M1_20170604_1819_dsRNA_F1_col.rtdc
Click on the log titles below to expand the log entries present in this DC resource.
dclab-export_2024-07-10_12.50.44
{"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": "668d0b9ed03dd28c390b8ec60d921e40",
"name": "M1_20170604_1819_dsRNA_F1_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": "10:51:05"
}
}
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] = 25.2629
Start pulse train for BG Aquisition..
Now refreshing the background image stored in the framegrabber
STATE: 3
Starting time: 1.76381e+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 50 frames Cell Events: 0 mean_circ: 0.939297
Ran for 550 frames Cell Events: 8 mean_circ: 0.930767
Ran for 1050 frames Cell Events: 14 mean_circ: 0.931776
Ran for 3050 frames Cell Events: 48 mean_circ: 0.920411
Ran for 3550 frames Cell Events: 51 mean_circ: 0.920213
Ran for 4550 frames Cell Events: 73 mean_circ: 0.923092
Ran for 5050 frames Cell Events: 83 mean_circ: 0.922543
Ran for 5550 frames Cell Events: 87 mean_circ: 0.920453
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Ran for 23550 frames Cell Events: 398 mean_circ: 0.924839
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Ran for 106550 frames Cell Events: 2013 mean_circ: 0.929727
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Ran for 122050 frames Cell Events: 2299 mean_circ: 0.929629
Ran for 122550 frames Cell Events: 2308 mean_circ: 0.929651
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Ran for 395550 frames Cell Events: 7695 mean_circ: 0.930361
Ran for 396550 frames Cell Events: 7701 mean_circ: 0.930368
Ran for 397050 frames Cell Events: 7709 mean_circ: 0.930384
Ran for 397550 frames Cell Events: 7724 mean_circ: 0.930424
Ran for 398550 frames Cell Events: 7730 mean_circ: 0.930426
Ran for 399050 frames Cell Events: 7741 mean_circ: 0.930425
Ran for 399550 frames Cell Events: 7752 mean_circ: 0.930444
Ran for 400050 frames Cell Events: 7760 mean_circ: 0.930466
Ran for 400550 frames Cell Events: 7769 mean_circ: 0.930478
Ran for 401050 frames Cell Events: 7778 mean_circ: 0.930496
Ran for 402050 frames Cell Events: 7798 mean_circ: 0.930523
Ran for 402550 frames Cell Events: 7816 mean_circ: 0.930518
Ran for 403050 frames Cell Events: 7824 mean_circ: 0.930544
Ran for 404550 frames Cell Events: 7844 mean_circ: 0.930558
Ran for 405050 frames Cell Events: 7851 mean_circ: 0.930573
Ran for 405550 frames Cell Events: 7860 mean_circ: 0.930586
Ran for 406050 frames Cell Events: 7865 mean_circ: 0.93058
Ran for 406550 frames Cell Events: 7873 mean_circ: 0.930597
Ran for 407050 frames Cell Events: 7890 mean_circ: 0.930621
Ran for 407550 frames Cell Events: 7896 mean_circ: 0.930625
Ran for 408050 frames Cell Events: 7905 mean_circ: 0.930607
Ran for 408550 frames Cell Events: 7917 mean_circ: 0.930584
Ran for 409550 frames Cell Events: 7926 mean_circ: 0.930582
Ran for 410050 frames Cell Events: 7935 mean_circ: 0.930594
Ran for 410550 frames Cell Events: 7946 mean_circ: 0.930585
Ran for 411050 frames Cell Events: 7959 mean_circ: 0.930598
Ran for 411550 frames Cell Events: 7969 mean_circ: 0.930599
Ran for 412550 frames Cell Events: 7984 mean_circ: 0.930625
Ran for 413050 frames Cell Events: 7994 mean_circ: 0.930618
Ran for 413550 frames Cell Events: 8007 mean_circ: 0.930619
Ran for 414050 frames Cell Events: 8020 mean_circ: 0.930621
Ran for 414550 frames Cell Events: 8028 mean_circ: 0.930614
Ran for 415050 frames Cell Events: 8037 mean_circ: 0.930601
Ran for 415550 frames Cell Events: 8042 mean_circ: 0.930596
Ran for 416050 frames Cell Events: 8051 mean_circ: 0.930584
Ran for 416550 frames Cell Events: 8059 mean_circ: 0.930589
Ran for 417050 frames Cell Events: 8070 mean_circ: 0.9306
Ran for 417550 frames Cell Events: 8083 mean_circ: 0.930597
Ran for 418550 frames Cell Events: 8111 mean_circ: 0.930629
Ran for 419050 frames Cell Events: 8119 mean_circ: 0.930628
Ran for 419550 frames Cell Events: 8139 mean_circ: 0.930629
Ran for 420050 frames Cell Events: 8160 mean_circ: 0.930686
Ran for 420550 frames Cell Events: 8173 mean_circ: 0.930662
Ran for 421550 frames Cell Events: 8198 mean_circ: 0.930637
Ran for 422550 frames Cell Events: 8212 mean_circ: 0.930658
Ran for 423550 frames Cell Events: 8238 mean_circ: 0.930653
Ran for 424050 frames Cell Events: 8244 mean_circ: 0.930632
Ran for 424550 frames Cell Events: 8253 mean_circ: 0.930619
Ran for 425050 frames Cell Events: 8262 mean_circ: 0.930652
Ran for 425550 frames Cell Events: 8272 mean_circ: 0.930655
