20170530_1943_phos1_A6.rtdc
Click on the log titles below to expand the log entries present in this DC resource.
dclab-export_2024-07-10_11.54.10
{"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": "83d8d5a642326cafeb1177c26840dd4d",
"name": "M1_20170530_1943_dsRNA_A6_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": "09:54:36"
}
}
dclab-tdms2rtdc-warnings
LimitingExportSizeWarningin dclab.rtdc_dataset.export line 305:
Not all features have the same length! Limiting output event count to 10001 (max 10002) in
'10001'.
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] = 24.6494
Start pulse train for BG Aquisition..
Now refreshing the background image stored in the framegrabber
STATE: 3
Starting time: 1.33681e+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 550 frames Cell Events: 10 mean_circ: 0.924325
Ran for 1550 frames Cell Events: 21 mean_circ: 0.918695
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Ran for 576050 frames Cell Events: 8909 mean_circ: 0.917571
Ran for 576550 frames Cell Events: 8922 mean_circ: 0.917555
Ran for 577050 frames Cell Events: 8939 mean_circ: 0.917598
Ran for 578550 frames Cell Events: 8984 mean_circ: 0.917623
Ran for 579050 frames Cell Events: 9007 mean_circ: 0.917623
Ran for 579550 frames Cell Events: 9017 mean_circ: 0.917652
Ran for 580050 frames Cell Events: 9025 mean_circ: 0.917645
Ran for 580550 frames Cell Events: 9036 mean_circ: 0.917596
Ran for 581050 frames Cell Events: 9046 mean_circ: 0.91765
Ran for 582050 frames Cell Events: 9063 mean_circ: 0.917661
Ran for 582550 frames Cell Events: 9070 mean_circ: 0.917647
Ran for 583050 frames Cell Events: 9084 mean_circ: 0.917669
Ran for 583550 frames Cell Events: 9092 mean_circ: 0.917681
Ran for 584050 frames Cell Events: 9099 mean_circ: 0.917711
Ran for 584550 frames Cell Events: 9115 mean_circ: 0.917734
Ran for 585050 frames Cell Events: 9128 mean_circ: 0.917681
Ran for 587050 frames Cell Events: 9173 mean_circ: 0.91767
Ran for 587550 frames Cell Events: 9180 mean_circ: 0.917697
Ran for 588050 frames Cell Events: 9186 mean_circ: 0.917684
Ran for 588550 frames Cell Events: 9196 mean_circ: 0.917682
Ran for 589050 frames Cell Events: 9209 mean_circ: 0.917703
Ran for 589550 frames Cell Events: 9226 mean_circ: 0.917679
Ran for 590050 frames Cell Events: 9242 mean_circ: 0.917662
Ran for 590550 frames Cell Events: 9252 mean_circ: 0.9177
Ran for 591050 frames Cell Events: 9264 mean_circ: 0.917709
Ran for 591550 frames Cell Events: 9270 mean_circ: 0.917733
Ran for 592050 frames Cell Events: 9284 mean_circ: 0.917756
Ran for 593550 frames Cell Events: 9309 mean_circ: 0.917787
Ran for 594050 frames Cell Events: 9311 mean_circ: 0.917788
Ran for 594550 frames Cell Events: 9319 mean_circ: 0.9178
Ran for 595050 frames Cell Events: 9328 mean_circ: 0.917798
Ran for 595550 frames Cell Events: 9338 mean_circ: 0.917836
Ran for 596050 frames Cell Events: 9352 mean_circ: 0.917811
Ran for 596550 frames Cell Events: 9362 mean_circ: 0.91781
Ran for 597050 frames Cell Events: 9366 mean_circ: 0.917818
Ran for 598550 frames Cell Events: 9403 mean_circ: 0.917767
Ran for 599050 frames Cell Events: 9410 mean_circ: 0.91777
Ran for 599550 frames Cell Events: 9424 mean_circ: 0.917792
Ran for 600550 frames Cell Events: 9444 mean_circ: 0.917774
Ran for 601050 frames Cell Events: 9449 mean_circ: 0.917778
Ran for 601550 frames Cell Events: 9463 mean_circ: 0.917782
Ran for 602050 frames Cell Events: 9478 mean_circ: 0.917766
Ran for 602550 frames Cell Events: 9486 mean_circ: 0.917761
Ran for 603050 frames Cell Events: 9503 mean_circ: 0.9177
Ran for 603550 frames Cell Events: 9510 mean_circ: 0.917731
Ran for 604050 frames Cell Events: 9517 mean_circ: 0.917692
Ran for 604550 frames Cell Events: 9523 mean_circ: 0.917696
Ran for 605050 frames Cell Events: 9532 mean_circ: 0.917715
Ran for 605550 frames Cell Events: 9539 mean_circ: 0.917731
Ran for 606050 frames Cell Events: 9546 mean_circ: 0.917706
Ran for 606550 frames Cell Events: 9548 mean_circ: 0.917702
Ran for 608050 frames Cell Events: 9586 mean_circ: 0.917695
Ran for 608550 frames Cell Events: 9589 mean_circ: 0.917621
Ran for 609550 frames Cell Events: 9611 mean_circ: 0.917667
Ran for 610050 frames Cell Events: 9617 mean_circ: 0.917653
Ran for 610550 frames Cell Events: 9624 mean_circ: 0.917666
Ran for 611050 frames Cell Events: 9633 mean_circ: 0.917643
Ran for 612050 frames Cell Events: 9651 mean_circ: 0.917655
Ran for 612550 frames Cell Events: 9659 mean_circ: 0.917651
