20170616_1324_phos1_N1.rtdc
Click on the log titles below to expand the log entries present in this DC resource.
dclab-export_2024-07-10_18.06.17
{"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": "e35497a9e701cedddfa801dadc98067c",
"name": "M1_20170616_1324_dsRNA_N1_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": "16:06:42"
}
}
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] = 25.0675
Start pulse train for BG Aquisition..
Now refreshing the background image stored in the framegrabber
STATE: 3
Starting time: 2.09631e+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 50 frames Cell Events: 0 mean_circ: 0.938614
Ran for 550 frames Cell Events: 8 mean_circ: 0.938526
Ran for 1050 frames Cell Events: 20 mean_circ: 0.924183
Ran for 2550 frames Cell Events: 47 mean_circ: 0.925657
Ran for 3550 frames Cell Events: 71 mean_circ: 0.923827
Ran for 4050 frames Cell Events: 77 mean_circ: 0.926177
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Ran for 33050 frames Cell Events: 580 mean_circ: 0.925296
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Ran for 72550 frames Cell Events: 1340 mean_circ: 0.924058
Ran for 73050 frames Cell Events: 1350 mean_circ: 0.924174
Ran for 73550 frames Cell Events: 1365 mean_circ: 0.924261
Ran for 74050 frames Cell Events: 1370 mean_circ: 0.92434
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Ran for 76050 frames Cell Events: 1407 mean_circ: 0.923957
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Ran for 77050 frames Cell Events: 1419 mean_circ: 0.92423
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Ran for 78050 frames Cell Events: 1442 mean_circ: 0.924426
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Ran for 82550 frames Cell Events: 1545 mean_circ: 0.924387
Ran for 83550 frames Cell Events: 1564 mean_circ: 0.924369
Ran for 84050 frames Cell Events: 1570 mean_circ: 0.924328
Ran for 84550 frames Cell Events: 1577 mean_circ: 0.924321
Ran for 85550 frames Cell Events: 1597 mean_circ: 0.924118
Ran for 86050 frames Cell Events: 1603 mean_circ: 0.924067
Ran for 86550 frames Cell Events: 1611 mean_circ: 0.923803
Ran for 87050 frames Cell Events: 1621 mean_circ: 0.923831
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Ran for 91550 frames Cell Events: 1731 mean_circ: 0.92388
Ran for 92050 frames Cell Events: 1745 mean_circ: 0.924028
Ran for 92550 frames Cell Events: 1752 mean_circ: 0.923978
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Ran for 93550 frames Cell Events: 1765 mean_circ: 0.923769
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Ran for 99550 frames Cell Events: 1915 mean_circ: 0.924462
Ran for 100050 frames Cell Events: 1928 mean_circ: 0.924489
Ran for 100550 frames Cell Events: 1932 mean_circ: 0.924335
Ran for 101050 frames Cell Events: 1934 mean_circ: 0.924361
Ran for 101550 frames Cell Events: 1937 mean_circ: 0.924321
Ran for 102550 frames Cell Events: 1953 mean_circ: 0.92426
Ran for 103550 frames Cell Events: 1972 mean_circ: 0.924255
Ran for 104050 frames Cell Events: 1979 mean_circ: 0.924283
Ran for 104550 frames Cell Events: 1987 mean_circ: 0.924423
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Ran for 121550 frames Cell Events: 2313 mean_circ: 0.923556
Ran for 122050 frames Cell Events: 2324 mean_circ: 0.923629
Ran for 122550 frames Cell Events: 2335 mean_circ: 0.92366
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Ran for 123550 frames Cell Events: 2356 mean_circ: 0.923555
Ran for 124050 frames Cell Events: 2364 mean_circ: 0.923507
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Ran for 167050 frames Cell Events: 3361 mean_circ: 0.923915
Ran for 167550 frames Cell Events: 3365 mean_circ: 0.923908
Ran for 168550 frames Cell Events: 3383 mean_circ: 0.923909
Ran for 169050 frames Cell Events: 3393 mean_circ: 0.924
Ran for 171050 frames Cell Events: 3437 mean_circ: 0.924025
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Ran for 406050 frames Cell Events: 8961 mean_circ: 0.922077
