Test Report Ci Macos-Latest 3.11

Environnement

Python	3.11.9
Platform	macOS-15.7.4-arm64-arm-64bit
CI	true
System	Darwin
CPU	Apple M1 (Virtual) (Unknown frequency - 3 Cores (3 Logical))
RAM	7.00 GB
GPU	Error detecting GPU: NVML Shared Library Not Found

Summary

263 tests collected, 263 passed ✅, 0 failed ❌, 0 skipped ⏭️ in 0:01:26s on 04/05/2026 at 14:27:20

Monitoring

Test Cases

Palmtracer

Test Name	Status	Duration
Reset Result	✅	635ms
Getter Localization	✅	37ms
Getter Beads	✅	36ms
Getter Tracks	✅	37ms
Getter Tracks Compute	✅	44ms
Get Status	✅	42ms
Getter Path	✅	66ms
Getter Stack	✅	40ms
Getter Suffix	✅	32ms
Load Bad Dll	✅	32ms
Load Nothing	✅	31ms
Load	✅	160ms
Process No Input	✅	42ms
Process Nothing	✅	198ms
Process Bad Dll	✅	40ms
Process Multiple Stack	✅	95ms
Process Localization	✅	96ms
Process Localization Z	✅	213ms
Process Localization Spline Bad	✅	46ms
Process Localization Spline	✅	87ms
Process Beads Extraction No Beads	✅	79ms
Process Plane Discontinuous	✅	35ms
Process Beads Extraction	✅	88ms
Process Tracking	✅	246ms
Process Tracking Blinking	✅	141ms
Process Tracks Compute	✅	2.43s
Process Gallery	✅	145ms
Process Visualization Graph	✅	4.59s
Process Visualization Hr	✅	1.40s
Process All	✅	4.51s
Reset Filtered	✅	75ms
Update Filtered	✅	138ms
Save Filtered	✅	52ms
Filter Localization	✅	1.27s
Filter Tracks Compute	✅	2.37s
Add Color	✅	33ms
Get Astigmatism Model	✅	27ms

Log Test : Update Filtered

[04-05-2026 14:26:11] Log opened : /Users/runner/work/palm-tracer/palm-tracer/palm_tracer/_tests/input/stack_PALM_Tracer/log-20260504_142611.log
[04-05-2026 14:26:11] Start Processing.
[04-05-2026 14:26:11] Output folder: /Users/runner/work/palm-tracer/palm-tracer/palm_tracer/_tests/input/stack_PALM_Tracer
[04-05-2026 14:26:11] Meta file saved.
[04-05-2026 14:26:11] Settings saved.
[04-05-2026 14:26:11] Localization load previous result (Timestamp : 20260101_000000).
[04-05-2026 14:26:11]      File 'localizations-20260101_000000.csv' loaded successfully, 451 row(s) found.
[04-05-2026 14:26:11] Beads Extraction disabled.
[04-05-2026 14:26:11] Tracking disabled.
[04-05-2026 14:26:11] Blinking Reconnection disabled.
[04-05-2026 14:26:11] Tracks Compute disabled.
[04-05-2026 14:26:11] Gallery generation disabled.
[04-05-2026 14:26:11] Graphical visualization disabled.
[04-05-2026 14:26:11] High-resolution visualization disabled.
[04-05-2026 14:26:11] Processing complete.
[04-05-2026 14:26:11] Log closed : /Users/runner/work/palm-tracer/palm-tracer/palm_tracer/_tests/input/stack_PALM_Tracer/log-20260504_142611.log

Processing Astigmatism3D

Test Name	Status	Duration
Get Z From Planes	✅	1ms
Get Z From Step	✅	1ms
Remove Multi Loc	✅	6ms
Sigma Model	✅	1ms
Model Validity	✅	2ms
Model Projection Validity	✅	14ms
Find Model Center	✅	2ms

Log Test : Remove Multi Loc

Not all valid columns in localizations. Unable to remove ambiguous localizations reliably.
All planes contain multiple localizations. Unable to remove ambiguous localizations reliably.

Log Test : Model Projection Validity

{'rmse_z': 5.777646505663858, 'mae_z': 4.527265453090619, 'p95_abs_z': 11.402280456091262, 'bias_z': 0.034926985397079696, 'std_z': 5.777540934524036, 'mean_dist': 0.015979049334594875, 'p95_dist': 0.03907161488826703, 'slope_mean': 0.003993454737472619}
{'rmse_z': 577.3147040352493, 'mae_z': 499.9443888777755, 'p95_abs_z': 950.0000000000001, 'bias_z': 7.395319063812727, 'std_z': 577.2673356004581, 'mean_dist': 0.02749131099862401, 'p95_dist': 0.09899871427527444, 'slope_mean': 0.003993454737472619}
{'rmse_z': 763.5196346175319, 'mae_z': 749.5955591118224, 'p95_abs_z': 975.0050010002001, 'bias_z': 20.59999999999995, 'std_z': 763.2416867850505, 'mean_dist': 1.592075248599287, 'p95_dist': 2.265409096055544, 'slope_mean': 0.00156321987547227}

