Click on the log titles below to expand the log entries present in this DC resource.
dclab-export_2024-07-10_12.14.56
{"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"], "filtered": true, "logs": false, "tables": false, "basins": false, "meta_prefix": "src_", "skip_checks": false}}
dclab-tdms2rtdc
{
"ancillary features": [
"mask"
],
"files": [
{
"index": 1,
"md5-5M": "48ce68be2a642586bf5628ef2bfd65f7",
"name": "M1_20170603_1714_dsRNA_B8_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": "10:15:20"
}
}
dclab-tdms2rtdc-warnings
MultipleSamplesPerEventFound
in dclab.rtdc_dataset.fmt_tdms.exc line 101:
Ignoring trace data of
'\\syn03.frontend.storage.int.mpl.mpg.de\guck_division2\Members\Laura\20240219_Kasia_screen_all_folders\20170603_katarzyna_kc167_phospho_screen\20170603_1714_dsRNA_B8_faster\M1_20170603_1714_dsRNA_B8_faster_traces.tdms'
due to multiple values for samples per event: [200 400]
LimitingExportSizeWarning
in dclab.rtdc_dataset.export line 305:
Not all features have the same length! Limiting output event count to 10002 (max 10003) in
'10002'.
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 V1.06170206
Reset global variables..
Circular Buffer Size is: 1000000
Ambient Temperature [C] = 24.4391
Start pulse train for BG Aquisition..
Now refreshing the background image stored in the framegrabber
STATE: 3
Starting time: 1.67351e+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 4050 frames Cell Events: 319 mean_circ: 0.935734
Ran for 6050 frames Cell Events: 513 mean_circ: 0.938186
Ran for 6550 frames Cell Events: 547 mean_circ: 0.936811
Ran for 9050 frames Cell Events: 752 mean_circ: 0.935405
Ran for 11050 frames Cell Events: 906 mean_circ: 0.936019
Ran for 12050 frames Cell Events: 981 mean_circ: 0.936336
Ran for 12550 frames Cell Events: 1008 mean_circ: 0.93636
Ran for 15550 frames Cell Events: 1244 mean_circ: 0.936799
Ran for 16550 frames Cell Events: 1291 mean_circ: 0.936692
Ran for 18550 frames Cell Events: 1407 mean_circ: 0.935921
Ran for 20050 frames Cell Events: 1491 mean_circ: 0.935919
Ran for 21050 frames Cell Events: 1552 mean_circ: 0.936167
Ran for 21550 frames Cell Events: 1584 mean_circ: 0.936109
Ran for 22050 frames Cell Events: 1613 mean_circ: 0.936028
Ran for 23050 frames Cell Events: 1678 mean_circ: 0.935964
Ran for 25550 frames Cell Events: 1830 mean_circ: 0.935255
Ran for 27050 frames Cell Events: 1924 mean_circ: 0.935462
Ran for 28550 frames Cell Events: 2036 mean_circ: 0.93565
Ran for 29050 frames Cell Events: 2069 mean_circ: 0.935633
Ran for 30050 frames Cell Events: 2128 mean_circ: 0.93579
Ran for 32550 frames Cell Events: 2312 mean_circ: 0.935689
Ran for 33050 frames Cell Events: 2338 mean_circ: 0.935613
Ran for 34050 frames Cell Events: 2420 mean_circ: 0.935656
Ran for 35050 frames Cell Events: 2494 mean_circ: 0.935838
Ran for 38050 frames Cell Events: 2683 mean_circ: 0.93598
Ran for 41550 frames Cell Events: 2895 mean_circ: 0.936028
Ran for 43550 frames Cell Events: 3006 mean_circ: 0.936153
Ran for 44550 frames Cell Events: 3089 mean_circ: 0.936251
Ran for 45050 frames Cell Events: 3125 mean_circ: 0.936077
Ran for 45550 frames Cell Events: 3152 mean_circ: 0.936149
Ran for 47050 frames Cell Events: 3292 mean_circ: 0.936327