Ran for 613050 frames Cell Events: 9669 mean_circ: 0.917679
Ran for 613550 frames Cell Events: 9673 mean_circ: 0.917704
Ran for 614550 frames Cell Events: 9696 mean_circ: 0.917609
Ran for 615050 frames Cell Events: 9702 mean_circ: 0.917611
Ran for 615550 frames Cell Events: 9710 mean_circ: 0.91764
Ran for 616050 frames Cell Events: 9718 mean_circ: 0.917631
Ran for 616550 frames Cell Events: 9722 mean_circ: 0.917626
Ran for 617550 frames Cell Events: 9744 mean_circ: 0.91768
Ran for 618050 frames Cell Events: 9756 mean_circ: 0.917691
Ran for 618550 frames Cell Events: 9763 mean_circ: 0.917708
Ran for 619050 frames Cell Events: 9770 mean_circ: 0.917736
Ran for 619550 frames Cell Events: 9781 mean_circ: 0.917716
Ran for 620050 frames Cell Events: 9791 mean_circ: 0.917731
Ran for 620550 frames Cell Events: 9800 mean_circ: 0.917736
Ran for 621050 frames Cell Events: 9807 mean_circ: 0.917733
Ran for 622050 frames Cell Events: 9818 mean_circ: 0.917719
Ran for 622550 frames Cell Events: 9821 mean_circ: 0.917726
Ran for 623050 frames Cell Events: 9830 mean_circ: 0.917731
Ran for 623550 frames Cell Events: 9836 mean_circ: 0.917747
Ran for 624050 frames Cell Events: 9843 mean_circ: 0.917745
Ran for 624550 frames Cell Events: 9852 mean_circ: 0.917771
Ran for 625550 frames Cell Events: 9867 mean_circ: 0.917758
Ran for 626050 frames Cell Events: 9873 mean_circ: 0.917744
Ran for 626550 frames Cell Events: 9881 mean_circ: 0.917766
Ran for 627050 frames Cell Events: 9885 mean_circ: 0.917773
Ran for 627550 frames Cell Events: 9890 mean_circ: 0.917779
Ran for 628050 frames Cell Events: 9893 mean_circ: 0.917776
Ran for 628550 frames Cell Events: 9896 mean_circ: 0.917734
Ran for 629050 frames Cell Events: 9903 mean_circ: 0.917752
Ran for 629550 frames Cell Events: 9912 mean_circ: 0.917687
Ran for 630050 frames Cell Events: 9917 mean_circ: 0.917687
Ran for 630550 frames Cell Events: 9922 mean_circ: 0.917695
Ran for 631050 frames Cell Events: 9927 mean_circ: 0.917687
Ran for 631550 frames Cell Events: 9937 mean_circ: 0.917665
Ran for 632050 frames Cell Events: 9943 mean_circ: 0.917685
Ran for 633050 frames Cell Events: 9960 mean_circ: 0.917672
Ran for 634050 frames Cell Events: 9980 mean_circ: 0.91765
End this measurment.
because stop condition (time/nr of cells) was met
Stopping time: 1.33713e+009
****************************************
Measurement finished
Mean Circularitiy: 0.917587
Mean Area: 784.219
Mean FL-1 intensity: 3218.54
Mean FL-2 intensity: 4445.8
Mean FL-3 intensity: 0
frames processed: 633957
Total Time: 317591ms
Number of Runs (new bg img) 0
Frames collected: 635017
Skipped frames: 88366
Rescued Frames: 4108924
Samples DAQ: 158754312
Samples written: 317508208
Samples per Channel: 158754104
FPS: 1999.48
Samples per second: 499869
Expected samples/s: 500000
Events: 10002
Events per second: 31.4933
jumped back (PMT): 7905
#Frames read, frequency
# 0 frames :809833
# 1 frames :426103
# 2 frames :10278
# 3 frames :4353
# 4 frames :2494
# 5 frames :1173
# 6 frames :1882
# 7 frames :3101
# 8 frames :2182
# 9 frames :1246
# 10 frames :1318
# 11 frames :1192
# 12 frames :1406
# 13 frames :905
# 14 frames :613
# 15 frames :395
# 16 frames :283
# 17 frames :243
# 18 frames :219
# 19 frames :212
# 20 frames :119
# 21 frames :87
# 22 frames :55
# 23 frames :38
# 24 frames :23
# 25 frames :27
# 26 frames :20
# 27 frames :16
# 28 frames :12
# 29 frames :10
# 30 frames :7
# 31 frames :8
# 32 frames :5
# 33 frames :6
# 34 frames :4
# 35 frames :2
# 36 frames :3
# 37 frames :2
# 38 frames :4
# 40 frames :1
# 41 frames :1
# 42 frames :1
# 44 frames :1
# 45 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] = 24.6494
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 | 2be24b6e42ac16920335c1e3c33bcf6f |
format | RT-FDC |
id | 176fad43-8d1b-45b3-897a-b6f2d605ce9a |
metadata modified | 3 months ago |
mimetype | RT-DC |
package id | e6a2e069-abdc-46ce-9398-3b8fa8db5a71 |
position | 2 |
s3 available | True |
s3 url | https://objectstore.hpccloud.mpcdf.mpg.de/circle-5d2846fc-f12d-45de-96d1-e1eea06e16c7/resource/176/fad/43-8d1b-45b3-897a-b6f2d605ce9a |
sha256 | 9cb8e4df2f58d1b6638d1c5773701175db50daf03bc44c866e6fb5fa51a49f88 |
size | 177.8 MiB |
dc:experiment:date | 2017-05-30 |
dc:experiment:event count | 10,000 |
dc:experiment:run identifier | None-7aaf |
dc:experiment:run index | 1 |
dc:experiment:sample | 20170530_1943_dsRNA_A6_col |
dc:experiment:time | 19:43:09 |
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 |