Processing Drift

Test Name	Status	Duration
Extract Bead Bad Input	✅	3ms
Extract Beads No Match Returns Empty	✅	4ms
Assign Tracks No Pairs	✅	1ms
Assign Tracks Skip Used Track	✅	1ms
Extract Beads	✅	38ms
Remove Beads	✅	9ms
Get Drift Bad Input	✅	3ms
Get Drift	✅	16ms
Apply Drift Bad Input	✅	1ms
Remove Drift	✅	10ms
Chain Drift	✅	11ms
Drift Correction	✅	12ms
Median Filter Centered	✅	3ms

Processing Filtering

Test Name	Status	Duration
Filter Bad	✅	15ms
Localization	✅	20ms
Tracking	✅	14ms
Tracks Compute	✅	22ms

Processing Gallery

Test Name	Status	Duration
Make Gallery	✅	5ms

Processing Grapher

Test Name	Status	Duration
Blank	✅	303ms
Histogram	✅	986ms
Scatter	✅	378ms
Cloud	✅	781ms
Astigmatism3D	✅	439ms

Processing Palm

Test Name	Status	Duration
Palm Dll Valid	✅	3ms
Palm Cpu Empty Result	✅	4ms
Palm Cpu Image	✅	740ms
Palm Cpu Stack	✅	3.38s
Palm Cpu Stack Plane Selection	✅	157ms
Palm Cpu Stack Dll Check Quadrant	✅	259ms
Cpu Auto Threshold	✅	35ms
Tracking	✅	4.38s
Blinking Reconnection	✅	173ms
Tracks Compute	✅	34ms
Align	✅	132ms
Wavelett	✅	34ms
Astigmatism 3D Calibration	✅	9ms
Astigmatism 3D Estimation	✅	4ms

Log Test : Palm Cpu Image

Comparaison avec : '/Users/runner/work/palm-tracer/palm-tracer/palm_tracer/_tests/input/ref/stack-localizations-0_103.6_True_0_1.0_0.0_7.csv'
Comparaison terminée : 51 Points comparés, 51 Points identiques (100.00%)
Comparaison avec : '/Users/runner/work/palm-tracer/palm-tracer/palm_tracer/_tests/input/ref/stack-localizations-0_103.6_True_1_1.0_0.0_7.csv'
Comparaison terminée : 51 Points comparés, 51 Points identiques (100.00%)
Comparaison avec : '/Users/runner/work/palm-tracer/palm-tracer/palm_tracer/_tests/input/ref/stack-localizations-0_103.6_True_2_1.0_0.0_7.csv'
Comparaison terminée : 51 Points comparés, 51 Points identiques (100.00%)
Comparaison avec : '/Users/runner/work/palm-tracer/palm-tracer/palm_tracer/_tests/input/ref/stack-localizations-0_103.6_True_3_1.0_0.0_7.csv'
Comparaison terminée : 51 Points comparés, 51 Points identiques (100.00%)
Theta mean: 4.11°, Theta median (robust) : 0.52°, Concentration R: 0.923
Comparaison avec : '/Users/runner/work/palm-tracer/palm-tracer/palm_tracer/_tests/input/ref/stack-localizations-0_103.6_True_4_1.0_0.0_7.csv'
Comparaison terminée : 51 Points comparés, 51 Points identiques (100.00%)
Theta mean: -5.05°, Theta median (robust) : -1.63°, Concentration R: 0.892
Theta mean: -7.82°, Theta median (robust) : -0.76°, Concentration R: 0.858
Theta mean: 3.99°, Theta median (robust) : -0.59°, Concentration R: 0.900
Theta mean: 1.57°, Theta median (robust) : -0.23°, Concentration R: 0.851
Theta mean: -0.87°, Theta median (robust) : 0.07°, Concentration R: 0.848
Theta mean: -1.38°, Theta median (robust) : 0.78°, Concentration R: 0.933
Theta mean: 3.27°, Theta median (robust) : 0.13°, Concentration R: 0.813
Theta mean: 1.46°, Theta median (robust) : 0.43°, Concentration R: 0.917
Theta mean: 0.58°, Theta median (robust) : 0.03°, Concentration R: 0.896