Ran for 48050 frames Cell Events: 3364 mean_circ: 0.936516
Ran for 48550 frames Cell Events: 3386 mean_circ: 0.936506
Ran for 49550 frames Cell Events: 3465 mean_circ: 0.936607
Ran for 50050 frames Cell Events: 3492 mean_circ: 0.936638
Ran for 54050 frames Cell Events: 3851 mean_circ: 0.936824
Ran for 56050 frames Cell Events: 3981 mean_circ: 0.936709
Ran for 57050 frames Cell Events: 4030 mean_circ: 0.936696
Ran for 58050 frames Cell Events: 4088 mean_circ: 0.936759
Ran for 58550 frames Cell Events: 4116 mean_circ: 0.936718
Ran for 60050 frames Cell Events: 4229 mean_circ: 0.936744
Ran for 61550 frames Cell Events: 4317 mean_circ: 0.936832
Ran for 62050 frames Cell Events: 4354 mean_circ: 0.936889
Ran for 62550 frames Cell Events: 4385 mean_circ: 0.936873
Ran for 66550 frames Cell Events: 4739 mean_circ: 0.936797
Ran for 67050 frames Cell Events: 4768 mean_circ: 0.936851
Ran for 69050 frames Cell Events: 4910 mean_circ: 0.93687
Ran for 71050 frames Cell Events: 5065 mean_circ: 0.936933
Ran for 71550 frames Cell Events: 5095 mean_circ: 0.936953
Ran for 72050 frames Cell Events: 5125 mean_circ: 0.936955
Ran for 72550 frames Cell Events: 5158 mean_circ: 0.936964
Ran for 73550 frames Cell Events: 5219 mean_circ: 0.936957
Ran for 75550 frames Cell Events: 5378 mean_circ: 0.937016
Ran for 77550 frames Cell Events: 5545 mean_circ: 0.937225
Ran for 78050 frames Cell Events: 5576 mean_circ: 0.937265
Ran for 78550 frames Cell Events: 5607 mean_circ: 0.937365
Ran for 82050 frames Cell Events: 5949 mean_circ: 0.937215
Ran for 84050 frames Cell Events: 6094 mean_circ: 0.937239
Ran for 85550 frames Cell Events: 6207 mean_circ: 0.937241
Ran for 87550 frames Cell Events: 6359 mean_circ: 0.937193
Ran for 88050 frames Cell Events: 6384 mean_circ: 0.937214
Ran for 88550 frames Cell Events: 6417 mean_circ: 0.937214
Ran for 89050 frames Cell Events: 6441 mean_circ: 0.937202
Ran for 89550 frames Cell Events: 6478 mean_circ: 0.937182
Ran for 90050 frames Cell Events: 6507 mean_circ: 0.937197
Ran for 91550 frames Cell Events: 6627 mean_circ: 0.936956
Ran for 92550 frames Cell Events: 6704 mean_circ: 0.937002
Ran for 93050 frames Cell Events: 6745 mean_circ: 0.937002
Ran for 93550 frames Cell Events: 6778 mean_circ: 0.937025
Ran for 94050 frames Cell Events: 6808 mean_circ: 0.937032
Ran for 95550 frames Cell Events: 6919 mean_circ: 0.936993
Ran for 97050 frames Cell Events: 7027 mean_circ: 0.937063
Ran for 99550 frames Cell Events: 7234 mean_circ: 0.937135
Ran for 100050 frames Cell Events: 7267 mean_circ: 0.937122
Ran for 100550 frames Cell Events: 7295 mean_circ: 0.937138
Ran for 101050 frames Cell Events: 7317 mean_circ: 0.937147
Ran for 101550 frames Cell Events: 7349 mean_circ: 0.937141
Ran for 102550 frames Cell Events: 7414 mean_circ: 0.937148
Ran for 103050 frames Cell Events: 7439 mean_circ: 0.937147
Ran for 104050 frames Cell Events: 7506 mean_circ: 0.937119
Ran for 104550 frames Cell Events: 7547 mean_circ: 0.937139
Ran for 105550 frames Cell Events: 7640 mean_circ: 0.937005
Ran for 106550 frames Cell Events: 7733 mean_circ: 0.936934
Ran for 107550 frames Cell Events: 7835 mean_circ: 0.936934
Ran for 108050 frames Cell Events: 7877 mean_circ: 0.937035
Ran for 108550 frames Cell Events: 7908 mean_circ: 0.937042
