M1_20170618_1836_dsRNA_S8_faster.rtdc
Click on the log titles below to expand the log entries present in this DC resource.
dclab-export_2024-07-10_18.59.37
{"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": "9a79adc5c46a959419deb7b7b4f8a8b9",
"name": "M1_20170618_1836_dsRNA_S8_faster.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": "16:59:58"
}
}
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 V1.06170206Reset global variables..
Circular Buffer Size is: 1000000
Ambient Temperature [C] = 24.9521
Start pulse train for BG Aquisition..
Now refreshing the background image stored in the framegrabber
STATE: 3
Starting time: 4.0116e+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 50 frames Cell Events: 0 mean_circ: 0.940847
Ran for 550 frames Cell Events: 4 mean_circ: 0.919755
Ran for 1050 frames Cell Events: 8 mean_circ: 0.930563
Ran for 1550 frames Cell Events: 12 mean_circ: 0.938209
Ran for 2050 frames Cell Events: 15 mean_circ: 0.940881
Ran for 2550 frames Cell Events: 24 mean_circ: 0.928639
Ran for 3050 frames Cell Events: 33 mean_circ: 0.929052
Ran for 3550 frames Cell Events: 47 mean_circ: 0.931211
Ran for 4550 frames Cell Events: 63 mean_circ: 0.926651
Ran for 5050 frames Cell Events: 69 mean_circ: 0.923842
Ran for 6050 frames Cell Events: 73 mean_circ: 0.925035
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Ran for 378550 frames Cell Events: 6626 mean_circ: 0.928551
Ran for 379550 frames Cell Events: 6639 mean_circ: 0.928566
Ran for 380050 frames Cell Events: 6645 mean_circ: 0.928572
Ran for 380550 frames Cell Events: 6654 mean_circ: 0.928596
Ran for 381050 frames Cell Events: 6659 mean_circ: 0.928585
Ran for 381550 frames Cell Events: 6667 mean_circ: 0.928606
Ran for 383550 frames Cell Events: 6695 mean_circ: 0.928598
Ran for 384050 frames Cell Events: 6705 mean_circ: 0.928625
Ran for 384550 frames Cell Events: 6715 mean_circ: 0.928619
Ran for 385050 frames Cell Events: 6730 mean_circ: 0.928634
Ran for 385550 frames Cell Events: 6736 mean_circ: 0.928649
Ran for 386050 frames Cell Events: 6747 mean_circ: 0.928636
Ran for 387050 frames Cell Events: 6764 mean_circ: 0.928638
Ran for 387550 frames Cell Events: 6774 mean_circ: 0.92862
Ran for 388050 frames Cell Events: 6783 mean_circ: 0.92862
Ran for 388550 frames Cell Events: 6790 mean_circ: 0.928604
Ran for 389050 frames Cell Events: 6795 mean_circ: 0.928604
Ran for 389550 frames Cell Events: 6804 mean_circ: 0.92863
Ran for 390050 frames Cell Events: 6813 mean_circ: 0.92863
Ran for 390550 frames Cell Events: 6819 mean_circ: 0.928638
Ran for 391550 frames Cell Events: 6832 mean_circ: 0.92863
Ran for 392050 frames Cell Events: 6836 mean_circ: 0.928631
Ran for 392550 frames Cell Events: 6840 mean_circ: 0.928646