Log Test : Palm Cpu Stack

Comparaison avec : '/Users/runner/work/palm-tracer/palm-tracer/palm_tracer/_tests/input/ref/stack-localizations-103.6_True_0_1.0_0.0_7.csv'
Comparaison terminée : 451 Points comparés, 451 Points identiques (100.00%)
Comparaison avec : '/Users/runner/work/palm-tracer/palm-tracer/palm_tracer/_tests/input/ref/stack-localizations-103.6_True_1_1.0_0.0_7.csv'
Comparaison terminée : 451 Points comparés, 451 Points identiques (100.00%)
Comparaison avec : '/Users/runner/work/palm-tracer/palm-tracer/palm_tracer/_tests/input/ref/stack-localizations-103.6_True_2_1.0_0.0_7.csv'
Comparaison terminée : 451 Points comparés, 451 Points identiques (100.00%)
Comparaison avec : '/Users/runner/work/palm-tracer/palm-tracer/palm_tracer/_tests/input/ref/stack-localizations-103.6_True_3_1.0_0.0_7.csv'
Comparaison terminée : 451 Points comparés, 451 Points identiques (100.00%)
Theta mean: 0.04°, Theta median (robust) : 0.07°, Concentration R: 0.884
Comparaison avec : '/Users/runner/work/palm-tracer/palm-tracer/palm_tracer/_tests/input/ref/stack-localizations-103.6_True_4_1.0_0.0_7.csv'
Comparaison terminée : 451 Points comparés, 451 Points identiques (100.00%)
Comparaison avec : '/Users/runner/work/palm-tracer/palm-tracer/palm_tracer/_tests/input/ref/stack-localizations-103.6_False_0_1.0_0.0_7.csv'
Comparaison terminée : 429 Points comparés, 429 Points identiques (100.00%)
Comparaison avec : '/Users/runner/work/palm-tracer/palm-tracer/palm_tracer/_tests/input/ref/stack-localizations-103.6_False_1_1.0_0.0_7.csv'
Comparaison terminée : 429 Points comparés, 429 Points identiques (100.00%)
Comparaison avec : '/Users/runner/work/palm-tracer/palm-tracer/palm_tracer/_tests/input/ref/stack-localizations-103.6_False_2_1.0_0.0_7.csv'
Comparaison terminée : 429 Points comparés, 429 Points identiques (100.00%)
Comparaison avec : '/Users/runner/work/palm-tracer/palm-tracer/palm_tracer/_tests/input/ref/stack-localizations-103.6_False_3_1.0_0.0_7.csv'
Comparaison terminée : 429 Points comparés, 429 Points identiques (100.00%)
Theta mean: -0.33°, Theta median (robust) : -0.04°, Concentration R: 0.887
Comparaison avec : '/Users/runner/work/palm-tracer/palm-tracer/palm_tracer/_tests/input/ref/stack-localizations-103.6_False_4_1.0_0.0_7.csv'
Comparaison terminée : 429 Points comparés, 429 Points identiques (100.00%)

Log Test : Palm Cpu Stack Plane Selection

Theta mean: -0.53°, Theta median (robust) : -0.05°, Concentration R: 0.876
Comparaison avec : '/Users/runner/work/palm-tracer/palm-tracer/palm_tracer/_tests/input/ref/stack-localizations-plane_select-103.6_True_4_1.0_0.0_7.csv'
Comparaison terminée : 227 Points comparés, 227 Points identiques (100.00%)

Log Test : Palm Cpu Stack Dll Check Quadrant

Theta mean: -1.19°, Theta median (robust) : -0.02°, Concentration R: 0.868
Comparaison terminée : 269 Points comparés, 269 Points identiques (100.00%)

Log Test : Tracking

Comparaison avec : '/Users/runner/work/palm-tracer/palm-tracer/palm_tracer/_tests/input/ref/stack-tracking-103.6_True_0_1.0_0.0_7-5_2_10_0.5.csv'
Comparaison terminée : 224 Points comparés, 224 Points identiques (100.00%)
Comparaison avec : '/Users/runner/work/palm-tracer/palm-tracer/palm_tracer/_tests/input/ref/stack-tracking-103.6_True_1_1.0_0.0_7-5_2_10_0.5.csv'
Comparaison terminée : 223 Points comparés, 223 Points identiques (100.00%)
Comparaison avec : '/Users/runner/work/palm-tracer/palm-tracer/palm_tracer/_tests/input/ref/stack-tracking-103.6_True_2_1.0_0.0_7-5_2_10_0.5.csv'
Comparaison terminée : 225 Points comparés, 225 Points identiques (100.00%)
Comparaison avec : '/Users/runner/work/palm-tracer/palm-tracer/palm_tracer/_tests/input/ref/stack-tracking-103.6_True_3_1.0_0.0_7-5_2_10_0.5.csv'
Comparaison terminée : 222 Points comparés, 222 Points identiques (100.00%)
Comparaison avec : '/Users/runner/work/palm-tracer/palm-tracer/palm_tracer/_tests/input/ref/stack-tracking-103.6_True_4_1.0_0.0_7-5_2_10_0.5.csv'
Comparaison terminée : 222 Points comparés, 222 Points identiques (100.00%)
Fichier de localisations '/Users/runner/work/palm-tracer/palm-tracer/palm_tracer/_tests/input/ref/stack-localizations-103.6_True_5_1.0_0.0_7.csv' indisponible.
Comparaison avec : '/Users/runner/work/palm-tracer/palm-tracer/palm_tracer/_tests/input/ref/stack-tracking-103.6_False_0_1.0_0.0_7-5_2_10_0.5.csv'
Comparaison terminée : 214 Points comparés, 214 Points identiques (100.00%)
Comparaison avec : '/Users/runner/work/palm-tracer/palm-tracer/palm_tracer/_tests/input/ref/stack-tracking-103.6_False_1_1.0_0.0_7-5_2_10_0.5.csv'
Comparaison terminée : 212 Points comparés, 212 Points identiques (100.00%)
Comparaison avec : '/Users/runner/work/palm-tracer/palm-tracer/palm_tracer/_tests/input/ref/stack-tracking-103.6_False_2_1.0_0.0_7-5_2_10_0.5.csv'
Comparaison terminée : 217 Points comparés, 217 Points identiques (100.00%)
Comparaison avec : '/Users/runner/work/palm-tracer/palm-tracer/palm_tracer/_tests/input/ref/stack-tracking-103.6_False_3_1.0_0.0_7-5_2_10_0.5.csv'
Comparaison terminée : 211 Points comparés, 211 Points identiques (100.00%)
Comparaison avec : '/Users/runner/work/palm-tracer/palm-tracer/palm_tracer/_tests/input/ref/stack-tracking-103.6_False_4_1.0_0.0_7-5_2_10_0.5.csv'
Comparaison terminée : 214 Points comparés, 214 Points identiques (100.00%)
Fichier de localisations '/Users/runner/work/palm-tracer/palm-tracer/palm_tracer/_tests/input/ref/stack-localizations-103.6_False_5_1.0_0.0_7.csv' indisponible.