Ran for 406550 frames Cell Events: 8974 mean_circ: 0.92211
Ran for 407050 frames Cell Events: 8981 mean_circ: 0.922111
Ran for 407550 frames Cell Events: 8990 mean_circ: 0.922127
Ran for 408050 frames Cell Events: 9005 mean_circ: 0.922095
Ran for 408550 frames Cell Events: 9016 mean_circ: 0.922108
Ran for 409050 frames Cell Events: 9030 mean_circ: 0.922051
Ran for 409550 frames Cell Events: 9037 mean_circ: 0.922034
Ran for 410050 frames Cell Events: 9042 mean_circ: 0.921993
Ran for 410550 frames Cell Events: 9053 mean_circ: 0.921997
Ran for 412050 frames Cell Events: 9101 mean_circ: 0.921981
Ran for 412550 frames Cell Events: 9114 mean_circ: 0.921983
Ran for 413050 frames Cell Events: 9129 mean_circ: 0.921937
Ran for 413550 frames Cell Events: 9145 mean_circ: 0.921965
Ran for 414050 frames Cell Events: 9158 mean_circ: 0.921952
Ran for 414550 frames Cell Events: 9164 mean_circ: 0.921983
Ran for 415050 frames Cell Events: 9177 mean_circ: 0.921976
Ran for 416050 frames Cell Events: 9203 mean_circ: 0.922025
Ran for 416550 frames Cell Events: 9217 mean_circ: 0.922056
Ran for 417050 frames Cell Events: 9229 mean_circ: 0.922058
Ran for 417550 frames Cell Events: 9241 mean_circ: 0.922064
Ran for 418050 frames Cell Events: 9254 mean_circ: 0.922076
Ran for 418550 frames Cell Events: 9271 mean_circ: 0.922052
Ran for 419550 frames Cell Events: 9310 mean_circ: 0.922061
Ran for 420050 frames Cell Events: 9327 mean_circ: 0.922052
Ran for 420550 frames Cell Events: 9348 mean_circ: 0.922095
Ran for 421050 frames Cell Events: 9358 mean_circ: 0.922081
Ran for 422050 frames Cell Events: 9392 mean_circ: 0.922075
Ran for 422550 frames Cell Events: 9395 mean_circ: 0.922083
Ran for 423050 frames Cell Events: 9402 mean_circ: 0.922111
Ran for 423550 frames Cell Events: 9409 mean_circ: 0.922078
Ran for 424050 frames Cell Events: 9422 mean_circ: 0.922028
Ran for 424550 frames Cell Events: 9436 mean_circ: 0.922015
Ran for 425050 frames Cell Events: 9445 mean_circ: 0.922027
Ran for 425550 frames Cell Events: 9451 mean_circ: 0.922034
Ran for 426050 frames Cell Events: 9461 mean_circ: 0.922047
Ran for 426550 frames Cell Events: 9469 mean_circ: 0.922029
Ran for 427050 frames Cell Events: 9480 mean_circ: 0.922003
Ran for 427550 frames Cell Events: 9489 mean_circ: 0.922016
Ran for 428050 frames Cell Events: 9499 mean_circ: 0.92201
Ran for 428550 frames Cell Events: 9508 mean_circ: 0.922017
Ran for 429050 frames Cell Events: 9516 mean_circ: 0.922006
Ran for 429550 frames Cell Events: 9526 mean_circ: 0.922013
Ran for 430050 frames Cell Events: 9532 mean_circ: 0.922008
Ran for 430550 frames Cell Events: 9540 mean_circ: 0.922012
Ran for 431550 frames Cell Events: 9564 mean_circ: 0.922079
Ran for 432050 frames Cell Events: 9575 mean_circ: 0.922089
Ran for 432550 frames Cell Events: 9593 mean_circ: 0.922143
Ran for 433550 frames Cell Events: 9623 mean_circ: 0.922155
Ran for 434050 frames Cell Events: 9633 mean_circ: 0.922163
Ran for 434550 frames Cell Events: 9646 mean_circ: 0.922181
Ran for 435050 frames Cell Events: 9658 mean_circ: 0.922178
Ran for 435550 frames Cell Events: 9667 mean_circ: 0.922173
Ran for 436050 frames Cell Events: 9685 mean_circ: 0.922102
Ran for 436550 frames Cell Events: 9698 mean_circ: 0.922103
Ran for 437050 frames Cell Events: 9714 mean_circ: 0.922105
Ran for 437550 frames Cell Events: 9727 mean_circ: 0.922131
Ran for 438050 frames Cell Events: 9737 mean_circ: 0.922133
Ran for 438550 frames Cell Events: 9751 mean_circ: 0.922114
Ran for 440050 frames Cell Events: 9800 mean_circ: 0.922121
Ran for 440550 frames Cell Events: 9810 mean_circ: 0.922155
Ran for 441550 frames Cell Events: 9839 mean_circ: 0.922143
Ran for 442050 frames Cell Events: 9849 mean_circ: 0.922107
Ran for 442550 frames Cell Events: 9851 mean_circ: 0.922112
Ran for 443050 frames Cell Events: 9868 mean_circ: 0.922107
Ran for 443550 frames Cell Events: 9877 mean_circ: 0.922132
Ran for 444050 frames Cell Events: 9892 mean_circ: 0.922098
Ran for 444550 frames Cell Events: 9915 mean_circ: 0.922065
End this measurment..