Ran for 426050 frames Cell Events: 8287 mean_circ: 0.930606
Ran for 426550 frames Cell Events: 8292 mean_circ: 0.930606
Ran for 428050 frames Cell Events: 8327 mean_circ: 0.930603
Ran for 428550 frames Cell Events: 8336 mean_circ: 0.930605
Ran for 429050 frames Cell Events: 8353 mean_circ: 0.930563
Ran for 429550 frames Cell Events: 8364 mean_circ: 0.930583
Ran for 430550 frames Cell Events: 8383 mean_circ: 0.930553
Ran for 431050 frames Cell Events: 8387 mean_circ: 0.930546
Ran for 431550 frames Cell Events: 8396 mean_circ: 0.930558
Ran for 432050 frames Cell Events: 8403 mean_circ: 0.930552
Ran for 433050 frames Cell Events: 8416 mean_circ: 0.930546
Ran for 433550 frames Cell Events: 8422 mean_circ: 0.930543
Ran for 434050 frames Cell Events: 8431 mean_circ: 0.930516
Ran for 434550 frames Cell Events: 8439 mean_circ: 0.930495
Ran for 435050 frames Cell Events: 8448 mean_circ: 0.930483
Ran for 435550 frames Cell Events: 8453 mean_circ: 0.930494
Ran for 436050 frames Cell Events: 8461 mean_circ: 0.930493
Ran for 437050 frames Cell Events: 8481 mean_circ: 0.930487
Ran for 437550 frames Cell Events: 8490 mean_circ: 0.930505
Ran for 438050 frames Cell Events: 8497 mean_circ: 0.93051
Ran for 438550 frames Cell Events: 8500 mean_circ: 0.930506
Ran for 439050 frames Cell Events: 8506 mean_circ: 0.930462
Ran for 439550 frames Cell Events: 8511 mean_circ: 0.930481
Ran for 440550 frames Cell Events: 8530 mean_circ: 0.930511
Ran for 441050 frames Cell Events: 8534 mean_circ: 0.930511
Ran for 441550 frames Cell Events: 8549 mean_circ: 0.930479
Ran for 442050 frames Cell Events: 8557 mean_circ: 0.930471
Ran for 442550 frames Cell Events: 8571 mean_circ: 0.93049
Ran for 443550 frames Cell Events: 8593 mean_circ: 0.930514
Ran for 444050 frames Cell Events: 8601 mean_circ: 0.930517
Ran for 444550 frames Cell Events: 8610 mean_circ: 0.930507
Ran for 445050 frames Cell Events: 8619 mean_circ: 0.930518
Ran for 445550 frames Cell Events: 8627 mean_circ: 0.930541
Ran for 446050 frames Cell Events: 8636 mean_circ: 0.930569
Ran for 447050 frames Cell Events: 8640 mean_circ: 0.93057
Ran for 448550 frames Cell Events: 8673 mean_circ: 0.930476
Ran for 449050 frames Cell Events: 8676 mean_circ: 0.930493
Ran for 449550 frames Cell Events: 8680 mean_circ: 0.930486
End this measurment..
Stopping time: 1.76404e+009
****************************************
Measurement finished
Mean Circularitiy: 0.930483
Mean Area: 632.879
Mean FL-1 intensity: 4481.7
Mean FL-2 intensity: 5619.06
Mean FL-3 intensity: 0
frames processed: 439290
Total Time: 225005ms
Number of Runs (new bg img) 0
Frames collected: 449900
Skipped frames: 125651
Rescued Frames: 4284132
Samples DAQ: 112475431
Samples written: 224949784
Samples per Channel: 112474892
FPS: 1999.51
Samples per second: 499876
Expected samples/s: 500000
Events: 8686
Events per second: 38.6035
jumped back (PMT): 6300
#Frames read, frequency
# 0 frames :589306
# 1 frames :285493
# 2 frames :7535
# 3 frames :2682
# 4 frames :1386
# 5 frames :996
# 6 frames :1587
# 7 frames :2911
# 8 frames :2089
# 9 frames :1185
# 10 frames :963
# 11 frames :706
# 12 frames :688
# 13 frames :455
# 14 frames :356
# 15 frames :299
# 16 frames :283
# 17 frames :207
# 18 frames :134
# 19 frames :113
# 20 frames :86
# 21 frames :73
# 22 frames :42
# 23 frames :27
# 24 frames :41
# 25 frames :24
# 26 frames :15
# 27 frames :13
# 28 frames :21
# 29 frames :12
# 30 frames :8
# 31 frames :6
# 32 frames :1
# 33 frames :6
# 34 frames :3
# 35 frames :2
# 36 frames :3
# 38 frames :2
# 39 frames :1
# 40 frames :1
# 43 frames :1
# 46 frames :1
# 52 frames :1
# 53 frames :1
# 66 frames :1
# 71 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] = 25.2629
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 | 3 months ago |
etag | a0cd0210e493548dd4134bcd9ac36caf |
format | RT-FDC |
id | 9130283a-249f-4a37-b399-2e6c7b2e986f |
metadata modified | 3 months ago |
mimetype | RT-DC |
package id | 9cbd0099-e889-4a04-8286-0a6b7002defa |
position | 0 |
s3 available | True |
s3 url | https://objectstore.hpccloud.mpcdf.mpg.de/circle-8a23b5b7-6d86-46b7-9833-62373e9ec110/resource/913/028/3a-249f-4a37-b399-2e6c7b2e986f |
sha256 | 440b9b8acc84e59e214e76b446c4b0a47fa112bda85a3e2d8914f3bc9220bbfc |
size | 153.5 MiB |
dc:experiment:date | 2017-06-04 |
dc:experiment:event count | 8,685 |
dc:experiment:run identifier | None-f0ec |
dc:experiment:run index | 1 |
dc:experiment:sample | 20170604_1819_dsRNA_F1_col |
dc:experiment:time | 18:19:59 |
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 |