M1_20170616_1620_dsRNA_N7_faster.rtdc
Click on the log titles below to expand the log entries present in this DC resource.
dclab-export_2024-07-10_18.18.08
{"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": "4b757fe9be809a5e85f7215b052afa62",
"name": "M1_20170616_1620_dsRNA_N7_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": "16:18:27"
}
}
dclab-tdms2rtdc-warnings
LimitingExportSizeWarningin dclab.rtdc_dataset.export line 305:
Not all features have the same length! Limiting output event count to 7516 (max 7517) in '7516'.
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] = 24.7895
Start pulse train for BG Aquisition..
Now refreshing the background image stored in the framegrabber
STATE: 3
Starting time: 2.20174e+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: 10 mean_circ: 0.91601
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Ran for 372550 frames Cell Events: 6270 mean_circ: 0.915163
Ran for 373050 frames Cell Events: 6274 mean_circ: 0.915183
Ran for 373550 frames Cell Events: 6280 mean_circ: 0.915144
Ran for 374050 frames Cell Events: 6284 mean_circ: 0.915151
Ran for 375050 frames Cell Events: 6301 mean_circ: 0.915133
Ran for 375550 frames Cell Events: 6310 mean_circ: 0.915135
Ran for 376050 frames Cell Events: 6317 mean_circ: 0.91513
Ran for 376550 frames Cell Events: 6328 mean_circ: 0.915101
Ran for 377050 frames Cell Events: 6352 mean_circ: 0.91515
Ran for 377550 frames Cell Events: 6362 mean_circ: 0.915178
Ran for 378050 frames Cell Events: 6380 mean_circ: 0.915178
Ran for 379050 frames Cell Events: 6398 mean_circ: 0.915222
Ran for 379550 frames Cell Events: 6412 mean_circ: 0.915231
Ran for 380050 frames Cell Events: 6420 mean_circ: 0.915219
Ran for 380550 frames Cell Events: 6427 mean_circ: 0.915212
Ran for 381050 frames Cell Events: 6435 mean_circ: 0.915228
Ran for 381550 frames Cell Events: 6441 mean_circ: 0.91522
Ran for 382050 frames Cell Events: 6454 mean_circ: 0.915185
Ran for 383050 frames Cell Events: 6471 mean_circ: 0.9152
Ran for 383550 frames Cell Events: 6478 mean_circ: 0.915207
Ran for 384050 frames Cell Events: 6486 mean_circ: 0.915177
Ran for 384550 frames Cell Events: 6491 mean_circ: 0.915133
Ran for 385050 frames Cell Events: 6496 mean_circ: 0.915138
Ran for 386550 frames Cell Events: 6524 mean_circ: 0.915194
Ran for 387550 frames Cell Events: 6538 mean_circ: 0.915157
Ran for 388050 frames Cell Events: 6553 mean_circ: 0.915174
Ran for 388550 frames Cell Events: 6561 mean_circ: 0.915197
Ran for 389050 frames Cell Events: 6576 mean_circ: 0.915222
Ran for 390550 frames Cell Events: 6612 mean_circ: 0.915228
Ran for 391050 frames Cell Events: 6618 mean_circ: 0.915247
Ran for 391550 frames Cell Events: 6624 mean_circ: 0.915242
Ran for 392550 frames Cell Events: 6638 mean_circ: 0.915276
Ran for 393050 frames Cell Events: 6646 mean_circ: 0.915269
Ran for 394050 frames Cell Events: 6666 mean_circ: 0.91522
Ran for 395050 frames Cell Events: 6684 mean_circ: 0.91522
Ran for 395550 frames Cell Events: 6699 mean_circ: 0.915184
Ran for 396050 frames Cell Events: 6710 mean_circ: 0.915187
Ran for 397050 frames Cell Events: 6713 mean_circ: 0.915182
Ran for 397550 frames Cell Events: 6717 mean_circ: 0.915165
Ran for 398050 frames Cell Events: 6727 mean_circ: 0.915153
Ran for 399050 frames Cell Events: 6746 mean_circ: 0.915155
