M1_20170604_2112_dsRNA_H5_faster.rtdc
Click on the log titles below to expand the log entries present in this DC resource.
dclab-export_2024-07-10_13.04.10
{"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": "a5adfc9492fbebdf56c36e2b773c00ae",
"name": "M1_20170604_2112_dsRNA_H5_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": "11:04:23"
}
}
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] = 25.2049
Start pulse train for BG Aquisition..
Now refreshing the background image stored in the framegrabber
STATE: 3
Starting time: 1.77416e+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: 0.915463
Ran for 550 frames Cell Events: 7 mean_circ: 0.933939
Ran for 1050 frames Cell Events: 9 mean_circ: 0.935811
Ran for 1550 frames Cell Events: 14 mean_circ: 0.912295
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Ran for 377550 frames Cell Events: 4514 mean_circ: 0.90672
Ran for 378050 frames Cell Events: 4521 mean_circ: 0.906733
Ran for 378550 frames Cell Events: 4525 mean_circ: 0.906658
Ran for 379050 frames Cell Events: 4529 mean_circ: 0.906676
Ran for 379550 frames Cell Events: 4536 mean_circ: 0.906688
Ran for 380050 frames Cell Events: 4539 mean_circ: 0.906683
Ran for 380550 frames Cell Events: 4546 mean_circ: 0.906678
Ran for 381050 frames Cell Events: 4554 mean_circ: 0.906689
Ran for 381550 frames Cell Events: 4564 mean_circ: 0.906702
Ran for 382050 frames Cell Events: 4569 mean_circ: 0.906704
Ran for 383050 frames Cell Events: 4575 mean_circ: 0.906668
Ran for 383550 frames Cell Events: 4584 mean_circ: 0.90669
Ran for 384050 frames Cell Events: 4586 mean_circ: 0.906685
Ran for 384550 frames Cell Events: 4590 mean_circ: 0.906659
Ran for 385050 frames Cell Events: 4591 mean_circ: 0.906663
Ran for 385550 frames Cell Events: 4597 mean_circ: 0.906692
Ran for 386050 frames Cell Events: 4602 mean_circ: 0.906725
Ran for 387050 frames Cell Events: 4612 mean_circ: 0.906721
Ran for 387550 frames Cell Events: 4615 mean_circ: 0.906727
Ran for 389050 frames Cell Events: 4630 mean_circ: 0.906702
Ran for 389550 frames Cell Events: 4642 mean_circ: 0.906599
Ran for 390050 frames Cell Events: 4647 mean_circ: 0.906612
Ran for 390550 frames Cell Events: 4653 mean_circ: 0.906586
Ran for 391050 frames Cell Events: 4656 mean_circ: 0.906568
Ran for 391550 frames Cell Events: 4662 mean_circ: 0.906585
Ran for 392050 frames Cell Events: 4672 mean_circ: 0.906568
Ran for 392550 frames Cell Events: 4675 mean_circ: 0.906583
Ran for 393050 frames Cell Events: 4678 mean_circ: 0.906595
Ran for 393550 frames Cell Events: 4688 mean_circ: 0.906621
Ran for 394050 frames Cell Events: 4694 mean_circ: 0.906611
Ran for 394550 frames Cell Events: 4698 mean_circ: 0.90664
Ran for 395050 frames Cell Events: 4704 mean_circ: 0.906666
Ran for 395550 frames Cell Events: 4710 mean_circ: 0.906629
Ran for 396050 frames Cell Events: 4714 mean_circ: 0.906664
Ran for 396550 frames Cell Events: 4721 mean_circ: 0.906685
Ran for 397050 frames Cell Events: 4726 mean_circ: 0.90669
Ran for 397550 frames Cell Events: 4730 mean_circ: 0.906703
Ran for 398050 frames Cell Events: 4737 mean_circ: 0.906713
Ran for 398550 frames Cell Events: 4744 mean_circ: 0.906672
Ran for 399050 frames Cell Events: 4752 mean_circ: 0.90668
Ran for 399550 frames Cell Events: 4757 mean_circ: 0.906678
Ran for 400550 frames Cell Events: 4777 mean_circ: 0.906676
Ran for 401050 frames Cell Events: 4782 mean_circ: 0.906664
Ran for 401550 frames Cell Events: 4786 mean_circ: 0.906649
Ran for 402050 frames Cell Events: 4790 mean_circ: 0.906617
Ran for 402550 frames Cell Events: 4795 mean_circ: 0.906647
Ran for 403050 frames Cell Events: 4800 mean_circ: 0.906697
Ran for 403550 frames Cell Events: 4807 mean_circ: 0.906692