Ran for 110550 frames Cell Events: 8037 mean_circ: 0.937034
Ran for 112050 frames Cell Events: 8141 mean_circ: 0.93698
Ran for 113550 frames Cell Events: 8276 mean_circ: 0.937034
Ran for 114550 frames Cell Events: 8351 mean_circ: 0.937037
Ran for 117550 frames Cell Events: 8603 mean_circ: 0.937062
Ran for 119050 frames Cell Events: 8708 mean_circ: 0.937079
Ran for 119550 frames Cell Events: 8742 mean_circ: 0.93707
Ran for 120050 frames Cell Events: 8769 mean_circ: 0.937058
Ran for 121550 frames Cell Events: 8884 mean_circ: 0.937063
Ran for 122050 frames Cell Events: 8919 mean_circ: 0.937039
Ran for 122550 frames Cell Events: 8959 mean_circ: 0.937039
Ran for 125050 frames Cell Events: 9150 mean_circ: 0.937203
Ran for 126050 frames Cell Events: 9225 mean_circ: 0.937212
Ran for 126550 frames Cell Events: 9249 mean_circ: 0.937221
Ran for 127050 frames Cell Events: 9272 mean_circ: 0.93723
Ran for 129550 frames Cell Events: 9449 mean_circ: 0.937186
Ran for 130550 frames Cell Events: 9514 mean_circ: 0.93717
Ran for 132050 frames Cell Events: 9633 mean_circ: 0.937185
Ran for 135550 frames Cell Events: 9938 mean_circ: 0.93705
End this measurment.
because stop condition (time/nr of cells) was met
Stopping time: 1.67358e+009
****************************************
Measurement finished
Mean Circularitiy: 0.937033
Mean Area: 649.578
Mean FL-1 intensity: 3855.53
Mean FL-2 intensity: 3420.19
Mean FL-3 intensity: 0
frames processed: 130589
Total Time: 68230.7ms
Number of Runs (new bg img) 0
Frames collected: 136333
Skipped frames: 87562
Rescued Frames: 2434748
Samples DAQ: 34085084
Samples written: 68166456
Samples per Channel: 34083228
FPS: 1998.12
Samples per second: 499530
Expected samples/s: 500000
Events: 10004
Events per second: 146.62
jumped back (PMT): 31
#Frames read, frequency
# 0 frames :211494
# 1 frames :30554
# 2 frames :1968
# 3 frames :795
# 4 frames :495
# 5 frames :264
# 6 frames :1628
# 7 frames :838
# 8 frames :841
# 9 frames :559
# 10 frames :473
# 11 frames :295
# 12 frames :251
# 13 frames :212
# 14 frames :257
# 15 frames :213
# 16 frames :190
# 17 frames :182
# 18 frames :147
# 19 frames :108
# 20 frames :96
# 21 frames :107
# 22 frames :102
# 23 frames :74
# 24 frames :73
# 25 frames :62
# 26 frames :50
# 27 frames :52
# 28 frames :58
# 29 frames :49
# 30 frames :44
# 31 frames :35
# 32 frames :33
# 33 frames :25
# 34 frames :32
# 35 frames :22
# 36 frames :23
# 37 frames :12
# 38 frames :37
# 39 frames :14
# 40 frames :15
# 41 frames :11
# 42 frames :17
# 43 frames :14
# 44 frames :15
# 45 frames :8
# 46 frames :4
# 47 frames :8
# 48 frames :9
# 49 frames :8
# 50 frames :7
# 51 frames :8
# 52 frames :1
# 53 frames :7
# 54 frames :4
# 55 frames :2
# 56 frames :2
# 57 frames :4
# 58 frames :4
# 59 frames :5
# 60 frames :1
# 61 frames :2
# 62 frames :6
# 63 frames :2
# 64 frames :4
# 65 frames :3
# 66 frames :3
# 67 frames :1
# 68 frames :2
# 69 frames :1
# 71 frames :1
# 72 frames :2
# 76 frames :1
# 77 frames :2
# 78 frames :2
# 79 frames :1
# 80 frames :1
# 81 frames :1
# 87 frames :1
# 90 frames :1
# 92 frames :1
# 99 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] = 24.4391
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