20170530_1621_phos1_K3.rtdc
Click on the log titles below to expand the log entries present in this DC resource.
dclab-export_2024-07-10_11.40.49
{"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": "c98d88f7c1d430328663c27ac6120b12",
"name": "M1_20170530_1620_dsRNA_K3_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": "09:41:11"
}
}
dclab-tdms2rtdc-warnings
LimitingExportSizeWarningin dclab.rtdc_dataset.export line 305:
Not all features have the same length! Limiting output event count to 8643 (max 8644) in '8643'.
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] = 24.9127
Start pulse train for BG Aquisition..
Now refreshing the background image stored in the framegrabber
STATE: 3
Starting time: 1.32468e+009
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: 12 mean_circ: 0.906898
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Ran for 370050 frames Cell Events: 7244 mean_circ: 0.910755
Ran for 370550 frames Cell Events: 7250 mean_circ: 0.910768
Ran for 371050 frames Cell Events: 7260 mean_circ: 0.910756
Ran for 371550 frames Cell Events: 7263 mean_circ: 0.910782
Ran for 372050 frames Cell Events: 7285 mean_circ: 0.910743
Ran for 372550 frames Cell Events: 7295 mean_circ: 0.910708
Ran for 373050 frames Cell Events: 7308 mean_circ: 0.910687
Ran for 373550 frames Cell Events: 7318 mean_circ: 0.910662
Ran for 374050 frames Cell Events: 7327 mean_circ: 0.910659
Ran for 374550 frames Cell Events: 7336 mean_circ: 0.910599
Ran for 375550 frames Cell Events: 7365 mean_circ: 0.910605
Ran for 376050 frames Cell Events: 7371 mean_circ: 0.910542
Ran for 376550 frames Cell Events: 7381 mean_circ: 0.910535
Ran for 377050 frames Cell Events: 7390 mean_circ: 0.910503
Ran for 377550 frames Cell Events: 7403 mean_circ: 0.910562
Ran for 378050 frames Cell Events: 7411 mean_circ: 0.910555
Ran for 378550 frames Cell Events: 7424 mean_circ: 0.910515
Ran for 379050 frames Cell Events: 7435 mean_circ: 0.910516
Ran for 379550 frames Cell Events: 7449 mean_circ: 0.910536
Ran for 380050 frames Cell Events: 7470 mean_circ: 0.910469
Ran for 380550 frames Cell Events: 7479 mean_circ: 0.910527
Ran for 381050 frames Cell Events: 7500 mean_circ: 0.91053
Ran for 382050 frames Cell Events: 7537 mean_circ: 0.910697
Ran for 382550 frames Cell Events: 7558 mean_circ: 0.91073
Ran for 383050 frames Cell Events: 7575 mean_circ: 0.910702
Ran for 383550 frames Cell Events: 7589 mean_circ: 0.910739
Ran for 384050 frames Cell Events: 7600 mean_circ: 0.910783
Ran for 384550 frames Cell Events: 7609 mean_circ: 0.910776
Ran for 385550 frames Cell Events: 7641 mean_circ: 0.91082
Ran for 386550 frames Cell Events: 7703 mean_circ: 0.910839
Ran for 387050 frames Cell Events: 7713 mean_circ: 0.910761
Ran for 387550 frames Cell Events: 7725 mean_circ: 0.910774
Ran for 388050 frames Cell Events: 7729 mean_circ: 0.910765
Ran for 388550 frames Cell Events: 7739 mean_circ: 0.91078
Ran for 389050 frames Cell Events: 7759 mean_circ: 0.91075
Ran for 389550 frames Cell Events: 7765 mean_circ: 0.910748
Ran for 390050 frames Cell Events: 7775 mean_circ: 0.910745
Ran for 390550 frames Cell Events: 7786 mean_circ: 0.910735
Ran for 391050 frames Cell Events: 7803 mean_circ: 0.910693
Ran for 391550 frames Cell Events: 7817 mean_circ: 0.910649
Ran for 392050 frames Cell Events: 7825 mean_circ: 0.910664
Ran for 392550 frames Cell Events: 7838 mean_circ: 0.910645
Ran for 393050 frames Cell Events: 7845 mean_circ: 0.910588
Ran for 393550 frames Cell Events: 7856 mean_circ: 0.910538