Ran for 399550 frames Cell Events: 6758 mean_circ: 0.915164
Ran for 400050 frames Cell Events: 6769 mean_circ: 0.915078
Ran for 400550 frames Cell Events: 6778 mean_circ: 0.915116
Ran for 401050 frames Cell Events: 6783 mean_circ: 0.915137
Ran for 401550 frames Cell Events: 6792 mean_circ: 0.915141
Ran for 402050 frames Cell Events: 6802 mean_circ: 0.91514
Ran for 403050 frames Cell Events: 6818 mean_circ: 0.915205
Ran for 403550 frames Cell Events: 6829 mean_circ: 0.915194
Ran for 404050 frames Cell Events: 6839 mean_circ: 0.915199
Ran for 404550 frames Cell Events: 6845 mean_circ: 0.915204
Ran for 405550 frames Cell Events: 6862 mean_circ: 0.915161
Ran for 406050 frames Cell Events: 6869 mean_circ: 0.915188
Ran for 406550 frames Cell Events: 6875 mean_circ: 0.915211
Ran for 407050 frames Cell Events: 6886 mean_circ: 0.915214
Ran for 407550 frames Cell Events: 6894 mean_circ: 0.915227
Ran for 408050 frames Cell Events: 6904 mean_circ: 0.915262
Ran for 409050 frames Cell Events: 6916 mean_circ: 0.915282
Ran for 409550 frames Cell Events: 6923 mean_circ: 0.915288
Ran for 410050 frames Cell Events: 6936 mean_circ: 0.915329
Ran for 410550 frames Cell Events: 6945 mean_circ: 0.915308
Ran for 412550 frames Cell Events: 6982 mean_circ: 0.915305
Ran for 413050 frames Cell Events: 6990 mean_circ: 0.915322
Ran for 413550 frames Cell Events: 6997 mean_circ: 0.915338
Ran for 414550 frames Cell Events: 7036 mean_circ: 0.915398
Ran for 415050 frames Cell Events: 7056 mean_circ: 0.915458
Ran for 415550 frames Cell Events: 7065 mean_circ: 0.91548
Ran for 416050 frames Cell Events: 7074 mean_circ: 0.915477
Ran for 417050 frames Cell Events: 7101 mean_circ: 0.915412
Ran for 417550 frames Cell Events: 7115 mean_circ: 0.915409
Ran for 418550 frames Cell Events: 7126 mean_circ: 0.915427
Ran for 419050 frames Cell Events: 7134 mean_circ: 0.91541
Ran for 419550 frames Cell Events: 7138 mean_circ: 0.915364
Ran for 420050 frames Cell Events: 7144 mean_circ: 0.915355
Ran for 420550 frames Cell Events: 7157 mean_circ: 0.915364
Ran for 421050 frames Cell Events: 7165 mean_circ: 0.915357
Ran for 421550 frames Cell Events: 7178 mean_circ: 0.915302
Ran for 422050 frames Cell Events: 7184 mean_circ: 0.915317
Ran for 422550 frames Cell Events: 7195 mean_circ: 0.915271
Ran for 423050 frames Cell Events: 7201 mean_circ: 0.915244
Ran for 423550 frames Cell Events: 7209 mean_circ: 0.915239
Ran for 424050 frames Cell Events: 7216 mean_circ: 0.915237
Ran for 424550 frames Cell Events: 7219 mean_circ: 0.915253
Ran for 425050 frames Cell Events: 7225 mean_circ: 0.915263
Ran for 425550 frames Cell Events: 7232 mean_circ: 0.915279
Ran for 426050 frames Cell Events: 7243 mean_circ: 0.915263
Ran for 426550 frames Cell Events: 7250 mean_circ: 0.91524
Ran for 427050 frames Cell Events: 7260 mean_circ: 0.915261
Ran for 427550 frames Cell Events: 7268 mean_circ: 0.915273
Ran for 428550 frames Cell Events: 7285 mean_circ: 0.915291
Ran for 430050 frames Cell Events: 7311 mean_circ: 0.915282
Ran for 430550 frames Cell Events: 7320 mean_circ: 0.915274
Ran for 431050 frames Cell Events: 7322 mean_circ: 0.915285
Ran for 431550 frames Cell Events: 7330 mean_circ: 0.915302
Ran for 432050 frames Cell Events: 7343 mean_circ: 0.915315
Ran for 432550 frames Cell Events: 7357 mean_circ: 0.915372
Ran for 433050 frames Cell Events: 7367 mean_circ: 0.915333