Log Test : Blinking Reconnection

Comparaison avec : '/Users/runner/work/palm-tracer/palm-tracer/palm_tracer/_tests/input/ref/tracking-blinking-0.csv'
Comparaison terminée : 18 Points comparés, 18 Points identiques (100.00%)
Comparaison avec : '/Users/runner/work/palm-tracer/palm-tracer/palm_tracer/_tests/input/ref/tracking-blinking-1.csv'
Comparaison terminée : 18 Points comparés, 18 Points identiques (100.00%)
Comparaison avec : '/Users/runner/work/palm-tracer/palm-tracer/palm_tracer/_tests/input/ref/tracking-blinking-2.csv'
Comparaison terminée : 18 Points comparés, 18 Points identiques (100.00%)

Log Test : Tracks Compute

Comparaison avec : '/Users/runner/work/palm-tracer/palm-tracer/palm_tracer/_tests/input/ref/tracking2-MSD-True.csv'
Comparaison avec : '/Users/runner/work/palm-tracer/palm-tracer/palm_tracer/_tests/input/ref/tracking2-Fit-True.csv'
Problem with trajectory identifiers, be careful with filtering
Comparaison avec : '/Users/runner/work/palm-tracer/palm-tracer/palm_tracer/_tests/input/ref/tracking2-MSD-False.csv'
Comparaison avec : '/Users/runner/work/palm-tracer/palm-tracer/palm_tracer/_tests/input/ref/tracking2-Fit-False.csv'
Problem with trajectory identifiers, be careful with filtering
Problem with trajectory identifiers, be careful with filtering
Problem with trajectory identifiers, be careful with filtering
Problem with trajectory identifiers, be careful with filtering
Problem with trajectory identifiers, be careful with filtering
Comparaison avec : '/Users/runner/work/palm-tracer/palm-tracer/palm_tracer/_tests/input/ref/tracking2-Fit-1.csv'
Problem with trajectory identifiers, be careful with filtering
Problem with trajectory identifiers, be careful with filtering
Comparaison avec : '/Users/runner/work/palm-tracer/palm-tracer/palm_tracer/_tests/input/ref/tracking2-Fit-2.csv'
Problem with trajectory identifiers, be careful with filtering
Problem with trajectory identifiers, be careful with filtering
Comparaison avec : '/Users/runner/work/palm-tracer/palm-tracer/palm_tracer/_tests/input/ref/tracking2-Fit-3.csv'
Problem with trajectory identifiers, be careful with filtering
Problem with trajectory identifiers, be careful with filtering
Problem with trajectory identifiers, be careful with filtering
Problem with trajectory identifiers, be careful with filtering

Processing Parsing

Test Name	Status	Duration
Get Meta	✅	2ms
Rearrange Dataframe Columns	✅	3ms
Log10 Dataframe	✅	3ms
Degrees To Radians	✅	1ms
Radians To Degrees	✅	1ms
Wrap Angle	✅	1ms
Manage Theta	✅	1ms
Parse Irregular Array	✅	1ms
Parse Result	✅	10ms
Parse Localization For Tracking	✅	3ms

Log Test : Manage Theta

Theta mean: -16.32°, Theta median (robust) : 0.00°, Concentration R: 0.712

Processing Renderer

Test Name	Status	Duration
Set Size	✅	1ms
Get Localization Colors	✅	3ms
Get Tracks Colors	✅	18ms
Draw Line	✅	1ms
Draw Gaussian	✅	1ms
Localizations	✅	1ms
Localizations Gaussian	✅	5ms
Tracks	✅	1ms

Processing Step

Test Name	Status	Duration
Object Creation	✅	1ms
Prepare Action	✅	28ms

Log Test : Object Creation

Step : Step(group_name='name', keys=['key'], process_func=<function test_object_creation.<locals>.f at 0x141660180>, filter_func=<function test_object_creation.<locals>.f at 0x141660180>, allow_dirty=False, apply_filter=True)
Actions : StepAction.Compute,StepAction.Reuse,StepAction.Skip