Ran for 404050 frames Cell Events: 4813 mean_circ: 0.906708
Ran for 404550 frames Cell Events: 4824 mean_circ: 0.906733
Ran for 405050 frames Cell Events: 4827 mean_circ: 0.906783
Ran for 405550 frames Cell Events: 4830 mean_circ: 0.906798
Ran for 406050 frames Cell Events: 4835 mean_circ: 0.906806
Ran for 407050 frames Cell Events: 4844 mean_circ: 0.906806
Ran for 407550 frames Cell Events: 4851 mean_circ: 0.906757
Ran for 408050 frames Cell Events: 4855 mean_circ: 0.906805
Ran for 408550 frames Cell Events: 4860 mean_circ: 0.906805
Ran for 409050 frames Cell Events: 4864 mean_circ: 0.906814
Ran for 409550 frames Cell Events: 4867 mean_circ: 0.906806
Ran for 410050 frames Cell Events: 4871 mean_circ: 0.906818
Ran for 411050 frames Cell Events: 4883 mean_circ: 0.906755
Ran for 411550 frames Cell Events: 4887 mean_circ: 0.906782
Ran for 412050 frames Cell Events: 4890 mean_circ: 0.906794
Ran for 412550 frames Cell Events: 4895 mean_circ: 0.906809
Ran for 413050 frames Cell Events: 4900 mean_circ: 0.906749
Ran for 413550 frames Cell Events: 4906 mean_circ: 0.906744
Ran for 414050 frames Cell Events: 4915 mean_circ: 0.906738
Ran for 414550 frames Cell Events: 4922 mean_circ: 0.906766
Ran for 415050 frames Cell Events: 4924 mean_circ: 0.906778
Ran for 415550 frames Cell Events: 4932 mean_circ: 0.906735
Ran for 416050 frames Cell Events: 4939 mean_circ: 0.906803
Ran for 417050 frames Cell Events: 4954 mean_circ: 0.906823
Ran for 417550 frames Cell Events: 4959 mean_circ: 0.906826
Ran for 418050 frames Cell Events: 4974 mean_circ: 0.906833
Ran for 419050 frames Cell Events: 4985 mean_circ: 0.906855
Ran for 420050 frames Cell Events: 4997 mean_circ: 0.906855
Ran for 420550 frames Cell Events: 5000 mean_circ: 0.906872
Ran for 421050 frames Cell Events: 5004 mean_circ: 0.906891
Ran for 421550 frames Cell Events: 5010 mean_circ: 0.906839
Ran for 422050 frames Cell Events: 5012 mean_circ: 0.906824
Ran for 423050 frames Cell Events: 5024 mean_circ: 0.906791
Ran for 423550 frames Cell Events: 5026 mean_circ: 0.906824
Ran for 424050 frames Cell Events: 5031 mean_circ: 0.906819
Ran for 424550 frames Cell Events: 5039 mean_circ: 0.906827
Ran for 425050 frames Cell Events: 5044 mean_circ: 0.906813
Ran for 425550 frames Cell Events: 5049 mean_circ: 0.906814
Ran for 426050 frames Cell Events: 5053 mean_circ: 0.906794
Ran for 426550 frames Cell Events: 5058 mean_circ: 0.906772
Ran for 427050 frames Cell Events: 5062 mean_circ: 0.906769
Ran for 427550 frames Cell Events: 5064 mean_circ: 0.906769
Ran for 428050 frames Cell Events: 5071 mean_circ: 0.906787
Ran for 428550 frames Cell Events: 5080 mean_circ: 0.906796
Ran for 429050 frames Cell Events: 5088 mean_circ: 0.906864
Ran for 429550 frames Cell Events: 5092 mean_circ: 0.906872
Ran for 430050 frames Cell Events: 5098 mean_circ: 0.906881
Ran for 430550 frames Cell Events: 5104 mean_circ: 0.906915
Ran for 431550 frames Cell Events: 5113 mean_circ: 0.906928
Ran for 432050 frames Cell Events: 5117 mean_circ: 0.906938
Ran for 432550 frames Cell Events: 5119 mean_circ: 0.906948
Ran for 433050 frames Cell Events: 5127 mean_circ: 0.906935
Ran for 433550 frames Cell Events: 5132 mean_circ: 0.906941
Ran for 434050 frames Cell Events: 5140 mean_circ: 0.90694
Ran for 434550 frames Cell Events: 5147 mean_circ: 0.906913
Ran for 435050 frames Cell Events: 5156 mean_circ: 0.906914
Ran for 435550 frames Cell Events: 5165 mean_circ: 0.906969
Ran for 436050 frames Cell Events: 5170 mean_circ: 0.906986
Ran for 436550 frames Cell Events: 5174 mean_circ: 0.906983
Ran for 437050 frames Cell Events: 5179 mean_circ: 0.907003
Ran for 437550 frames Cell Events: 5184 mean_circ: 0.907018
