M1_20170618_1616_dsRNA_R3_faster.rtdc
Click on the log titles below to expand the log entries present in this DC resource.
dclab-export_2024-07-10_18.49.56
{"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": "29bc39e96b3a7414cfe4ffb2b4304b8d",
"name": "M1_20170618_1616_dsRNA_R3_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": "16:50:10"
}
}
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] = 25.0187
Start pulse train for BG Aquisition..
Now refreshing the background image stored in the framegrabber
STATE: 3
Starting time: 3.92719e+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: 0.919857
Ran for 550 frames Cell Events: 4 mean_circ: 0.889359
Ran for 1050 frames Cell Events: 16 mean_circ: 0.903488
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Ran for 719050 frames Cell Events: 5101 mean_circ: 0.905219
Ran for 719550 frames Cell Events: 5101 mean_circ: 0.905212
Ran for 720050 frames Cell Events: 5103 mean_circ: 0.905204
Ran for 720550 frames Cell Events: 5105 mean_circ: 0.905222
Ran for 721050 frames Cell Events: 5107 mean_circ: 0.905243
Ran for 721550 frames Cell Events: 5110 mean_circ: 0.905227
Ran for 722050 frames Cell Events: 5114 mean_circ: 0.905229
Ran for 722550 frames Cell Events: 5115 mean_circ: 0.905227
Ran for 723050 frames Cell Events: 5117 mean_circ: 0.905233
Ran for 723550 frames Cell Events: 5119 mean_circ: 0.905226
Ran for 724050 frames Cell Events: 5121 mean_circ: 0.905227
Ran for 724550 frames Cell Events: 5125 mean_circ: 0.905217
Ran for 725550 frames Cell Events: 5137 mean_circ: 0.905224
Ran for 726050 frames Cell Events: 5141 mean_circ: 0.905207
Ran for 726550 frames Cell Events: 5143 mean_circ: 0.905206
Ran for 727050 frames Cell Events: 5145 mean_circ: 0.905183
Ran for 727550 frames Cell Events: 5152 mean_circ: 0.905158
Ran for 728050 frames Cell Events: 5155 mean_circ: 0.905157
Ran for 728550 frames Cell Events: 5160 mean_circ: 0.905181
Ran for 729050 frames Cell Events: 5164 mean_circ: 0.905198
Ran for 729550 frames Cell Events: 5169 mean_circ: 0.905211
Ran for 730050 frames Cell Events: 5170 mean_circ: 0.905211
Ran for 730550 frames Cell Events: 5172 mean_circ: 0.905205
Ran for 731050 frames Cell Events: 5173 mean_circ: 0.905206
Ran for 731550 frames Cell Events: 5181 mean_circ: 0.905222
Ran for 732050 frames Cell Events: 5188 mean_circ: 0.905246
Ran for 732550 frames Cell Events: 5191 mean_circ: 0.905241
Ran for 733050 frames Cell Events: 5195 mean_circ: 0.905256
Ran for 733550 frames Cell Events: 5197 mean_circ: 0.90527
Ran for 734050 frames Cell Events: 5199 mean_circ: 0.905272
Ran for 734550 frames Cell Events: 5200 mean_circ: 0.905278
Ran for 735050 frames Cell Events: 5203 mean_circ: 0.90531
Ran for 735550 frames Cell Events: 5211 mean_circ: 0.905301
Ran for 736050 frames Cell Events: 5215 mean_circ: 0.905297
Ran for 736550 frames Cell Events: 5217 mean_circ: 0.905307
Ran for 737050 frames Cell Events: 5224 mean_circ: 0.905299
Ran for 737550 frames Cell Events: 5226 mean_circ: 0.905294
Ran for 738050 frames Cell Events: 5231 mean_circ: 0.905307
Ran for 738550 frames Cell Events: 5232 mean_circ: 0.905308
Ran for 739050 frames Cell Events: 5234 mean_circ: 0.905303
Ran for 739550 frames Cell Events: 5239 mean_circ: 0.905311
Ran for 740050 frames Cell Events: 5243 mean_circ: 0.905286
Ran for 740550 frames Cell Events: 5244 mean_circ: 0.905286
Ran for 741050 frames Cell Events: 5245 mean_circ: 0.905306
Ran for 741550 frames Cell Events: 5246 mean_circ: 0.90531
Ran for 742050 frames Cell Events: 5246 mean_circ: 0.90531
Ran for 742550 frames Cell Events: 5248 mean_circ: 0.905289
Ran for 743050 frames Cell Events: 5248 mean_circ: 0.905289
Ran for 743550 frames Cell Events: 5249 mean_circ: 0.905288
Ran for 744050 frames Cell Events: 5252 mean_circ: 0.905298
Ran for 744550 frames Cell Events: 5257 mean_circ: 0.905303
Ran for 745050 frames Cell Events: 5263 mean_circ: 0.905324
Ran for 745550 frames Cell Events: 5274 mean_circ: 0.905338
Ran for 746050 frames Cell Events: 5281 mean_circ: 0.905332
Ran for 746550 frames Cell Events: 5283 mean_circ: 0.905322
Ran for 747050 frames Cell Events: 5292 mean_circ: 0.905356
Ran for 747550 frames Cell Events: 5297 mean_circ: 0.905396
Ran for 748050 frames Cell Events: 5301 mean_circ: 0.905421