Processing Visualization

Test Name	Status	Duration
Normalize Data	✅	1ms
Render Hr Image	✅	16ms
Render Hr Image Bad Input	✅	3ms
Render Tracks Image	✅	17ms
Render Tracks Image Bad Input	✅	4ms
Render Roi	✅	25ms
Render Roi Bad Input	✅	1ms
Plot Histogram	✅	503ms
Plot Histogram Bad Input	✅	115ms
Plot Violin	✅	300ms
Plot Violin Bad Input	✅	46ms
Plot Heatmap	✅	298ms
Plot Heatmap Bad Input	✅	52ms

Settings Groups

Test Name	Status	Duration
Base Group	✅	2ms
Batch	✅	146ms
Batch Get Path	✅	13ms
Batch Get Stacks	✅	19ms
Calibration	✅	9ms
Localization	✅	20ms
Gaussian Fit	✅	7ms
Spline Fit	✅	4ms
Beads	✅	3ms
Tracking	✅	3ms
Tracks Blinking Reconnection	✅	5ms
Tracks Computes	✅	5ms
Gallery	✅	4ms
Visualization Hr	✅	5ms
Visualization Graph	✅	3ms
Filters	✅	34ms
Filters L	✅	19ms
Filters T	✅	12ms

Log Test : Batch

- Activate : True
- Files : -1
- Mode : 0

{'Files': -1, 'Mode': 0}

Log Test : Batch Get Stacks

Error when concatenating stacks (they will be processed independently):
ValueError: all the input array dimensions except for the concatenation axis must match exactly, but along dimension 1, the array at index 0 has size 128 and the array at index 1 has size 256

Log Test : Calibration

- Activate : True
- Pixel Size : 0.32
- Exposure : 0.05
- Intensity : 0.012

{'Pixel Size': 0.32, 'Exposure': 0.05, 'Intensity': 0.012}

Log Test : Localization

- Activate : True
- Preview : True
- Threshold : 90.0
- Auto Threshold : True
- ROI Shape : 0
- ROI Size : 7
- Watershed : True
- Fit : 0
- Gaussian Fit :
  - Activate : True
  - Mode : 0
  - Sigma : 1.0
  - Theta : 0.0
  - Z : False
  - Z max : 500
  - Model : 
- Spline Fit :
  - Activate : True
  - Sensor : 0
  - Variance Map : 
  - File : 

{'Preview': True, 'Threshold': 90.0, 'Auto Threshold': True, 'ROI Shape': 0, 'ROI Size': 7, 'Watershed': True, 'Fit': 0, 'Gaussian Fit Mode': 0, 'Gaussian Fit Sigma': 1.0, 'Gaussian Fit Theta': 0.0, 'Gaussian Fit Z': False, 'Gaussian Fit Z max': 500, 'Gaussian Fit Model': '', 'Spline Fit Sensor': 0, 'Spline Fit Variance Map': '', 'Spline Fit File': ''}

Log Test : Gaussian Fit

- Activate : True
- Mode : 2
- Sigma : 1.0
- Theta : 0.0
- Z : False
- Z max : 500
- Model : 

{'Mode': 2, 'Sigma': 1.0, 'Theta': 0.0, 'Z': False, 'Z max': 500, 'Model': ''}

Log Test : Spline Fit

- Activate : True
- Sensor : 1
- Variance Map : 
- File : 

{'Sensor': 1, 'Variance Map': '', 'File': ''}

Log Test : Beads

- Activate : True
- Max Distance : 2.0
- 3D : False

{'Max Distance': 2.0, '3D': False}

Log Test : Tracking

- Activate : True
- Max Distance : 2.0

{'Max Distance': 2.0}

Log Test : Tracks Blinking Reconnection

- Activate : True
- Mode : 1
- Max Duration : 1
- Max Distance : 1.0

{'Mode': 1, 'Max Duration': 1, 'Max Distance': 1.0}

Log Test : Tracks Computes

- Activate : True
- MSD : True
- Instant Diffusion : False
- Fit Length : 4
- 3D : False
- Log Scale : False
- Fit : 0

{'MSD': True, 'Instant Diffusion': False, 'Fit Length': 4, '3D': False, 'Log Scale': False, 'Fit': 0}

Log Test : Gallery

- Activate : True
- ROI Size : 11
- ROIs Per Line : 30

{'ROI Size': 11, 'ROIs Per Line': 30}

Log Test : Visualization Hr

- Activate : True
- Ratio : 1
- Type : 0
- Source L : 1
- Source T : 1

{'Ratio': 1, 'Type': 0, 'Source L': 1, 'Source T': 1}

Log Test : Visualization Graph

- Activate : True
- Mode : 1
- Source : 0

{'Mode': 1, 'Source': 0}

Log Test : Filters

- Activate : True
- Save : True
- Plane : [1, 100000]
- Localization :
  - Activate : True
  - X : [0, 100000]
  - Y : [0, 100000]
  - Z : [-2000, 2000]
  - Intensity : [0, 10000000]
  - Sigma X : [0.0, 10.0]
  - Sigma Y : [0.0, 10.0]
  - Circularity : [0.0, 1.0]
  - Theta : [-90.0, 90.0]
  - MSE XY : [0.0, 1.0]
  - MSE Z : [0.0, 1.0]
- Tracks :
  - Activate : True
  - Length : [1, 10000]
  - Instant D : [-5.0, 5.0]
  - D Coeff : [-5.0, 5.0]
  - Alpha : [-10.0, 10.0]
  - Speed : [0.0, 1.0]
  - Confinement : [-10.0, 10.0]

