M1_20170618_1606_dsRNA_R3_col.rtdc
Click on the log titles below to expand the log entries present in this DC resource.
dclab-export_2024-07-10_18.49.28
{"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": "6b5be8d983e909f4736f4445093b5e5f",
"name": "M1_20170618_1606_dsRNA_R3_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": "16:49:50"
}
}
dclab-tdms2rtdc-warnings
LimitingExportSizeWarningin dclab.rtdc_dataset.export line 305:
Not all features have the same length! Limiting output event count to 8094 (max 8095) in '8094'.
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] = 25.0711
Start pulse train for BG Aquisition..
Now refreshing the background image stored in the framegrabber
STATE: 3
Starting time: 3.92157e+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 550 frames Cell Events: 10 mean_circ: 0.914039
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Ran for 926050 frames Cell Events: 7681 mean_circ: 0.919702
Ran for 926550 frames Cell Events: 7685 mean_circ: 0.919708
Ran for 927050 frames Cell Events: 7693 mean_circ: 0.919712
Ran for 927550 frames Cell Events: 7699 mean_circ: 0.919704
Ran for 928050 frames Cell Events: 7699 mean_circ: 0.919705
Ran for 928550 frames Cell Events: 7705 mean_circ: 0.919695
Ran for 929050 frames Cell Events: 7708 mean_circ: 0.919669
Ran for 929550 frames Cell Events: 7712 mean_circ: 0.91967
Ran for 930050 frames Cell Events: 7717 mean_circ: 0.91967
Ran for 930550 frames Cell Events: 7720 mean_circ: 0.919665
Ran for 931050 frames Cell Events: 7722 mean_circ: 0.919673
Ran for 932050 frames Cell Events: 7734 mean_circ: 0.919659
Ran for 932550 frames Cell Events: 7737 mean_circ: 0.919661
Ran for 933050 frames Cell Events: 7738 mean_circ: 0.919663
Ran for 934050 frames Cell Events: 7749 mean_circ: 0.919674
Ran for 934550 frames Cell Events: 7750 mean_circ: 0.919674
Ran for 935050 frames Cell Events: 7754 mean_circ: 0.919676
Ran for 935550 frames Cell Events: 7756 mean_circ: 0.919681
Ran for 936050 frames Cell Events: 7760 mean_circ: 0.919689
Ran for 936550 frames Cell Events: 7766 mean_circ: 0.919696
Ran for 937050 frames Cell Events: 7770 mean_circ: 0.919672
Ran for 938050 frames Cell Events: 7780 mean_circ: 0.9197
Ran for 939050 frames Cell Events: 7795 mean_circ: 0.919705
Ran for 939550 frames Cell Events: 7814 mean_circ: 0.919717
Ran for 940050 frames Cell Events: 7822 mean_circ: 0.919737
Ran for 940550 frames Cell Events: 7824 mean_circ: 0.919774
Ran for 941050 frames Cell Events: 7829 mean_circ: 0.919774
Ran for 941550 frames Cell Events: 7836 mean_circ: 0.919775
Ran for 942050 frames Cell Events: 7840 mean_circ: 0.919765
Ran for 942550 frames Cell Events: 7845 mean_circ: 0.919773
Ran for 943550 frames Cell Events: 7869 mean_circ: 0.919905
Ran for 944050 frames Cell Events: 7870 mean_circ: 0.919898
Ran for 944550 frames Cell Events: 7874 mean_circ: 0.919913
Ran for 945050 frames Cell Events: 7879 mean_circ: 0.919887
Ran for 945550 frames Cell Events: 7884 mean_circ: 0.919872
Ran for 946050 frames Cell Events: 7892 mean_circ: 0.919864
Ran for 946550 frames Cell Events: 7894 mean_circ: 0.919863
Ran for 947050 frames Cell Events: 7899 mean_circ: 0.919862
Ran for 947550 frames Cell Events: 7902 mean_circ: 0.919842
Ran for 948050 frames Cell Events: 7904 mean_circ: 0.919835
Ran for 948550 frames Cell Events: 7912 mean_circ: 0.919828
Ran for 949550 frames Cell Events: 7915 mean_circ: 0.919825
Ran for 950050 frames Cell Events: 7922 mean_circ: 0.919825
Ran for 950550 frames Cell Events: 7923 mean_circ: 0.919823
Ran for 951050 frames Cell Events: 7928 mean_circ: 0.919809
Ran for 951550 frames Cell Events: 7928 mean_circ: 0.919809
Ran for 952050 frames Cell Events: 7929 mean_circ: 0.919806
Ran for 952550 frames Cell Events: 7930 mean_circ: 0.919808
Ran for 953050 frames Cell Events: 7935 mean_circ: 0.91982
Ran for 953550 frames Cell Events: 7935 mean_circ: 0.91982
Ran for 954050 frames Cell Events: 7939 mean_circ: 0.919823
Ran for 954550 frames Cell Events: 7943 mean_circ: 0.919832
Ran for 955050 frames Cell Events: 7945 mean_circ: 0.919831
Ran for 955550 frames Cell Events: 7950 mean_circ: 0.919833
Ran for 956050 frames Cell Events: 7951 mean_circ: 0.919831
Ran for 956550 frames Cell Events: 7956 mean_circ: 0.919834
Ran for 957050 frames Cell Events: 7966 mean_circ: 0.919854
