20170523_2009_phos1_I1.rtdc
Click on the log titles below to expand the log entries present in this DC resource.
dclab-export_2024-07-09_20.13.08
{"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": "587225e80d90f53a801cfcb7253b1536",
"name": "M1_20170523_2009_dsRNA_I1_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": "2024-07-09",
"time": "18:13:32"
}
}
dclab-tdms2rtdc-warnings
LimitingExportSizeWarningin dclab.rtdc_dataset.export line 305:
Not all features have the same length! Limiting output event count to 9811 (max 9812) in '9811'.
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] = 25.128
Start pulse train for BG Aquisition..
Now refreshing the background image stored in the framegrabber
STATE: 3
Starting time: 7.33626e+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: 4 mean_circ: 0.919163
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Ran for 603550 frames Cell Events: 9145 mean_circ: 0.944583
Ran for 604050 frames Cell Events: 9157 mean_circ: 0.944603
Ran for 604550 frames Cell Events: 9168 mean_circ: 0.944578
Ran for 605050 frames Cell Events: 9171 mean_circ: 0.944581
Ran for 605550 frames Cell Events: 9175 mean_circ: 0.94458
Ran for 606050 frames Cell Events: 9182 mean_circ: 0.944564
Ran for 606550 frames Cell Events: 9187 mean_circ: 0.944563
Ran for 607550 frames Cell Events: 9199 mean_circ: 0.944553
Ran for 608550 frames Cell Events: 9209 mean_circ: 0.944564
Ran for 609050 frames Cell Events: 9212 mean_circ: 0.944564
Ran for 610050 frames Cell Events: 9225 mean_circ: 0.944513
Ran for 610550 frames Cell Events: 9233 mean_circ: 0.944512
Ran for 611050 frames Cell Events: 9237 mean_circ: 0.944473
Ran for 611550 frames Cell Events: 9242 mean_circ: 0.944451
Ran for 612050 frames Cell Events: 9252 mean_circ: 0.944414
Ran for 612550 frames Cell Events: 9257 mean_circ: 0.944418
Ran for 613050 frames Cell Events: 9266 mean_circ: 0.94443
Ran for 614550 frames Cell Events: 9297 mean_circ: 0.94443
Ran for 615050 frames Cell Events: 9302 mean_circ: 0.94444
Ran for 615550 frames Cell Events: 9308 mean_circ: 0.944448
Ran for 616050 frames Cell Events: 9310 mean_circ: 0.944448
Ran for 616550 frames Cell Events: 9313 mean_circ: 0.944451
Ran for 617050 frames Cell Events: 9317 mean_circ: 0.944446
Ran for 617550 frames Cell Events: 9320 mean_circ: 0.944449
Ran for 618050 frames Cell Events: 9324 mean_circ: 0.944437
Ran for 619050 frames Cell Events: 9341 mean_circ: 0.944433
Ran for 619550 frames Cell Events: 9343 mean_circ: 0.944437
Ran for 620050 frames Cell Events: 9357 mean_circ: 0.944447
Ran for 620550 frames Cell Events: 9362 mean_circ: 0.944454
Ran for 621050 frames Cell Events: 9367 mean_circ: 0.944457
Ran for 621550 frames Cell Events: 9371 mean_circ: 0.944452
Ran for 622050 frames Cell Events: 9377 mean_circ: 0.944454
Ran for 622550 frames Cell Events: 9388 mean_circ: 0.94442
Ran for 623050 frames Cell Events: 9393 mean_circ: 0.944418
Ran for 623550 frames Cell Events: 9398 mean_circ: 0.944436
Ran for 624050 frames Cell Events: 9406 mean_circ: 0.944422
Ran for 624550 frames Cell Events: 9410 mean_circ: 0.944417
Ran for 625050 frames Cell Events: 9415 mean_circ: 0.944417
Ran for 625550 frames Cell Events: 9417 mean_circ: 0.944417
Ran for 626050 frames Cell Events: 9422 mean_circ: 0.944425
Ran for 626550 frames Cell Events: 9429 mean_circ: 0.944423
Ran for 627050 frames Cell Events: 9434 mean_circ: 0.944428
Ran for 627550 frames Cell Events: 9442 mean_circ: 0.944436
Ran for 628050 frames Cell Events: 9450 mean_circ: 0.944432
Ran for 628550 frames Cell Events: 9456 mean_circ: 0.944431
Ran for 629050 frames Cell Events: 9462 mean_circ: 0.944446
Ran for 629550 frames Cell Events: 9466 mean_circ: 0.944455
Ran for 630050 frames Cell Events: 9474 mean_circ: 0.944466
Ran for 630550 frames Cell Events: 9481 mean_circ: 0.94445
Ran for 631050 frames Cell Events: 9490 mean_circ: 0.944445
Ran for 631550 frames Cell Events: 9493 mean_circ: 0.944441
Ran for 632050 frames Cell Events: 9495 mean_circ: 0.944446
Ran for 632550 frames Cell Events: 9503 mean_circ: 0.944457
Ran for 633050 frames Cell Events: 9517 mean_circ: 0.944468
Ran for 633550 frames Cell Events: 9523 mean_circ: 0.944468
Ran for 634050 frames Cell Events: 9528 mean_circ: 0.944466
Ran for 634550 frames Cell Events: 9537 mean_circ: 0.944484
Ran for 635550 frames Cell Events: 9554 mean_circ: 0.944492
Ran for 636050 frames Cell Events: 9565 mean_circ: 0.944517
Ran for 637050 frames Cell Events: 9577 mean_circ: 0.944536