{'Save': True, 'Plane': [1, 100000], 'Localization X': [0, 100000], 'Localization Y': [0, 100000], 'Localization Z': [-2000, 2000], 'Localization Intensity': [0, 10000000], 'Localization Sigma X': [0.0, 10.0], 'Localization Sigma Y': [0.0, 10.0], 'Localization Circularity': [0.0, 1.0], 'Localization Theta': [-90.0, 90.0], 'Localization MSE XY': [0.0, 1.0], 'Localization MSE Z': [0.0, 1.0], 'Tracks Length': [1, 10000], 'Tracks Instant D': [-5.0, 5.0], 'Tracks D Coeff': [-5.0, 5.0], 'Tracks Alpha': [-10.0, 10.0], 'Tracks Speed': [0.0, 1.0], 'Tracks Confinement': [-10.0, 10.0]}

Log Test : Filters L

- Activate : True
- X : [2, 9]
- Y : [0, 100000]
- Z : [-2000, 2000]
- Intensity : [0, 10000000]
- Sigma X : [0.0, 10.0]
- Sigma Y : [0.0, 10.0]
- Circularity : [0.0, 1.0]
- Theta : [-90.0, 90.0]
- MSE XY : [0.0, 1.0]
- MSE Z : [0.0, 1.0]

{'X': [2, 9], 'Y': [0, 100000], 'Z': [-2000, 2000], 'Intensity': [0, 10000000], 'Sigma X': [0.0, 10.0], 'Sigma Y': [0.0, 10.0], 'Circularity': [0.0, 1.0], 'Theta': [-90.0, 90.0], 'MSE XY': [0.0, 1.0], 'MSE Z': [0.0, 1.0]}

Log Test : Filters T

- Activate : True
- Length : [2, 3]
- Instant D : [-5.0, 5.0]
- D Coeff : [-5.0, 5.0]
- Alpha : [-10.0, 10.0]
- Speed : [0.0, 1.0]
- Confinement : [-10.0, 10.0]

{'Length': [2, 3], 'Instant D': [-5.0, 5.0], 'D Coeff': [-5.0, 5.0], 'Alpha': [-10.0, 10.0], 'Speed': [0.0, 1.0], 'Confinement': [-10.0, 10.0]}

Settings Settings

Test Name	Status	Duration
Settings	✅	74ms
Settings Group Getter	✅	32ms
Settings Signal	✅	37ms

Settings Signal

Test Name	Status	Duration
Connect And Emit Direct	✅	2ms
Disconnect	✅	1ms
Block Simple Coalescence Last Value	✅	4ms
Block Without Emits No Output	✅	3ms
Nested Blocks Emit Once At Outer Exit	✅	3ms
Emit Default None Coalesced	✅	1ms
Block Flags Reset After Flush	✅	1ms
Blocked Returns Context Manager Instance	✅	1ms
Internal Block Begin End Paths	✅	2ms
Coalescence Overwrite Multiple Times	✅	1ms
Emit Direct After Previous Block	✅	1ms

Settings Types

Test Name	Status	Duration
Base Setting	✅	1ms
Create Setting From Dict	✅	4ms
Create Setting From Dict Fail	✅	1ms
Spin Int	✅	19ms
Spin Float	✅	3ms
Check Box	✅	3ms
Combo	✅	3ms
Browse File	✅	8ms
File List	✅	3ms
Check Range Int	✅	7ms
Check Range Float	✅	5ms
Button	✅	2ms

Tools Fileio

Test Name	Status	Duration
Add Extension	✅	3ms
Add Suffix	✅	1ms
Get Timestamp For Files	✅	1ms
Get Last File	✅	4ms
Extract Suffix	✅	2ms
Cleanup Process	✅	3ms
Load Dll	✅	7ms
Save Json	✅	3ms
Open Json	✅	1ms
Open Json Bad File	✅	4ms
Save Tif	✅	10ms
Save Tif 2D	✅	3ms
Save Tif Bad Stack	✅	1ms
Open Tif	✅	9ms
Open Tif Bad File	✅	2ms
Save Png	✅	7ms
Save Png Color	✅	9ms
Save Png Bad Sample	✅	1ms
Open Calibration Mat Bad File	✅	1ms
Open Calibration Mat	✅	2ms

Log Test : Get Timestamp For Files

Timestamp with hour : 20260504_142629
Timestamp without hour : 20260504

Log Test : Get Last File

/Users/runner/work/palm-tracer/palm-tracer/palm_tracer/_tests/input/File-03.txt
/Users/runner/work/palm-tracer/palm-tracer/palm_tracer/_tests/input/File-03.txt

Log Test : Load Dll

Unable to load the DLL 'PALMTracer_File.dylib':
      dlopen(/Users/runner/work/palm-tracer/palm-tracer/palm_tracer/DLL/PALMTracer_File.dylib, 0x0006): tried: '/Users/runner/work/palm-tracer/palm-tracer/palm_tracer/DLL/PALMTracer_File.dylib' (no such file), '/System/Volumes/Preboot/Cryptexes/OS/Users/runner/work/palm-tracer/palm-tracer/palm_tracer/DLL/PALMTracer_File.dylib' (no such file), '/Users/runner/work/palm-tracer/palm-tracer/palm_tracer/DLL/PALMTracer_File.dylib' (no such file)

Tools Filemigrator

Test Name	Status	Duration
Open	✅	2ms
Update Meta	✅	3ms
Open Old File	✅	6ms
Open Old Irregular File	✅	3ms
Column Migrator	✅	2ms
Analyze	✅	2ms
Migrate	✅	153ms

Log Test : Analyze

.

