M1_20170604_1825_dsRNA_F1_faster.rtdc
Click on the log titles below to expand the log entries present in this DC resource.
dclab-export_2024-07-10_12.51.13
{"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": "57bcc60c2807deb8c84927d85756f62c",
"name": "M1_20170604_1825_dsRNA_F1_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": "10:51:36"
}
}
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] = 25.3227
Start pulse train for BG Aquisition..
Now refreshing the background image stored in the framegrabber
STATE: 3
Starting time: 1.76417e+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: 0.930483
Ran for 1050 frames Cell Events: 23 mean_circ: 0.917666
Ran for 1550 frames Cell Events: 31 mean_circ: 0.924249
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Ran for 408550 frames Cell Events: 8042 mean_circ: 0.920214
Ran for 409050 frames Cell Events: 8056 mean_circ: 0.920209
Ran for 409550 frames Cell Events: 8073 mean_circ: 0.920203
Ran for 410050 frames Cell Events: 8087 mean_circ: 0.920197
Ran for 411050 frames Cell Events: 8109 mean_circ: 0.920225
Ran for 411550 frames Cell Events: 8115 mean_circ: 0.920237
Ran for 412050 frames Cell Events: 8127 mean_circ: 0.920177
Ran for 413050 frames Cell Events: 8143 mean_circ: 0.920204
Ran for 413550 frames Cell Events: 8155 mean_circ: 0.920211
Ran for 414050 frames Cell Events: 8169 mean_circ: 0.92023
Ran for 414550 frames Cell Events: 8181 mean_circ: 0.920247
Ran for 415050 frames Cell Events: 8187 mean_circ: 0.920233
Ran for 415550 frames Cell Events: 8198 mean_circ: 0.920225
Ran for 416050 frames Cell Events: 8211 mean_circ: 0.920202
Ran for 417050 frames Cell Events: 8231 mean_circ: 0.920172
Ran for 418050 frames Cell Events: 8254 mean_circ: 0.920091
Ran for 420050 frames Cell Events: 8296 mean_circ: 0.920144
Ran for 420550 frames Cell Events: 8305 mean_circ: 0.920147
Ran for 421050 frames Cell Events: 8315 mean_circ: 0.920116
Ran for 421550 frames Cell Events: 8332 mean_circ: 0.920138
Ran for 422050 frames Cell Events: 8343 mean_circ: 0.920129
Ran for 422550 frames Cell Events: 8347 mean_circ: 0.92014
Ran for 423050 frames Cell Events: 8362 mean_circ: 0.920127
Ran for 423550 frames Cell Events: 8376 mean_circ: 0.920071
Ran for 424050 frames Cell Events: 8388 mean_circ: 0.920079
Ran for 424550 frames Cell Events: 8397 mean_circ: 0.920096
Ran for 425550 frames Cell Events: 8420 mean_circ: 0.920062
Ran for 426550 frames Cell Events: 8440 mean_circ: 0.920103
Ran for 427050 frames Cell Events: 8450 mean_circ: 0.920101
Ran for 427550 frames Cell Events: 8462 mean_circ: 0.920127
Ran for 428050 frames Cell Events: 8469 mean_circ: 0.920144
Ran for 428550 frames Cell Events: 8479 mean_circ: 0.920154
Ran for 429050 frames Cell Events: 8482 mean_circ: 0.92015
Ran for 430050 frames Cell Events: 8509 mean_circ: 0.920178
Ran for 430550 frames Cell Events: 8516 mean_circ: 0.920192
Ran for 431050 frames Cell Events: 8522 mean_circ: 0.920206
Ran for 431550 frames Cell Events: 8530 mean_circ: 0.920143
Ran for 432050 frames Cell Events: 8542 mean_circ: 0.920141
Ran for 433050 frames Cell Events: 8570 mean_circ: 0.920064
Ran for 433550 frames Cell Events: 8583 mean_circ: 0.92002
Ran for 434050 frames Cell Events: 8598 mean_circ: 0.920043
Ran for 434550 frames Cell Events: 8617 mean_circ: 0.920065
Ran for 435050 frames Cell Events: 8625 mean_circ: 0.920077
Ran for 435550 frames Cell Events: 8639 mean_circ: 0.920109