Ran for 637550 frames Cell Events: 9585 mean_circ: 0.944534
Ran for 638050 frames Cell Events: 9597 mean_circ: 0.944543
Ran for 638550 frames Cell Events: 9603 mean_circ: 0.944549
Ran for 639050 frames Cell Events: 9610 mean_circ: 0.944525
Ran for 639550 frames Cell Events: 9620 mean_circ: 0.944536
Ran for 640050 frames Cell Events: 9624 mean_circ: 0.944531
Ran for 640550 frames Cell Events: 9632 mean_circ: 0.944523
Ran for 641050 frames Cell Events: 9634 mean_circ: 0.944526
Ran for 641550 frames Cell Events: 9642 mean_circ: 0.94451
Ran for 642050 frames Cell Events: 9653 mean_circ: 0.94451
Ran for 642550 frames Cell Events: 9660 mean_circ: 0.944505
Ran for 643050 frames Cell Events: 9666 mean_circ: 0.944516
Ran for 644050 frames Cell Events: 9679 mean_circ: 0.944529
Ran for 644550 frames Cell Events: 9685 mean_circ: 0.944533
Ran for 645050 frames Cell Events: 9692 mean_circ: 0.944527
Ran for 645550 frames Cell Events: 9711 mean_circ: 0.944515
Ran for 646050 frames Cell Events: 9715 mean_circ: 0.944507
Ran for 646550 frames Cell Events: 9728 mean_circ: 0.944511
Ran for 647050 frames Cell Events: 9734 mean_circ: 0.944506
Ran for 647550 frames Cell Events: 9744 mean_circ: 0.944517
Ran for 648050 frames Cell Events: 9751 mean_circ: 0.94451
Ran for 648550 frames Cell Events: 9759 mean_circ: 0.944522
Ran for 649050 frames Cell Events: 9762 mean_circ: 0.944498
Ran for 649550 frames Cell Events: 9765 mean_circ: 0.944505
Ran for 651050 frames Cell Events: 9786 mean_circ: 0.944489
Ran for 651550 frames Cell Events: 9792 mean_circ: 0.944465
Ran for 652550 frames Cell Events: 9812 mean_circ: 0.944447
End this measurment..
Stopping time: 7.33953e+008
****************************************
Measurement finished
Mean Circularitiy: 0.944447
Mean Area: 623.847
Mean FL-1 intensity: 4042.48
Mean FL-2 intensity: 4917.1
Mean FL-3 intensity: 0
frames processed: 651075
Total Time: 326411ms
Number of Runs (new bg img) 0
Frames collected: 652634
Skipped frames: 155490
Rescued Frames: 5352607
Samples DAQ: 163158598
Samples written: 326317056
Samples per Channel: 163158528
FPS: 1999.42
Samples per second: 499856
Expected samples/s: 500000
Events: 9812
Events per second: 30.0602
jumped back (PMT): 7271
#Frames read, frequency
# 0 frames :852215
# 1 frames :419107
# 2 frames :7942
# 3 frames :4835
# 4 frames :3214
# 5 frames :1753
# 6 frames :1186
# 7 frames :1922
# 8 frames :1976
# 9 frames :1497
# 10 frames :1566
# 11 frames :1627
# 12 frames :1974
# 13 frames :1214
# 14 frames :807
# 15 frames :543
# 16 frames :358
# 17 frames :238
# 18 frames :244
# 19 frames :203
# 20 frames :166
# 21 frames :146
# 22 frames :93
# 23 frames :90
# 24 frames :53
# 25 frames :46
# 26 frames :33
# 27 frames :20
# 28 frames :26
# 29 frames :19
# 30 frames :23
# 31 frames :16
# 32 frames :13
# 33 frames :15
# 34 frames :7
# 35 frames :7
# 36 frames :4
# 37 frames :2
# 38 frames :4
# 39 frames :4
# 40 frames :4
# 41 frames :2
# 42 frames :3
# 43 frames :2
# 44 frames :5
# 45 frames :3
# 49 frames :2
# 52 frames :1
# 53 frames :1
# 54 frames :1
# 55 frames :1
# 56 frames :1
# 58 frames :1
# 60 frames :1
# 63 frames :1
# 64 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 = 5
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] = 25.128
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 5
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
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Additional Information
Field | Value |
---|---|
license | Creative Commons Public Domain Dedication |
created | 2 months ago |
etag | 688aa5a6c9b99f9ccae2c727418760bc |
format | RT-FDC |
id | 28c1e345-988f-451e-a4e1-1b2c1f161e11 |
metadata modified | 1 month ago |
mimetype | RT-DC |
package id | 3694987e-c763-4560-b178-0278285984a3 |
position | 1 |
s3 available | True |
s3 url | https://objectstore.hpccloud.mpcdf.mpg.de/circle-5d2846fc-f12d-45de-96d1-e1eea06e16c7/resource/28c/1e3/45-988f-451e-a4e1-1b2c1f161e11 |
sha256 | 6447e55edc08960f29bec1c8751507323f3abf90f07f3a171e0f854720659d44 |
size | 173 MiB |
dc:experiment:date | 2017-05-23 |
dc:experiment:event count | 9,810 |
dc:experiment:run identifier | None-a62f |
dc:experiment:run index | 1 |
dc:experiment:sample | 20170523_2009_dsRNA_I1_col |
dc:experiment:time | 20:09:54 |
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 | 300 |
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 | 0.04 |
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 |