M1_20170521_1731_dsRNA_B6_faster.rtdc
Click on the log titles below to expand the log entries present in this DC resource.
dclab-export_2024-07-09_19.03.42
{"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": "db12f03bd78c341f679605d43a1daa3e",
"name": "M1_20170521_1731_dsRNA_B6_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": "2024-07-09",
"time": "17:04:03"
}
}
dclab-tdms2rtdc-warnings
LimitingExportSizeWarningin dclab.rtdc_dataset.export line 305:
Not all features have the same length! Limiting output event count to 8097 (max 8098) in '8097'.
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] = 25.1038
Start pulse train for BG Aquisition..
Now refreshing the background image stored in the framegrabber
STATE: 3
Starting time: 5.51345e+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: 6 mean_circ: 0.903991
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Ran for 380550 frames Cell Events: 7108 mean_circ: 0.918427
Ran for 381050 frames Cell Events: 7116 mean_circ: 0.918409
Ran for 381550 frames Cell Events: 7125 mean_circ: 0.918415
Ran for 382050 frames Cell Events: 7132 mean_circ: 0.918432
Ran for 382550 frames Cell Events: 7140 mean_circ: 0.918426
Ran for 383050 frames Cell Events: 7149 mean_circ: 0.918427
Ran for 383550 frames Cell Events: 7158 mean_circ: 0.918447
Ran for 384050 frames Cell Events: 7166 mean_circ: 0.918444
Ran for 384550 frames Cell Events: 7174 mean_circ: 0.918464
Ran for 385550 frames Cell Events: 7194 mean_circ: 0.918458
Ran for 386050 frames Cell Events: 7205 mean_circ: 0.918386
Ran for 386550 frames Cell Events: 7217 mean_circ: 0.918363
Ran for 387050 frames Cell Events: 7224 mean_circ: 0.918382
Ran for 387550 frames Cell Events: 7234 mean_circ: 0.918378
Ran for 388050 frames Cell Events: 7239 mean_circ: 0.918362
Ran for 388550 frames Cell Events: 7245 mean_circ: 0.918343
Ran for 389050 frames Cell Events: 7256 mean_circ: 0.918342
Ran for 389550 frames Cell Events: 7263 mean_circ: 0.918355
Ran for 391050 frames Cell Events: 7307 mean_circ: 0.918434
Ran for 391550 frames Cell Events: 7318 mean_circ: 0.918462
Ran for 392050 frames Cell Events: 7328 mean_circ: 0.918435
Ran for 392550 frames Cell Events: 7339 mean_circ: 0.918414
Ran for 393550 frames Cell Events: 7360 mean_circ: 0.918431
Ran for 394050 frames Cell Events: 7367 mean_circ: 0.918397
Ran for 394550 frames Cell Events: 7373 mean_circ: 0.918351
Ran for 395050 frames Cell Events: 7388 mean_circ: 0.918344
Ran for 395550 frames Cell Events: 7392 mean_circ: 0.91835
Ran for 396050 frames Cell Events: 7398 mean_circ: 0.918336
Ran for 396550 frames Cell Events: 7412 mean_circ: 0.918338
Ran for 397050 frames Cell Events: 7418 mean_circ: 0.918339
Ran for 397550 frames Cell Events: 7426 mean_circ: 0.918352
Ran for 398050 frames Cell Events: 7437 mean_circ: 0.918339
Ran for 398550 frames Cell Events: 7451 mean_circ: 0.918306
Ran for 399050 frames Cell Events: 7461 mean_circ: 0.918299
Ran for 399550 frames Cell Events: 7474 mean_circ: 0.918323
Ran for 401050 frames Cell Events: 7504 mean_circ: 0.918347
Ran for 401550 frames Cell Events: 7509 mean_circ: 0.918337
Ran for 402050 frames Cell Events: 7523 mean_circ: 0.918327
Ran for 402550 frames Cell Events: 7532 mean_circ: 0.918328
Ran for 403050 frames Cell Events: 7538 mean_circ: 0.918358
Ran for 403550 frames Cell Events: 7549 mean_circ: 0.918379
Ran for 404550 frames Cell Events: 7568 mean_circ: 0.918342
Ran for 405050 frames Cell Events: 7581 mean_circ: 0.918347
Ran for 405550 frames Cell Events: 7588 mean_circ: 0.91837
Ran for 406050 frames Cell Events: 7603 mean_circ: 0.918355
Ran for 406550 frames Cell Events: 7612 mean_circ: 0.918299
Ran for 407050 frames Cell Events: 7621 mean_circ: 0.918295
Ran for 407550 frames Cell Events: 7631 mean_circ: 0.918275
Ran for 408050 frames Cell Events: 7637 mean_circ: 0.918318
Ran for 408550 frames Cell Events: 7649 mean_circ: 0.918336
Ran for 409050 frames Cell Events: 7656 mean_circ: 0.918353
Ran for 409550 frames Cell Events: 7666 mean_circ: 0.918381
Ran for 410550 frames Cell Events: 7679 mean_circ: 0.918362
Ran for 411550 frames Cell Events: 7705 mean_circ: 0.918346