Tools Logger

Test Name	Status	Duration
Logger	✅	3ms
Logger Bad Use	✅	1ms
Logger With Use	✅	1ms

Tools Monitoring

Test Name	Status	Duration
Monitoring	✅	1.39s
Monitoring Save	✅	6.65s

Log Test : Monitoring

6 entrées.
Timestamps : [0.0, 0.22, 0.5, 0.75, 1.0, 1.0]
CPU Usage : [0.9, 1.2666666666666666, 2.1999999999999997, 2.033333333333333, 2.8000000000000003, 1.4000000000000001]
GPU Usage : [0, 0, 0, 0, 0, 0]
Memory Usage : [738.59375, 738.59375, 738.59375, 738.59375, 738.59375, 738.59375]
Disk Usage : [0, 0.0, 0.0, 0.0, 0.0, 0.0]

Log Test : Monitoring Save

Simulating high CPU usage for 2 seconds...
CPU simulation complete.
Allocating 50 MB of memory...
Memory allocated. Holding for 2 seconds...
Releasing memory.
Writing a file of size 1 MB...
File written. Holding for 2 seconds...
Deleting the file...
Disk I/O simulation complete.
Kaleido doesn't work so well need update. No Image Saved.

Tools Ui

Test Name	Status	Duration
Builders	✅	6ms
Builders Spin	✅	3ms
Sync Spin	✅	2ms
Sync Button Group	✅	3ms
Print Error	✅	1ms
Print Warning	✅	1ms
Print Success	✅	1ms
Format Time	✅	1ms

Log Test : Print Error

Message d'erreur

Log Test : Print Warning

Message d'avertissement

Log Test : Print Success

Message de succes

Ui Alignmentwidget

Test Name	Status	Duration
Widget Creation	✅	18ms
Bad Load Tif	✅	5ms
Bad Load Coef	✅	10ms
Bad Compute	✅	6ms
Compute	✅	7ms
Bad Align	✅	6ms
Align	✅	51ms

Ui Astigmatism3Dwidget

Test Name	Status	Duration
Widget Creation	✅	1.25s
Bad Load Loc	✅	130ms
Bad Load Model	✅	186ms
Bad Compute	✅	205ms
Check Loc	✅	261ms
Compute	✅	474ms
Compute Mean Beads	✅	288ms
Compute Remove Bead Col	✅	264ms
Compute Remove Multi	✅	321ms
Compute Z	✅	367ms
Compute Center Z	✅	337ms
Compute Bad Model	✅	368ms
Bad Estimate	✅	152ms
Estimate	✅	282ms
Estimate Backup	✅	234ms
Sync Spin	✅	203ms
Download	✅	200ms

Log Test : Download

/Users/runner/work/palm-tracer/palm-tracer/palm_tracer/_tests/input/ref

Ui Baseplotlywidget

Test Name	Status	Duration
Creation	✅	29ms
Update Plotly	✅	77ms
Update Plotly No Js	✅	48ms
Download Plotly	✅	52ms
Export Plotly	✅	54ms

Log Test : Download Plotly

/Users/runner/work/palm-tracer/palm-tracer/palm_tracer/_tests/output
/Users/runner/work/palm-tracer/palm-tracer/palm_tracer/_tests/output

Log Test : Export Plotly

No figures to export.

Ui Filemigratorwidget

Test Name	Status	Duration
Widget Creation	✅	9ms
Bad Load	✅	7ms
Mirgate	✅	31ms

Ui Graphviewer

Test Name	Status	Duration
Widget Creation	✅	197ms
Add Stack	✅	838ms
Actualize	✅	298ms
Reset Filtered	✅	267ms
Update Filtered	✅	278ms
Update Plot	✅	521ms
Dual Source	✅	383ms
Get Plot Data	✅	758ms
Tracks Source	✅	195ms

Log Test : Add Stack

No valid settings file to load.

Ui Viewerhrwidget

Test Name	Status	Duration
Widget Creation	✅	1.69s
Add Stack	✅	1.14s
Change Source	✅	1.30s
Actualize	✅	1.18s
Reset Filtered	✅	1.02s
Update Filtered	✅	1.20s
Save	✅	1.23s
Screenshot	✅	1.29s
Crop	✅	1.09s
Generate Bad	✅	1.10s
Generate	✅	1.19s
Generate Drift	✅	1.30s

Log Test : Save

INFO: Image file saved successfully.

Log Test : Screenshot

INFO: Screenshot saved successfully.