Ran for 393050 frames Cell Events: 6844 mean_circ: 0.928651
Ran for 393550 frames Cell Events: 6851 mean_circ: 0.928649
Ran for 394050 frames Cell Events: 6858 mean_circ: 0.928652
Ran for 394550 frames Cell Events: 6867 mean_circ: 0.928673
Ran for 395550 frames Cell Events: 6883 mean_circ: 0.928683
Ran for 396050 frames Cell Events: 6888 mean_circ: 0.928661
Ran for 396550 frames Cell Events: 6901 mean_circ: 0.928651
Ran for 397050 frames Cell Events: 6911 mean_circ: 0.92866
Ran for 397550 frames Cell Events: 6920 mean_circ: 0.928659
Ran for 398050 frames Cell Events: 6929 mean_circ: 0.928656
Ran for 399050 frames Cell Events: 6946 mean_circ: 0.92866
Ran for 399550 frames Cell Events: 6960 mean_circ: 0.928698
Ran for 400050 frames Cell Events: 6972 mean_circ: 0.928699
Ran for 400550 frames Cell Events: 6985 mean_circ: 0.928668
Ran for 401050 frames Cell Events: 6995 mean_circ: 0.928645
Ran for 401550 frames Cell Events: 7005 mean_circ: 0.928663
Ran for 402050 frames Cell Events: 7021 mean_circ: 0.928724
Ran for 402550 frames Cell Events: 7031 mean_circ: 0.928736
Ran for 403550 frames Cell Events: 7046 mean_circ: 0.92875
Ran for 404050 frames Cell Events: 7054 mean_circ: 0.928744
Ran for 404550 frames Cell Events: 7058 mean_circ: 0.928734
Ran for 405050 frames Cell Events: 7065 mean_circ: 0.928723
Ran for 405550 frames Cell Events: 7071 mean_circ: 0.928735
Ran for 406050 frames Cell Events: 7079 mean_circ: 0.928731
Ran for 407050 frames Cell Events: 7105 mean_circ: 0.928732
Ran for 409050 frames Cell Events: 7146 mean_circ: 0.928702
Ran for 409550 frames Cell Events: 7152 mean_circ: 0.928699
Ran for 410050 frames Cell Events: 7159 mean_circ: 0.928672
Ran for 410550 frames Cell Events: 7170 mean_circ: 0.928639
Ran for 411050 frames Cell Events: 7180 mean_circ: 0.928659
Ran for 411550 frames Cell Events: 7186 mean_circ: 0.928671
Ran for 412050 frames Cell Events: 7196 mean_circ: 0.928669
Ran for 412550 frames Cell Events: 7205 mean_circ: 0.928643
Ran for 413050 frames Cell Events: 7216 mean_circ: 0.928656
Ran for 413550 frames Cell Events: 7227 mean_circ: 0.928671
Ran for 414050 frames Cell Events: 7243 mean_circ: 0.928683
Ran for 415050 frames Cell Events: 7265 mean_circ: 0.928654
Ran for 415550 frames Cell Events: 7277 mean_circ: 0.92865
Ran for 416050 frames Cell Events: 7288 mean_circ: 0.928632
Ran for 416550 frames Cell Events: 7296 mean_circ: 0.928659
Ran for 417550 frames Cell Events: 7310 mean_circ: 0.92864
Ran for 418050 frames Cell Events: 7318 mean_circ: 0.928649
Ran for 419050 frames Cell Events: 7337 mean_circ: 0.928637
Ran for 419550 frames Cell Events: 7352 mean_circ: 0.928627
Ran for 420050 frames Cell Events: 7360 mean_circ: 0.928617
Ran for 420550 frames Cell Events: 7369 mean_circ: 0.92863