Ran for 436050 frames Cell Events: 8647 mean_circ: 0.92012
Ran for 436550 frames Cell Events: 8655 mean_circ: 0.920095
Ran for 437050 frames Cell Events: 8667 mean_circ: 0.920096
Ran for 437550 frames Cell Events: 8675 mean_circ: 0.92012
Ran for 438050 frames Cell Events: 8689 mean_circ: 0.920091
Ran for 438550 frames Cell Events: 8696 mean_circ: 0.9201
Ran for 439050 frames Cell Events: 8706 mean_circ: 0.920143
Ran for 439550 frames Cell Events: 8720 mean_circ: 0.920162
Ran for 440550 frames Cell Events: 8745 mean_circ: 0.920183
Ran for 441050 frames Cell Events: 8755 mean_circ: 0.920205
Ran for 442050 frames Cell Events: 8784 mean_circ: 0.920225
Ran for 442550 frames Cell Events: 8792 mean_circ: 0.920244
Ran for 443050 frames Cell Events: 8798 mean_circ: 0.920254
Ran for 443550 frames Cell Events: 8815 mean_circ: 0.920276
Ran for 444050 frames Cell Events: 8827 mean_circ: 0.920306
Ran for 444550 frames Cell Events: 8842 mean_circ: 0.920316
Ran for 445050 frames Cell Events: 8856 mean_circ: 0.920298
Ran for 445550 frames Cell Events: 8867 mean_circ: 0.920281
Ran for 446050 frames Cell Events: 8877 mean_circ: 0.92028
Ran for 446550 frames Cell Events: 8887 mean_circ: 0.920272
Ran for 447050 frames Cell Events: 8900 mean_circ: 0.920257
Ran for 447550 frames Cell Events: 8916 mean_circ: 0.920251
Ran for 448050 frames Cell Events: 8930 mean_circ: 0.920255
Ran for 448550 frames Cell Events: 8936 mean_circ: 0.920243
Ran for 449050 frames Cell Events: 8942 mean_circ: 0.920237
Ran for 449550 frames Cell Events: 8954 mean_circ: 0.920205
Ran for 450550 frames Cell Events: 8985 mean_circ: 0.920216
Ran for 451050 frames Cell Events: 9002 mean_circ: 0.920203
Ran for 451550 frames Cell Events: 9010 mean_circ: 0.920196
Ran for 452050 frames Cell Events: 9020 mean_circ: 0.920188
Ran for 452550 frames Cell Events: 9037 mean_circ: 0.920202
Ran for 453050 frames Cell Events: 9042 mean_circ: 0.920184
Ran for 453550 frames Cell Events: 9053 mean_circ: 0.920173
Ran for 454050 frames Cell Events: 9060 mean_circ: 0.920145
Ran for 454550 frames Cell Events: 9071 mean_circ: 0.920156
Ran for 455050 frames Cell Events: 9080 mean_circ: 0.920169
Ran for 455550 frames Cell Events: 9088 mean_circ: 0.920152
Ran for 456550 frames Cell Events: 9112 mean_circ: 0.920138
Ran for 457050 frames Cell Events: 9118 mean_circ: 0.920156
Ran for 457550 frames Cell Events: 9136 mean_circ: 0.920141
Ran for 458050 frames Cell Events: 9149 mean_circ: 0.920102
Ran for 458550 frames Cell Events: 9163 mean_circ: 0.920139
Ran for 459050 frames Cell Events: 9172 mean_circ: 0.920156
Ran for 460050 frames Cell Events: 9211 mean_circ: 0.920117
Ran for 460550 frames Cell Events: 9228 mean_circ: 0.920106
Ran for 461050 frames Cell Events: 9237 mean_circ: 0.920099
Ran for 461550 frames Cell Events: 9245 mean_circ: 0.920083
Ran for 462550 frames Cell Events: 9268 mean_circ: 0.920081
Ran for 463050 frames Cell Events: 9278 mean_circ: 0.9201
Ran for 463550 frames Cell Events: 9293 mean_circ: 0.920101
Ran for 464050 frames Cell Events: 9305 mean_circ: 0.920098
Ran for 464550 frames Cell Events: 9321 mean_circ: 0.920088
Ran for 465050 frames Cell Events: 9331 mean_circ: 0.920131
Ran for 466550 frames Cell Events: 9370 mean_circ: 0.920202
Ran for 467050 frames Cell Events: 9374 mean_circ: 0.920194
Ran for 468050 frames Cell Events: 9390 mean_circ: 0.920189
Ran for 468550 frames Cell Events: 9396 mean_circ: 0.920195
Ran for 469550 frames Cell Events: 9426 mean_circ: 0.920228