Ran for 433550 frames Cell Events: 7373 mean_circ: 0.915317
Ran for 434050 frames Cell Events: 7386 mean_circ: 0.915317
Ran for 434550 frames Cell Events: 7389 mean_circ: 0.915305
Ran for 435050 frames Cell Events: 7406 mean_circ: 0.915293
Ran for 435550 frames Cell Events: 7414 mean_circ: 0.915275
Ran for 436550 frames Cell Events: 7433 mean_circ: 0.915281
Ran for 437050 frames Cell Events: 7441 mean_circ: 0.915288
Ran for 437550 frames Cell Events: 7452 mean_circ: 0.915272
Ran for 438050 frames Cell Events: 7461 mean_circ: 0.915244
Ran for 438550 frames Cell Events: 7465 mean_circ: 0.915241
Ran for 439050 frames Cell Events: 7472 mean_circ: 0.915248
Ran for 439550 frames Cell Events: 7475 mean_circ: 0.915234
Ran for 440050 frames Cell Events: 7480 mean_circ: 0.915211
Ran for 440550 frames Cell Events: 7486 mean_circ: 0.915229
Ran for 441050 frames Cell Events: 7494 mean_circ: 0.915239
Ran for 441550 frames Cell Events: 7500 mean_circ: 0.91523
Ran for 442050 frames Cell Events: 7502 mean_circ: 0.915214
Ran for 442550 frames Cell Events: 7514 mean_circ: 0.915205
End this measurment..
Stopping time: 2.20395e+008
****************************************
Measurement finished
Mean Circularitiy: 0.915183
Mean Area: 729.864
Mean FL-1 intensity: 2781.7
Mean FL-2 intensity: 3940.83
Mean FL-3 intensity: 0
frames processed: 438922
Total Time: 221394ms
Number of Runs (new bg img) 0
Frames collected: 442586
Skipped frames: 36767
Rescued Frames: 3102751
Samples DAQ: 110647342
Samples written: 221292678
Samples per Channel: 110646339
FPS: 1999.09
Samples per second: 499771
Expected samples/s: 500000
Events: 7517
Events per second: 33.953
jumped back (PMT): 17
#Frames read, frequency
# 0 frames :569655
# 1 frames :290755
# 2 frames :7365
# 3 frames :3540
# 4 frames :1631
# 5 frames :753
# 6 frames :1495
# 7 frames :2214
# 8 frames :1279
# 9 frames :728
# 10 frames :1416
# 11 frames :1482
# 12 frames :1000
# 13 frames :425
# 14 frames :291
# 15 frames :220
# 16 frames :185
# 17 frames :148
# 18 frames :140
# 19 frames :87
# 20 frames :60
# 21 frames :39
# 22 frames :42
# 23 frames :33
# 24 frames :21
# 25 frames :17
# 26 frames :11
# 27 frames :10
# 28 frames :5
# 29 frames :5
# 30 frames :3
# 31 frames :5
# 32 frames :3
# 33 frames :1
# 34 frames :2
# 35 frames :1
# 36 frames :2
# 38 frames :1
# 39 frames :1
# 40 frames :2
# 42 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 = 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] = 24.7895
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 | 156c9caafb5b6f98783bf72db8d62a3c |
format | RT-FDC |
id | 8f48873e-2b5d-49b6-b6e6-b655ee07abf3 |
metadata modified | 3 months ago |
mimetype | RT-DC |
package id | 08ab728e-d17b-4140-9156-22c53742a544 |
position | 0 |
s3 available | True |
s3 url | https://objectstore.hpccloud.mpcdf.mpg.de/circle-8a23b5b7-6d86-46b7-9833-62373e9ec110/resource/8f4/887/3e-2b5d-49b6-b6e6-b655ee07abf3 |
sha256 | 307af301ba9758d324310598dd40c39b796ae07eeeae365198a394fdf573bba9 |
size | 128.1 MiB |
dc:experiment:date | 2017-06-16 |
dc:experiment:event count | 7,515 |
dc:experiment:run identifier | None-05ef |
dc:experiment:run index | 1 |
dc:experiment:sample | 20170616_1620_dsRNA_N7_faster |
dc:experiment:time | 16:20:27 |
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 |