Ran for 422050 frames Cell Events: 7387 mean_circ: 0.928615
Ran for 422550 frames Cell Events: 7394 mean_circ: 0.928629
Ran for 423550 frames Cell Events: 7417 mean_circ: 0.928613
Ran for 424050 frames Cell Events: 7431 mean_circ: 0.92862
Ran for 425550 frames Cell Events: 7460 mean_circ: 0.928619
Ran for 426050 frames Cell Events: 7469 mean_circ: 0.928596
Ran for 426550 frames Cell Events: 7484 mean_circ: 0.928584
Ran for 427050 frames Cell Events: 7490 mean_circ: 0.928587
Ran for 427550 frames Cell Events: 7502 mean_circ: 0.928575
Ran for 428050 frames Cell Events: 7512 mean_circ: 0.928532
Ran for 428550 frames Cell Events: 7523 mean_circ: 0.928553
Ran for 429050 frames Cell Events: 7531 mean_circ: 0.928566
Ran for 430050 frames Cell Events: 7554 mean_circ: 0.928549
Ran for 430550 frames Cell Events: 7559 mean_circ: 0.928518
Ran for 431050 frames Cell Events: 7569 mean_circ: 0.92855
Ran for 431550 frames Cell Events: 7573 mean_circ: 0.928553
Ran for 432050 frames Cell Events: 7586 mean_circ: 0.928567
Ran for 433050 frames Cell Events: 7602 mean_circ: 0.928595
Ran for 434550 frames Cell Events: 7618 mean_circ: 0.928626
Ran for 435050 frames Cell Events: 7628 mean_circ: 0.928605
Ran for 435550 frames Cell Events: 7636 mean_circ: 0.928554
Ran for 436050 frames Cell Events: 7646 mean_circ: 0.928568
Ran for 436550 frames Cell Events: 7664 mean_circ: 0.928559
Ran for 437050 frames Cell Events: 7673 mean_circ: 0.928559
Ran for 437550 frames Cell Events: 7687 mean_circ: 0.928576
Ran for 438050 frames Cell Events: 7693 mean_circ: 0.928586
Ran for 438550 frames Cell Events: 7701 mean_circ: 0.928598
Ran for 439050 frames Cell Events: 7713 mean_circ: 0.928586
Ran for 439550 frames Cell Events: 7720 mean_circ: 0.928599
Ran for 441050 frames Cell Events: 7748 mean_circ: 0.928571
Ran for 442550 frames Cell Events: 7771 mean_circ: 0.928602
Ran for 443550 frames Cell Events: 7786 mean_circ: 0.928622
Ran for 444050 frames Cell Events: 7792 mean_circ: 0.928624
Ran for 445550 frames Cell Events: 7822 mean_circ: 0.928601
Ran for 446050 frames Cell Events: 7829 mean_circ: 0.928599
Ran for 446550 frames Cell Events: 7836 mean_circ: 0.928611
Ran for 447050 frames Cell Events: 7843 mean_circ: 0.928608
Ran for 447550 frames Cell Events: 7860 mean_circ: 0.928573
Ran for 448050 frames Cell Events: 7876 mean_circ: 0.92854
Ran for 448550 frames Cell Events: 7890 mean_circ: 0.928551
Ran for 449050 frames Cell Events: 7902 mean_circ: 0.92857
Ran for 449550 frames Cell Events: 7910 mean_circ: 0.928571
Ran for 450050 frames Cell Events: 7914 mean_circ: 0.928573
Ran for 451050 frames Cell Events: 7935 mean_circ: 0.928599
Ran for 451550 frames Cell Events: 7938 mean_circ: 0.928608
Ran for 452050 frames Cell Events: 7949 mean_circ: 0.928597
End this measurment..