Ran for 470050 frames Cell Events: 9436 mean_circ: 0.920201
Ran for 470550 frames Cell Events: 9448 mean_circ: 0.920204
Ran for 471050 frames Cell Events: 9460 mean_circ: 0.920214
Ran for 471550 frames Cell Events: 9472 mean_circ: 0.920234
Ran for 472550 frames Cell Events: 9495 mean_circ: 0.920267
Ran for 473050 frames Cell Events: 9509 mean_circ: 0.920245
Ran for 474050 frames Cell Events: 9528 mean_circ: 0.920236
Ran for 474550 frames Cell Events: 9541 mean_circ: 0.920257
Ran for 475050 frames Cell Events: 9549 mean_circ: 0.920224
Ran for 476050 frames Cell Events: 9584 mean_circ: 0.920234
Ran for 476550 frames Cell Events: 9596 mean_circ: 0.920254
Ran for 477550 frames Cell Events: 9627 mean_circ: 0.920272
Ran for 478050 frames Cell Events: 9640 mean_circ: 0.920277
Ran for 478550 frames Cell Events: 9651 mean_circ: 0.920316
Ran for 479550 frames Cell Events: 9667 mean_circ: 0.920331
Ran for 480050 frames Cell Events: 9679 mean_circ: 0.920324
Ran for 480550 frames Cell Events: 9694 mean_circ: 0.92031
Ran for 481050 frames Cell Events: 9706 mean_circ: 0.920291
Ran for 482050 frames Cell Events: 9726 mean_circ: 0.920316
End this measurment..
Stopping time: 1.76441e+009
****************************************
Measurement finished
Mean Circularitiy: 0.920317
Mean Area: 636.171
Mean FL-1 intensity: 4293.8
Mean FL-2 intensity: 6138.34
Mean FL-3 intensity: 0
frames processed: 480292
Total Time: 241320ms
Number of Runs (new bg img) 0
Frames collected: 482522
Skipped frames: 127881
Rescued Frames: 4432040
Samples DAQ: 120630461
Samples written: 241260786
Samples per Channel: 120630393
FPS: 1999.51
Samples per second: 499877
Expected samples/s: 500000
Events: 9745
Events per second: 40.382
jumped back (PMT): 27
#Frames read, frequency
# 0 frames :632634
# 1 frames :304816
# 2 frames :7894
# 3 frames :3119
# 4 frames :1615
# 5 frames :1109
# 6 frames :2004
# 7 frames :2966
# 8 frames :2067
# 9 frames :1320
# 10 frames :898
# 11 frames :813
# 12 frames :927
# 13 frames :663
# 14 frames :486
# 15 frames :337
# 16 frames :233
# 17 frames :220
# 18 frames :161
# 19 frames :109
# 20 frames :107
# 21 frames :91
# 22 frames :98
# 23 frames :84
# 24 frames :49
# 25 frames :34
# 26 frames :28
# 27 frames :33
# 28 frames :12
# 29 frames :19
# 30 frames :17
# 31 frames :7
# 32 frames :10
# 33 frames :2
# 34 frames :3
# 35 frames :9
# 36 frames :5
# 37 frames :7
# 40 frames :2
# 41 frames :3
# 43 frames :1
# 44 frames :2
# 46 frames :3
# 50 frames :1
# 51 frames :1
# 52 frames :1
# 67 frames :1
# 73 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] = 25.3227
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 | fdb00b40d523581324b9289f1942e33d |
format | RT-FDC |
id | ec51ae16-d0ab-4a95-96ff-b1a25633e191 |
metadata modified | 3 months ago |
mimetype | RT-DC |
package id | 297dae81-0b46-41ef-bfa5-5207313f4957 |
position | 0 |
s3 available | True |
s3 url | https://objectstore.hpccloud.mpcdf.mpg.de/circle-8a23b5b7-6d86-46b7-9833-62373e9ec110/resource/ec5/1ae/16-d0ab-4a95-96ff-b1a25633e191 |
sha256 | 325ef71ffc640ec0d577f55995a4a71f117196bc395261ec8b37e02cad2da1ae |
size | 168.4 MiB |
dc:experiment:date | 2017-06-04 |
dc:experiment:event count | 9,744 |
dc:experiment:run identifier | None-bcd2 |
dc:experiment:run index | 1 |
dc:experiment:sample | 20170604_1825_dsRNA_F1_faster |
dc:experiment:time | 18:25:58 |
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 |