59 frames :1
# 61 frames :1
# 70 frames :1
M1_para.ini
[General]
Measurement Number = 1
Flow Rate [ul/s] = 0.04
Region = "Channel"
Channel width = 20
Current LED = 100
[Image]
Setup = Cell_Flow_2 + Fluor
Bin Ops = 5
Blur = 0
Trig Thresh = 50
t1 = -256
t2 = -6
Pix Size = 0.34
Cell Min = 6
Cell Max = 50
Thresh = 6
Diff_Method = 1
Margin = 0
#[FLUOR]
#fRT-DC V1.06170206
#Samplerate = 500000
#Bitdepthraw = 16
#Format = int16
#ADCmin = -1
#ADCmax = 1
#FL-Channels = 2
Laser Power 488 [mW] = 10
Laser Power 561 [mW] = 35
Laser Power 640 [mW] = 0
Ambient Temp. [C] = 25.0015
parameters.txt
#fRT-DC Configuration file
# You may change the values here before a measurement.
debug 0
hull 1
x_size 256
y_size 96
x_pos 504
y_pos 464
pix_size 0.34
cell_min 6
cell_max_x 50
cell_max_y 50
cell_aspect_min 0
cell_aspect_max 10
threshold1 -256
threshold2 -6
trig_threshold 50
MARGIN 0
write_videos 0
write_phot_det 0
show_video 1
write_events 1
fps 2000
samplesperframe 300
Vmin -1
Vmax 1
invertCh1 1
invertCh2 1
invertCh3 1
invertChX 1
samplerate 500000
bg_img 100
channel_width 20
current_led 100
pulse_led 2
binary_ops 5
blur 0
median_pmt 5
software_binops 1
flowctrl 0
flowwait 60
numberofchannels 2
firstchannel 4
secondchannel 5
thirdchannel -6
laser488 10
laser561 35
laser640 0
peakcountthreshold 1000
peakDipRatio 0.8
offsetFL1 0
offsetFL2 0
offsetFL3 0
rollingAverage 100
stopCell 10000
stopTime 0
minFL1 400
minFL2 668
minFL3 -32768
maxFL1 32767
maxFL2 32767
maxFL3 32767
setTimingAutomatic 1
plotWidth 0
getBrightness 0
intellPeak 0