Ran for 394050 frames Cell Events: 7864 mean_circ: 0.910544
Ran for 394550 frames Cell Events: 7872 mean_circ: 0.91054
Ran for 395050 frames Cell Events: 7878 mean_circ: 0.910547
Ran for 395550 frames Cell Events: 7885 mean_circ: 0.910542
Ran for 396050 frames Cell Events: 7888 mean_circ: 0.910537
Ran for 396550 frames Cell Events: 7891 mean_circ: 0.910531
Ran for 397050 frames Cell Events: 7900 mean_circ: 0.910479
Ran for 397550 frames Cell Events: 7907 mean_circ: 0.910465
Ran for 398050 frames Cell Events: 7916 mean_circ: 0.91046
Ran for 398550 frames Cell Events: 7924 mean_circ: 0.910483
Ran for 399050 frames Cell Events: 7935 mean_circ: 0.910482
Ran for 399550 frames Cell Events: 7944 mean_circ: 0.910495
Ran for 400050 frames Cell Events: 7960 mean_circ: 0.91052
Ran for 401050 frames Cell Events: 7980 mean_circ: 0.910476
Ran for 401550 frames Cell Events: 7988 mean_circ: 0.910483
Ran for 402050 frames Cell Events: 7992 mean_circ: 0.910495
Ran for 402550 frames Cell Events: 7995 mean_circ: 0.910491
Ran for 403050 frames Cell Events: 8003 mean_circ: 0.910476
Ran for 403550 frames Cell Events: 8017 mean_circ: 0.910513
Ran for 404050 frames Cell Events: 8021 mean_circ: 0.910482
Ran for 404550 frames Cell Events: 8035 mean_circ: 0.910449
Ran for 405050 frames Cell Events: 8047 mean_circ: 0.910493
Ran for 405550 frames Cell Events: 8056 mean_circ: 0.910478
Ran for 406050 frames Cell Events: 8066 mean_circ: 0.910536
Ran for 406550 frames Cell Events: 8073 mean_circ: 0.91052
Ran for 407050 frames Cell Events: 8084 mean_circ: 0.910527
Ran for 407550 frames Cell Events: 8093 mean_circ: 0.910521
Ran for 408050 frames Cell Events: 8106 mean_circ: 0.910525
Ran for 408550 frames Cell Events: 8125 mean_circ: 0.910571
Ran for 409550 frames Cell Events: 8151 mean_circ: 0.910597
Ran for 410050 frames Cell Events: 8154 mean_circ: 0.910589
Ran for 410550 frames Cell Events: 8159 mean_circ: 0.910608
Ran for 411050 frames Cell Events: 8167 mean_circ: 0.910597
Ran for 411550 frames Cell Events: 8176 mean_circ: 0.910607
Ran for 412050 frames Cell Events: 8185 mean_circ: 0.910633
Ran for 414050 frames Cell Events: 8217 mean_circ: 0.910604
Ran for 414550 frames Cell Events: 8229 mean_circ: 0.91062
Ran for 415050 frames Cell Events: 8235 mean_circ: 0.910589
Ran for 415550 frames Cell Events: 8243 mean_circ: 0.910534
Ran for 416050 frames Cell Events: 8251 mean_circ: 0.910545
Ran for 416550 frames Cell Events: 8266 mean_circ: 0.910527
Ran for 417050 frames Cell Events: 8280 mean_circ: 0.910566
Ran for 417550 frames Cell Events: 8286 mean_circ: 0.910536
Ran for 418050 frames Cell Events: 8290 mean_circ: 0.910566
Ran for 418550 frames Cell Events: 8298 mean_circ: 0.910523
Ran for 419050 frames Cell Events: 8308 mean_circ: 0.910489
Ran for 419550 frames Cell Events: 8318 mean_circ: 0.910474
Ran for 420050 frames Cell Events: 8337 mean_circ: 0.910405
Ran for 420550 frames Cell Events: 8353 mean_circ: 0.910379
Ran for 421050 frames Cell Events: 8361 mean_circ: 0.910361
Ran for 421550 frames Cell Events: 8367 mean_circ: 0.910355
Ran for 422550 frames Cell Events: 8385 mean_circ: 0.910356
Ran for 423050 frames Cell Events: 8390 mean_circ: 0.910351
Ran for 423550 frames Cell Events: 8403 mean_circ: 0.910334
Ran for 424050 frames Cell Events: 8412 mean_circ: 0.910334
Ran for 424550 frames Cell Events: 8420 mean_circ: 0.910353
Ran for 425050 frames Cell Events: 8427 mean_circ: 0.910363
Ran for 425550 frames Cell Events: 8432 mean_circ: 0.910349
Ran for 426050 frames Cell Events: 8444 mean_circ: 0.910335