Stopping time: 4.01387e+008
****************************************
Measurement finished
Mean Circularitiy: 0.92854
Mean Area: 646.74
Mean FL-1 intensity: 2892.04
Mean FL-2 intensity: 4185.79
Mean FL-3 intensity: 0
frames processed: 451833
Total Time: 226522ms
Number of Runs (new bg img) 0
Frames collected: 452927
Skipped frames: 6066
Rescued Frames: 1170414
Samples DAQ: 113231827
Samples written: 226463532
Samples per Channel: 113231766
FPS: 1999.48
Samples per second: 499870
Expected samples/s: 500000
Events: 7965
Events per second: 35.1621
jumped back (PMT): 11
#Frames read, frequency
# 0 frames :592579
# 1 frames :287598
# 2 frames :7494
# 3 frames :3280
# 4 frames :1507
# 5 frames :1180
# 6 frames :1282
# 7 frames :2408
# 8 frames :1225
# 9 frames :1171
# 10 frames :1408
# 11 frames :1085
# 12 frames :833
# 13 frames :515
# 14 frames :353
# 15 frames :336
# 16 frames :406
# 17 frames :359
# 18 frames :222
# 19 frames :127
# 20 frames :86
# 21 frames :100
# 22 frames :104
# 23 frames :50
# 24 frames :26
# 25 frames :24
# 26 frames :17
# 27 frames :13
# 28 frames :7
# 29 frames :8
# 30 frames :8
# 31 frames :2
# 32 frames :4
# 33 frames :5
# 34 frames :2
# 35 frames :4
# 36 frames :1
# 37 frames :3
# 39 frames :1
# 40 frames :3
# 42 frames :2
M1_para.ini
[General]Measurement Number = 1
Flow Rate [ul/s] = 0.06
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] = 24.9521
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 200
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
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Additional Information
Field | Value |
---|---|
license | Creative Commons Public Domain Dedication |
created | 3 months ago |
etag | bd6b916867a4bbc52eb1a5800e23f8a6 |
format | RT-FDC |
id | 58eace81-e5ad-422b-9d93-8096f431b3fe |
metadata modified | 3 months ago |
mimetype | RT-DC |
package id | e1ad91df-c577-4fc7-81d8-0dabe6722d4c |
position | 0 |
s3 available | True |
s3 url | https://objectstore.hpccloud.mpcdf.mpg.de/circle-8a23b5b7-6d86-46b7-9833-62373e9ec110/resource/58e/ace/81-e5ad-422b-9d93-8096f431b3fe |
sha256 | 6d3e680da4220a76f7e134897f16eef860d98166171a09bda490b67308bbf655 |
size | 137.4 MiB |
dc:experiment:date | 2017-06-18 |
dc:experiment:event count | 7,964 |
dc:experiment:run identifier | None-1111 |
dc:experiment:run index | 1 |
dc:experiment:sample | 20170618_1836_dsRNA_S8_faster |
dc:experiment:time | 18:36:57 |
dc:fluorescence:bit depth | 16 |
dc:fluorescence:channel 1 name | FL1 |
dc:fluorescence:channel 2 name | FL2 |
dc:fluorescence:channel count | 2 |
dc:fluorescence:channels installed | 3 |
dc:fluorescence:laser 1 lambda | 488 |
dc:fluorescence:laser 1 power | 10 |
dc:fluorescence:laser 2 lambda | 561 |
dc:fluorescence:laser 2 power | 35 |
dc:fluorescence:laser 3 lambda | 640 |
dc:fluorescence:laser 3 power | 0 |
dc:fluorescence:laser count | 2 |
dc:fluorescence:lasers installed | 3 |
dc:fluorescence:sample rate | 500,000 |
dc:fluorescence:samples per event | 200 |
dc:fluorescence:signal max | 1 |
dc:fluorescence:signal min | -1 |
dc:fluorescence:trace median | 5 |
dc:imaging:flash device | LED (undefined) |
dc:imaging:flash duration | 2 |
dc:imaging:frame rate | 2,000 |
dc:imaging:pixel size | 0.34 |
dc:imaging:roi position x | 504 |
dc:imaging:roi position y | 472 |
dc:imaging:roi size x | 256 |
dc:imaging:roi size y | 96 |
dc:online contour:bin area min | 50 |
dc:online contour:bin kernel | 5 |
dc:online contour:bin threshold | 6 |
dc:online contour:image blur | 0 |
dc:online contour:no absdiff | True |
dc:setup:channel width | 20 |
dc:setup:chip region | channel |
dc:setup:flow rate | 0.06 |
dc:setup:module composition | Cell_Flow_2, Fluor |
dc:setup:software version | fRT-DC V1.06170206 | dclab 0.60.3 |
sp:cells:cell type | KC167 |
sp:cells:live | True |
sp:cells:organism | Drosophila melanogaster |
sp:chip:channel width | 20 |
sp:experiment:buffer osmolality | 325 |
sp:experiment:buffer ph | 6.8 |
sp:experiment:concentration | 5 |
sp:identifiers:labels | GFP tdTomato |
sp:identifiers:tags | NLS-GFP |