Ran for 957550 frames Cell Events: 7968 mean_circ: 0.919849
Ran for 958050 frames Cell Events: 7969 mean_circ: 0.919861
Ran for 958550 frames Cell Events: 7974 mean_circ: 0.919861
Ran for 959050 frames Cell Events: 7976 mean_circ: 0.919857
Ran for 959550 frames Cell Events: 7986 mean_circ: 0.919869
Ran for 960050 frames Cell Events: 7989 mean_circ: 0.91987
Ran for 960550 frames Cell Events: 7991 mean_circ: 0.91987
Ran for 961050 frames Cell Events: 7995 mean_circ: 0.91987
Ran for 961550 frames Cell Events: 8003 mean_circ: 0.919876
Ran for 962050 frames Cell Events: 8006 mean_circ: 0.919891
Ran for 962550 frames Cell Events: 8007 mean_circ: 0.919895
Ran for 963050 frames Cell Events: 8010 mean_circ: 0.919901
Ran for 963550 frames Cell Events: 8011 mean_circ: 0.919899
Ran for 964050 frames Cell Events: 8013 mean_circ: 0.919899
Ran for 964550 frames Cell Events: 8015 mean_circ: 0.919896
Ran for 965050 frames Cell Events: 8017 mean_circ: 0.919891
Ran for 965550 frames Cell Events: 8022 mean_circ: 0.919895
Ran for 966050 frames Cell Events: 8023 mean_circ: 0.919885
Ran for 966550 frames Cell Events: 8025 mean_circ: 0.919887
Ran for 967050 frames Cell Events: 8026 mean_circ: 0.919887
Ran for 967550 frames Cell Events: 8027 mean_circ: 0.919888
Ran for 968050 frames Cell Events: 8038 mean_circ: 0.919852
Ran for 968550 frames Cell Events: 8045 mean_circ: 0.919873
Ran for 969050 frames Cell Events: 8049 mean_circ: 0.919871
Ran for 969550 frames Cell Events: 8051 mean_circ: 0.919875
Ran for 970050 frames Cell Events: 8056 mean_circ: 0.919856
Ran for 970550 frames Cell Events: 8062 mean_circ: 0.919856
Ran for 971050 frames Cell Events: 8064 mean_circ: 0.919852
Ran for 971550 frames Cell Events: 8069 mean_circ: 0.919849
Ran for 972050 frames Cell Events: 8071 mean_circ: 0.919856
Ran for 972550 frames Cell Events: 8072 mean_circ: 0.919857
Ran for 973050 frames Cell Events: 8075 mean_circ: 0.919862
Ran for 973550 frames Cell Events: 8080 mean_circ: 0.919868
Ran for 974050 frames Cell Events: 8084 mean_circ: 0.919861
Ran for 974550 frames Cell Events: 8087 mean_circ: 0.919864
Ran for 975550 frames Cell Events: 8094 mean_circ: 0.919859
End this measurment..
Stopping time: 3.92645e+008
****************************************
Measurement finished
Mean Circularitiy: 0.919857
Mean Area: 1319.24
Mean FL-1 intensity: 5481.25
Mean FL-2 intensity: 6357.48
Mean FL-3 intensity: 0
frames processed: 976012
Total Time: 488077ms
Number of Runs (new bg img) 0
Frames collected: 976012
Skipped frames: 17275
Rescued Frames: 2784492
Samples DAQ: 244005281
Samples written: 488006044
Samples per Channel: 244003022
FPS: 1999.71
Samples per second: 499927
Expected samples/s: 500000
Events: 8095
Events per second: 16.5855
jumped back (PMT): 8426
#Frames read, frequency
# 0 frames :1191626
# 1 frames :721911
# 2 frames :8850
# 3 frames :7188
# 4 frames :4013
# 5 frames :1230
# 6 frames :568
# 7 frames :2250
# 8 frames :947
# 9 frames :1097
# 10 frames :2739
# 11 frames :2555
# 12 frames :1738
# 13 frames :1881
# 14 frames :1002
# 15 frames :607
# 16 frames :525
# 17 frames :441
# 18 frames :374
# 19 frames :162
# 20 frames :64
# 21 frames :44
# 22 frames :37
# 23 frames :26
# 24 frames :23
# 25 frames :18
# 26 frames :14
# 27 frames :10
# 28 frames :9
# 29 frames :3
# 30 frames :7
# 31 frames :2
# 32 frames :5
# 33 frames :5
# 34 frames :1
# 35 frames :1
# 38 frames :1
# 41 frames :1
# 48 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] = 25.0711
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 | 3 months ago |
etag | 1026d33a583786c91ab14c36a463f358 |
format | RT-FDC |
id | 7a4b2a22-371f-4d2d-9452-3b7e16c83585 |
metadata modified | 3 months ago |
mimetype | RT-DC |
package id | 40cd3da3-6e14-4dbc-91ac-196d7113d191 |
position | 0 |
s3 available | True |
s3 url | https://objectstore.hpccloud.mpcdf.mpg.de/circle-8a23b5b7-6d86-46b7-9833-62373e9ec110/resource/7a4/b2a/22-371f-4d2d-9452-3b7e16c83585 |
sha256 | b64b9def675f5c85bd38f38e9761a3df27bfa1344f96955287c3b9bff879fb7e |
size | 145.4 MiB |
dc:experiment:date | 2017-06-18 |
dc:experiment:event count | 8,093 |
dc:experiment:run identifier | None-b1c8 |
dc:experiment:run index | 1 |
dc:experiment:sample | 20170618_1606_dsRNA_R3_col |
dc:experiment:time | 16:06:54 |
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 |