Ran for 438050 frames Cell Events: 5187 mean_circ: 0.90704
Ran for 438550 frames Cell Events: 5192 mean_circ: 0.907027
Ran for 439050 frames Cell Events: 5199 mean_circ: 0.907062
Ran for 439550 frames Cell Events: 5205 mean_circ: 0.907083
Ran for 440050 frames Cell Events: 5211 mean_circ: 0.90709
Ran for 441050 frames Cell Events: 5221 mean_circ: 0.907065
Ran for 441550 frames Cell Events: 5228 mean_circ: 0.907076
Ran for 442050 frames Cell Events: 5230 mean_circ: 0.907076
Ran for 442550 frames Cell Events: 5233 mean_circ: 0.90709
Ran for 443050 frames Cell Events: 5239 mean_circ: 0.907057
Ran for 444050 frames Cell Events: 5254 mean_circ: 0.907065
Ran for 445050 frames Cell Events: 5268 mean_circ: 0.907062
Ran for 445550 frames Cell Events: 5271 mean_circ: 0.907088
Ran for 447050 frames Cell Events: 5299 mean_circ: 0.907094
Ran for 447550 frames Cell Events: 5304 mean_circ: 0.907089
Ran for 448050 frames Cell Events: 5309 mean_circ: 0.90708
Ran for 448550 frames Cell Events: 5311 mean_circ: 0.907074
Ran for 449050 frames Cell Events: 5318 mean_circ: 0.907095
Ran for 449550 frames Cell Events: 5320 mean_circ: 0.907098
Ran for 450050 frames Cell Events: 5328 mean_circ: 0.907136
Ran for 450550 frames Cell Events: 5339 mean_circ: 0.907136
Ran for 451550 frames Cell Events: 5351 mean_circ: 0.907138
Ran for 453050 frames Cell Events: 5383 mean_circ: 0.907186
Ran for 454050 frames Cell Events: 5400 mean_circ: 0.907224
End this measurment..
Stopping time: 1.77439e+009
****************************************
Measurement finished
Mean Circularitiy: 0.907221
Mean Area: 1020.23
Mean FL-1 intensity: 5775.03
Mean FL-2 intensity: 8076.13
Mean FL-3 intensity: 0
frames processed: 450768
Total Time: 227311ms
Number of Runs (new bg img) 0
Frames collected: 454525
Skipped frames: 191867
Rescued Frames: 7073890
Samples DAQ: 113632060
Samples written: 227262226
Samples per Channel: 113631113
FPS: 1999.57
Samples per second: 499893
Expected samples/s: 500000
Events: 5404
Events per second: 23.7736
jumped back (PMT): 11
#Frames read, frequency
# 0 frames :583501
# 1 frames :303131
# 2 frames :6466
# 3 frames :2752
# 4 frames :1482
# 5 frames :1202
# 6 frames :1171
# 7 frames :1849
# 8 frames :1387
# 9 frames :965
# 10 frames :749
# 11 frames :734
# 12 frames :729
# 13 frames :562
# 14 frames :398
# 15 frames :298
# 16 frames :269
# 17 frames :203
# 18 frames :216
# 19 frames :149
# 20 frames :168
# 21 frames :120
# 22 frames :95
# 23 frames :66
# 24 frames :44
# 25 frames :34
# 26 frames :35
# 27 frames :46
# 28 frames :28
# 29 frames :33
# 30 frames :27
# 31 frames :19
# 32 frames :20
# 33 frames :11
# 34 frames :4
# 35 frames :3
# 36 frames :1
# 37 frames :1
# 38 frames :2
# 39 frames :1
# 40 frames :2
# 41 frames :1
# 42 frames :3
# 43 frames :3
# 44 frames :2
# 45 frames :1
# 54 frames :1
# 55 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] = 25.2049
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 | b7d69bc975832c552d17e3e2161efc50 |
format | RT-FDC |
id | 89777318-451a-4863-94a1-0883a9bdaba4 |
metadata modified | 3 months ago |
mimetype | RT-DC |
package id | cb1b71f2-24a6-49c5-8d27-b6fb1c391da7 |
position | 0 |
s3 available | True |
s3 url | https://objectstore.hpccloud.mpcdf.mpg.de/circle-8a23b5b7-6d86-46b7-9833-62373e9ec110/resource/897/773/18-451a-4863-94a1-0883a9bdaba4 |
sha256 | 2c4ef182a85d19a815f031b09f43e2a8b5c650c1fe19efd1d5d80b4cc77ddc09 |
size | 100 MiB |
dc:experiment:date | 2017-06-04 |
dc:experiment:event count | 5,403 |
dc:experiment:run identifier | None-ead3 |
dc:experiment:run index | 1 |
dc:experiment:sample | 20170604_2112_dsRNA_H5_faster |
dc:experiment:time | 21:12:23 |
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 |