Ran for 748550 frames Cell Events: 5301 mean_circ: 0.905408
Ran for 749050 frames Cell Events: 5307 mean_circ: 0.905417
Ran for 749550 frames Cell Events: 5307 mean_circ: 0.905419
Ran for 750050 frames Cell Events: 5311 mean_circ: 0.9054
Ran for 750550 frames Cell Events: 5317 mean_circ: 0.905394
Ran for 751050 frames Cell Events: 5319 mean_circ: 0.90541
Ran for 751550 frames Cell Events: 5320 mean_circ: 0.905407
Ran for 752050 frames Cell Events: 5320 mean_circ: 0.905407
Ran for 752550 frames Cell Events: 5324 mean_circ: 0.905397
Ran for 753050 frames Cell Events: 5324 mean_circ: 0.905397
Ran for 753550 frames Cell Events: 5324 mean_circ: 0.905397
Ran for 754050 frames Cell Events: 5326 mean_circ: 0.905404
Ran for 754550 frames Cell Events: 5328 mean_circ: 0.905405
Ran for 755050 frames Cell Events: 5336 mean_circ: 0.905387
Ran for 755550 frames Cell Events: 5338 mean_circ: 0.905404
Ran for 756050 frames Cell Events: 5338 mean_circ: 0.905404
Ran for 757050 frames Cell Events: 5352 mean_circ: 0.905404
Ran for 757550 frames Cell Events: 5355 mean_circ: 0.90541
Ran for 758050 frames Cell Events: 5355 mean_circ: 0.90541
Ran for 758550 frames Cell Events: 5358 mean_circ: 0.905402
Ran for 759050 frames Cell Events: 5361 mean_circ: 0.905397
Ran for 759550 frames Cell Events: 5365 mean_circ: 0.905344
Ran for 760050 frames Cell Events: 5366 mean_circ: 0.905326
Ran for 760550 frames Cell Events: 5369 mean_circ: 0.905351
Ran for 761050 frames Cell Events: 5370 mean_circ: 0.905333
Ran for 761550 frames Cell Events: 5371 mean_circ: 0.905347
Ran for 762050 frames Cell Events: 5377 mean_circ: 0.905373
Ran for 762550 frames Cell Events: 5383 mean_circ: 0.905371
Ran for 763050 frames Cell Events: 5392 mean_circ: 0.905369
Ran for 763550 frames Cell Events: 5395 mean_circ: 0.905359
Ran for 764050 frames Cell Events: 5401 mean_circ: 0.905355
Ran for 764550 frames Cell Events: 5405 mean_circ: 0.905356
Ran for 765050 frames Cell Events: 5409 mean_circ: 0.905369
Ran for 765550 frames Cell Events: 5410 mean_circ: 0.905333
Ran for 766050 frames Cell Events: 5412 mean_circ: 0.905315
Ran for 766550 frames Cell Events: 5413 mean_circ: 0.905278
End this measurment..
Stopping time: 3.93103e+008
****************************************
Measurement finished
Mean Circularitiy: 0.905282
Mean Area: 1461.86
Mean FL-1 intensity: 6032.07
Mean FL-2 intensity: 7898.94
Mean FL-3 intensity: 0
frames processed: 765742
Total Time: 383447ms
Number of Runs (new bg img) 0
Frames collected: 766740
Skipped frames: 18273
Rescued Frames: 2949234
Samples DAQ: 191685013
Samples written: 383369782
Samples per Channel: 191684891
FPS: 1999.6
Samples per second: 499899
Expected samples/s: 500000
Events: 5415
Events per second: 14.1219
jumped back (PMT): 8
#Frames read, frequency
# 0 frames :932464
# 1 frames :571576
# 2 frames :6759
# 3 frames :5523
# 4 frames :2091
# 5 frames :1866
# 6 frames :741
# 7 frames :1533
# 8 frames :577
# 9 frames :869
# 10 frames :2982
# 11 frames :1679
# 12 frames :1171
# 13 frames :1271
# 14 frames :581
# 15 frames :518
# 16 frames :380
# 17 frames :241
# 18 frames :169
# 19 frames :91
# 20 frames :61
# 21 frames :49
# 22 frames :42
# 23 frames :49
# 24 frames :51
# 25 frames :35
# 26 frames :32
# 27 frames :25
# 28 frames :14
# 29 frames :8
# 30 frames :6
# 31 frames :2
# 32 frames :2
# 33 frames :1
# 35 frames :2
# 37 frames :2
# 42 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] = 25.0187
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 | 967441a24d1b325d7c72dce1ac806b95 |
format | RT-FDC |
id | bb26cf5f-2232-44e7-96aa-33d6e5f8036d |
metadata modified | 3 months ago |
mimetype | RT-DC |
package id | 00e6183c-c04a-491a-bc7f-4fdfa0d242e9 |
position | 0 |
s3 available | True |
s3 url | https://objectstore.hpccloud.mpcdf.mpg.de/circle-8a23b5b7-6d86-46b7-9833-62373e9ec110/resource/bb2/6cf/5f-2232-44e7-96aa-33d6e5f8036d |
sha256 | 2ef199f10f13f9871e9d3a976016230a6b0902a7e8b77eb239ce690289280da1 |
size | 95.9 MiB |
dc:experiment:date | 2017-06-18 |
dc:experiment:event count | 5,414 |
dc:experiment:run identifier | None-8500 |
dc:experiment:run index | 1 |
dc:experiment:sample | 20170618_1616_dsRNA_R3_faster |
dc:experiment:time | 16:16:16 |
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 |