Ran for 426550 frames Cell Events: 8452 mean_circ: 0.910319
Ran for 427050 frames Cell Events: 8462 mean_circ: 0.910308
Ran for 427550 frames Cell Events: 8468 mean_circ: 0.910295
Ran for 428050 frames Cell Events: 8476 mean_circ: 0.910318
Ran for 428550 frames Cell Events: 8485 mean_circ: 0.910316
Ran for 429050 frames Cell Events: 8491 mean_circ: 0.910336
Ran for 429550 frames Cell Events: 8497 mean_circ: 0.910356
Ran for 430050 frames Cell Events: 8502 mean_circ: 0.910376
Ran for 430550 frames Cell Events: 8506 mean_circ: 0.910386
Ran for 431050 frames Cell Events: 8513 mean_circ: 0.910392
Ran for 431550 frames Cell Events: 8522 mean_circ: 0.910392
Ran for 432050 frames Cell Events: 8532 mean_circ: 0.910331
Ran for 432550 frames Cell Events: 8547 mean_circ: 0.910316
Ran for 433050 frames Cell Events: 8553 mean_circ: 0.910305
Ran for 433550 frames Cell Events: 8560 mean_circ: 0.910309
Ran for 434550 frames Cell Events: 8573 mean_circ: 0.910317
Ran for 435050 frames Cell Events: 8579 mean_circ: 0.91032
Ran for 435550 frames Cell Events: 8587 mean_circ: 0.910341
Ran for 436050 frames Cell Events: 8588 mean_circ: 0.910321
Ran for 436550 frames Cell Events: 8596 mean_circ: 0.910327
Ran for 437050 frames Cell Events: 8609 mean_circ: 0.910329
Ran for 438050 frames Cell Events: 8633 mean_circ: 0.910335
End this measurment..
Stopping time: 1.3249e+009
****************************************
Measurement finished
Mean Circularitiy: 0.910315
Mean Area: 594.306
Mean FL-1 intensity: 2490.91
Mean FL-2 intensity: 3460.96
Mean FL-3 intensity: 0
frames processed: 436146
Total Time: 219270ms
Number of Runs (new bg img) 0
Frames collected: 438358
Skipped frames: 48913
Rescued Frames: 2419636
Samples DAQ: 109589614
Samples written: 219179032
Samples per Channel: 109589516
FPS: 1999.17
Samples per second: 499792
Expected samples/s: 500000
Events: 8644
Events per second: 39.4216
jumped back (PMT): 7519
#Frames read, frequency
# 0 frames :547702
# 1 frames :305442
# 2 frames :7779
# 3 frames :2478
# 4 frames :1118
# 5 frames :329
# 6 frames :2930
# 7 frames :3170
# 8 frames :1907
# 9 frames :911
# 10 frames :606
# 11 frames :454
# 12 frames :623
# 13 frames :301
# 14 frames :257
# 15 frames :180
# 16 frames :121
# 17 frames :93
# 18 frames :54
# 19 frames :46
# 20 frames :42
# 21 frames :28
# 22 frames :10
# 23 frames :24
# 24 frames :13
# 25 frames :8
# 26 frames :12
# 27 frames :6
# 28 frames :5
# 29 frames :3
# 30 frames :5
# 31 frames :1
# 32 frames :1
# 33 frames :3
# 35 frames :2
# 36 frames :1
# 38 frames :1
# 39 frames :2
# 40 frames :1
# 41 frames :1
# 45 frames :1
# 47 frames :1
# 48 frames :1
# 49 frames :2
# 52 frames :1
# 65 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] = 24.9127
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 | 89b8e989d3cf81897831ac5b2421646c |
format | RT-FDC |
id | 3ee66087-86de-49f0-b18d-c8fffdad2a05 |
metadata modified | 2 months ago |
mimetype | RT-DC |
package id | ed58ebaf-533b-4f38-af78-af4b0cb05acc |
position | 1 |
s3 available | True |
s3 url | https://objectstore.hpccloud.mpcdf.mpg.de/circle-5d2846fc-f12d-45de-96d1-e1eea06e16c7/resource/3ee/660/87-86de-49f0-b18d-c8fffdad2a05 |
sha256 | 25947248eba3fd50761d0b20fbca2209f2a6226853283f577ba3bc52edef3111 |
size | 152.7 MiB |
dc:experiment:date | 2017-05-30 |
dc:experiment:event count | 8,642 |
dc:experiment:run identifier | None-6e4d |
dc:experiment:run index | 1 |
dc:experiment:sample | 20170530_1620_dsRNA_K3_col |
dc:experiment:time | 16:21:02 |
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 |