Log Test : Generate

[04-05-2026 14:27:00] Log opened : /Users/runner/work/palm-tracer/palm-tracer/palm_tracer/_tests/input/stack_PALM_Tracer/log-20260504_142700.log
[04-05-2026 14:27:00] Start Processing.
[04-05-2026 14:27:00] Output folder: /Users/runner/work/palm-tracer/palm-tracer/palm_tracer/_tests/input/stack_PALM_Tracer
[04-05-2026 14:27:00] Meta file saved.
[04-05-2026 14:27:00] Settings saved.
[04-05-2026 14:27:00] Localization disabled.
[04-05-2026 14:27:00] Beads Extraction disabled.
[04-05-2026 14:27:00] Tracking disabled.
[04-05-2026 14:27:00] Blinking Reconnection disabled.
[04-05-2026 14:27:00] Tracks Compute disabled.
[04-05-2026 14:27:00] Gallery generation disabled.
[04-05-2026 14:27:00] Graphical visualization disabled.
[04-05-2026 14:27:00] High-resolution visualization disabled.
[04-05-2026 14:27:00] Processing complete.
[04-05-2026 14:27:00] Log closed : /Users/runner/work/palm-tracer/palm-tracer/palm_tracer/_tests/input/stack_PALM_Tracer/log-20260504_142700.log
Loading setting file '/Users/runner/work/palm-tracer/palm-tracer/palm_tracer/_tests/input/stack_PALM_Tracer/settings-20260504_142700.json'.
       Loading files from the '/Users/runner/work/palm-tracer/palm-tracer/palm_tracer/_tests/input/stack_PALM_Tracer' folder with the timestamp 20260504_142700.
   File 'localizations' loaded successfully.
   File 'localizations_filtered' not found.
    File 'localizations_corrected' not found.
   File 'localizations_corrected_filtered' not found.
  File 'beads' loaded successfully.
   File 'tracking' loaded successfully.
        File 'tracking_filtered' not found.
 File 'tracking_reconnected' not found.
      File 'tracking_reconnected_filtered' not found.
     File 'tracking_MSD' not found.
      File 'tracking_MSD_filtered' not found.
     File 'tracking_InstantD' not found.
 File 'tracking_InstantD_filtered' not found.
        File 'tracking_Fit' not found.
      File 'tracking_Fit_filtered' not found.
     Stack loaded successfully (size: (10, 128, 256)).

Ui Widget

Test Name	Status	Duration
Widget Creation	✅	1.03s
Widget On Load Setting	✅	1.06s
Widget Reset Setting	✅	1.08s
Widget Reset Layer	✅	1.45s
Widget Get Actual Image	✅	1.14s
Widget Add Detection Layers	✅	2.72s
Widget Preview	✅	1.76s
Widget Roi Filter Layer	✅	1.52s
Widget Auto Threshold	✅	1.22s
Widget Thread Process	✅	1.20s
Widget Keyblocker	✅	1.03s
Viewer3D	✅	1.28s

Log Test : Widget Get Actual Image

INFO: Loaded /Users/runner/work/palm-tracer/palm-tracer/palm_tracer/_tests/input/stack.tif into Napari viewer.

Log Test : Widget Roi Filter Layer

INFO: Loaded /Users/runner/work/palm-tracer/palm-tracer/palm_tracer/_tests/input/stack.tif into Napari viewer.

Log Test : Widget Thread Process

INFO: Loaded /Users/runner/work/palm-tracer/palm-tracer/palm_tracer/_tests/input/stack.tif into Napari viewer.
[04-05-2026 14:27:16] Log opened : /Users/runner/work/palm-tracer/palm-tracer/palm_tracer/_tests/input/stack_PALM_Tracer/log-20260504_142716.log
[04-05-2026 14:27:16] Start Processing.
[04-05-2026 14:27:16] Output folder: /Users/runner/work/palm-tracer/palm-tracer/palm_tracer/_tests/input/stack_PALM_Tracer
[04-05-2026 14:27:16] Meta file saved.
[04-05-2026 14:27:16] Settings saved.
[04-05-2026 14:27:16] Localization disabled.
[04-05-2026 14:27:16] Beads Extraction disabled.
[04-05-2026 14:27:16] Tracking disabled.
[04-05-2026 14:27:16] Blinking Reconnection disabled.
[04-05-2026 14:27:16] Tracks Compute disabled.
[04-05-2026 14:27:16] Gallery generation disabled.
[04-05-2026 14:27:16] Graphical visualization disabled.
[04-05-2026 14:27:16] High-resolution visualization disabled.
[04-05-2026 14:27:16] Processing complete.
[04-05-2026 14:27:16] Log closed : /Users/runner/work/palm-tracer/palm-tracer/palm_tracer/_tests/input/stack_PALM_Tracer/log-20260504_142716.log
Auto Threshold: 63.95

Log Test : Widget Keyblocker

INFO: Loading the setting file '/Users/runner/.palm_tracer/settings.json'.
INFO: Loaded /Users/runner/work/palm-tracer/palm-tracer/palm_tracer/_tests/input/stack.tif into Napari viewer.

Log Test : Viewer3D

WARNING: The file must contain the columns X, Y, Z, and Integrated Intensity.