Ran for 412050 frames Cell Events: 7710 mean_circ: 0.918352
Ran for 413050 frames Cell Events: 7733 mean_circ: 0.918335
Ran for 413550 frames Cell Events: 7745 mean_circ: 0.91834
Ran for 414050 frames Cell Events: 7754 mean_circ: 0.918341
Ran for 414550 frames Cell Events: 7764 mean_circ: 0.918303
Ran for 415050 frames Cell Events: 7771 mean_circ: 0.918331
Ran for 415550 frames Cell Events: 7784 mean_circ: 0.918342
Ran for 416050 frames Cell Events: 7797 mean_circ: 0.918361
Ran for 416550 frames Cell Events: 7810 mean_circ: 0.918352
Ran for 417050 frames Cell Events: 7821 mean_circ: 0.918349
Ran for 417550 frames Cell Events: 7825 mean_circ: 0.918353
Ran for 418050 frames Cell Events: 7835 mean_circ: 0.918378
Ran for 418550 frames Cell Events: 7843 mean_circ: 0.918381
Ran for 420050 frames Cell Events: 7874 mean_circ: 0.918388
Ran for 421050 frames Cell Events: 7894 mean_circ: 0.918366
Ran for 421550 frames Cell Events: 7906 mean_circ: 0.918393
Ran for 422050 frames Cell Events: 7926 mean_circ: 0.918391
Ran for 422550 frames Cell Events: 7932 mean_circ: 0.918369
Ran for 423050 frames Cell Events: 7941 mean_circ: 0.91837
Ran for 424050 frames Cell Events: 7969 mean_circ: 0.918391
Ran for 425550 frames Cell Events: 7999 mean_circ: 0.918371
Ran for 426050 frames Cell Events: 8009 mean_circ: 0.918383
Ran for 427050 frames Cell Events: 8030 mean_circ: 0.918446
Ran for 428050 frames Cell Events: 8056 mean_circ: 0.918401
Ran for 428550 frames Cell Events: 8064 mean_circ: 0.918415
Ran for 429050 frames Cell Events: 8072 mean_circ: 0.918435
Ran for 429550 frames Cell Events: 8083 mean_circ: 0.918394
Ran for 430050 frames Cell Events: 8090 mean_circ: 0.918404
Ran for 430550 frames Cell Events: 8098 mean_circ: 0.918387
End this measurment..
Stopping time: 5.51561e+008
****************************************
Measurement finished
Mean Circularitiy: 0.9184
Mean Area: 726.42
Mean FL-1 intensity: 2965.29
Mean FL-2 intensity: 4181.43
Mean FL-3 intensity: 0
frames processed: 428472
Total Time: 215367ms
Number of Runs (new bg img) 0
Frames collected: 430560
Skipped frames: 56550
Rescued Frames: 2694591
Samples DAQ: 107640061
Samples written: 215279820
Samples per Channel: 107639910
FPS: 1999.19
Samples per second: 499797
Expected samples/s: 500000
Events: 8098
Events per second: 37.6009
jumped back (PMT): 13
#Frames read, frequency
# 0 frames :559375
# 1 frames :276940
# 2 frames :7735
# 3 frames :2636
# 4 frames :1758
# 5 frames :763
# 6 frames :1444
# 7 frames :3153
# 8 frames :1553
# 9 frames :1010
# 10 frames :880
# 11 frames :766
# 12 frames :644
# 13 frames :612
# 14 frames :398
# 15 frames :322
# 16 frames :217
# 17 frames :199
# 18 frames :161
# 19 frames :117
# 20 frames :70
# 21 frames :49
# 22 frames :37
# 23 frames :37
# 24 frames :35
# 25 frames :28
# 26 frames :24
# 27 frames :26
# 28 frames :17
# 29 frames :13
# 30 frames :14
# 31 frames :12
# 32 frames :6
# 33 frames :6
# 34 frames :3
# 35 frames :1
# 36 frames :2
# 37 frames :3
# 38 frames :3
# 39 frames :1
# 41 frames :2
# 43 frames :3
# 45 frames :1
# 46 frames :1
# 53 frames :1
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 = 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] = 25.1038
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 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 | fbdf33bdd6c9d95ab622ad1f31caf6f2 |
format | RT-FDC |
id | 49cbd66c-ad88-4bb5-af4d-01789065242b |
metadata modified | 3 months ago |
mimetype | RT-DC |
package id | 7b198f26-8ece-4866-8b9f-853bf43627f4 |
position | 0 |
s3 available | True |
s3 url | https://objectstore.hpccloud.mpcdf.mpg.de/circle-8a23b5b7-6d86-46b7-9833-62373e9ec110/resource/49c/bd6/6c-ad88-4bb5-af4d-01789065242b |
sha256 | 0a092a10ed074a12a4ff707c78991972d660da34a61659b9aec7eaa57803307c |
size | 139.3 MiB |
dc:experiment:date | 2017-05-21 |
dc:experiment:event count | 8,096 |
dc:experiment:run identifier | None-5467 |
dc:experiment:run index | 1 |
dc:experiment:sample | 20170521_1731_dsRNA_B6_faster |
dc:experiment:time | 17:31:51 |
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 |