Stopping time: 2.09854e+008
****************************************
Measurement finished
Mean Circularitiy: 0.922078
Mean Area: 582.724
Mean FL-1 intensity: 2921.87
Mean FL-2 intensity: 3949.1
Mean FL-3 intensity: 0
frames processed: 444043
Total Time: 222426ms
Number of Runs (new bg img) 0
Frames collected: 444696
Skipped frames: 2760
Rescued Frames: 362777
Samples DAQ: 111173925
Samples written: 222347736
Samples per Channel: 111173868
FPS: 1999.3
Samples per second: 499823
Expected samples/s: 500000
Events: 9917
Events per second: 44.5855
jumped back (PMT): 7271
#Frames read, frequency
# 0 frames :598065
# 1 frames :264100
# 2 frames :7613
# 3 frames :3440
# 4 frames :1630
# 5 frames :1219
# 6 frames :1229
# 7 frames :2249
# 8 frames :1628
# 9 frames :1055
# 10 frames :2009
# 11 frames :1309
# 12 frames :905
# 13 frames :523
# 14 frames :395
# 15 frames :318
# 16 frames :289
# 17 frames :309
# 18 frames :236
# 19 frames :136
# 20 frames :107
# 21 frames :99
# 22 frames :81
# 23 frames :60
# 24 frames :62
# 25 frames :38
# 26 frames :36
# 27 frames :20
# 28 frames :25
# 29 frames :18
# 30 frames :29
# 31 frames :16
# 32 frames :8
# 33 frames :16
# 34 frames :5
# 35 frames :12
# 36 frames :3
# 37 frames :10
# 38 frames :6
# 39 frames :3
# 40 frames :5
# 41 frames :3
# 42 frames :3
# 43 frames :3
# 44 frames :1
# 45 frames :1
# 47 frames :1
# 48 frames :2
# 49 frames :1
# 50 frames :1
# 52 frames :1
# 53 frames :1
# 55 frames :2
# 56 frames :2
# 59 frames :1
# 61 frames :1
# 63 frames :1
# 65 frames :1
# 78 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 = 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] = 25.0675
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 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 | 1 month ago |
etag | a9f7b84e285b83866ec0ff2145712f33 |
format | RT-FDC |
id | 51609e9d-a513-4e0d-a94e-79e03211c038 |
metadata modified | 1 month ago |
mimetype | RT-DC |
package id | 79ad3c00-1ee4-4f91-b64a-1564b629681a |
position | 2 |
s3 available | True |
s3 url | https://objectstore.hpccloud.mpcdf.mpg.de/circle-5d2846fc-f12d-45de-96d1-e1eea06e16c7/resource/516/09e/9d-a513-4e0d-a94e-79e03211c038 |
sha256 | 937ff2277adcfe756c59f53cff19957cac33b00b78d6581ffc7061663b1bb057 |
size | 171.7 MiB |
dc:experiment:date | 2017-06-16 |
dc:experiment:event count | 9,916 |
dc:experiment:run identifier | None-6c4b |
dc:experiment:run index | 1 |
dc:experiment:sample | 20170616_1324_dsRNA_N1_col |
dc:experiment:time | 13:24:44 |
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 |