Test Report Ci Ubuntu-Latest 3.13

Environnement

Python

3.13.12

Platform

Linux-6.17.0-1008-azure-x86_64-with-glibc2.39

CI

true

System

Linux

CPU

AMD EPYC 7763 64-Core Processor (3.25 GHz - 2 Cores (4 Logical))

RAM

15.61 GB

GPU

Error detecting GPU: NVML Shared Library Not Found

Summary

240 tests collected, 240 passed ✅, 0 failed ❌, 0 skipped ⏭️ in 0:01:34s on 03/04/2026 at 07:45:00

Monitoring

Test Cases

Palmtracer

Test Name

Status

Duration

Reset Result

✅

71ms

Getter Localization

✅

43ms

Getter Beads

✅

40ms

Getter Tracks

✅

43ms

Getter Tracks Compute

✅

40ms

Get Status

✅

45ms

Getter Path

✅

41ms

Getter Stack

✅

40ms

Getter Suffix

✅

41ms

Load Bad Dll

✅

41ms

Load Nothing

✅

42ms

Load

✅

112ms

Process No Input

✅

40ms

Process Nothing

✅

174ms

Process Bad Dll

✅

44ms

Process Multiple Stack

✅

77ms

Process Only Localization

✅

82ms

Process Only Localization Spline Bad

✅

52ms

Process Only Localization Spline

✅

100ms

Process Only Beads Extraction No Beads

✅

71ms

Process Plane Discontinuous

✅

45ms

Process Only Beads Extraction

✅

85ms

Process Only Tracking

✅

367ms

Process Only Tracking Blinking

✅

602ms

Process Only Tracks Compute

✅

118ms

Process Only Visualization Hr

✅

238ms

Process Only Visualization Graph

✅

5.75s

Process Only Gallery

✅

70ms

Process All

✅

5.81s

Reset Filtered

✅

44ms

Update Filtered

✅

68ms

Save Filtered

✅

50ms

Filter Plan

✅

70ms

Filter All Localization

✅

116ms

Filter All Tracking

✅

87ms

Filter All Tracks Compute

✅

160ms

Filter Outside

✅

59ms

Add Color

✅

67ms
Log Test : Update Filtered 
[03-04-2026 07:43:41] Log opened : /home/runner/work/palm-tracer/palm-tracer/palm_tracer/_tests/input/stack_PALM_Tracer/log-20260403_074341.log
[03-04-2026 07:43:41] Start Processing.
[03-04-2026 07:43:41] Output folder: /home/runner/work/palm-tracer/palm-tracer/palm_tracer/_tests/input/stack_PALM_Tracer
[03-04-2026 07:43:41] Settings saved.
[03-04-2026 07:43:41] Meta file saved.
[03-04-2026 07:43:41] Localization disabled.
[03-04-2026 07:43:41]  Loading a pre-computed localization file.
[03-04-2026 07:43:41]      File '/home/runner/work/palm-tracer/palm-tracer/palm_tracer/_tests/input/stack_PALM_Tracer/localizations-20260403_074341.csv' loaded successfully, 451 localization(s) found.
[03-04-2026 07:43:41] Beads Extraction disabled.
[03-04-2026 07:43:41]      No pre-computed beads extraction data.
[03-04-2026 07:43:41] Tracking disabled.
[03-04-2026 07:43:41]     No pre-computed tracking data.
[03-04-2026 07:43:41] Blinking Reconnection disabled.
[03-04-2026 07:43:41] Tracks Computes disabled.
[03-04-2026 07:43:41]     No pre-computed tracks computes data.
[03-04-2026 07:43:41]  No pre-computed tracks computes data.
[03-04-2026 07:43:41]  No pre-computed tracks computes data.
[03-04-2026 07:43:41] High-resolution visualization disabled.
[03-04-2026 07:43:41] Graphical visualization disabled.
[03-04-2026 07:43:41] Gallery generation disabled.
[03-04-2026 07:43:41] Processing complete.
[03-04-2026 07:43:41] Log closed : /home/runner/work/palm-tracer/palm-tracer/palm_tracer/_tests/input/stack_PALM_Tracer/log-20260403_074341.log

Processing Astigmatism3D

Test Name

Status

Duration

Get Z From Planes

✅

2ms

Get Z From Step

✅

1ms

Remove Multi Loc

✅

12ms

Sigma Model

✅

1ms

Model Validity

✅

3ms

Model Projection Validity

✅

15ms
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.

Processing Drift

Test Name

Status

Duration

Extract Bead Bad Input

✅

6ms

Extract Beads No Match Returns Empty

✅

6ms

Assign Tracks No Pairs

✅

1ms

Assign Tracks Skip Used Track

✅

1ms

Extract Beads

✅

63ms

Remove Beads

✅

11ms

Get Drift Bad Input

✅

7ms

Get Drift

✅

32ms

Apply Drift Bad Input

✅

2ms

Apply Drift

✅

20ms

Chain Drift

✅

28ms

Drift Correction

✅

35ms

Processing Grapher

Test Name

Status

Duration

Blank

✅

197ms

Histogram

✅

715ms

Scatter

✅

424ms

Cloud

✅

891ms

Astigmatism3D Curve

✅

73ms

Processing Palm

Test Name

Status

Duration

Palm Dll Valid

✅

2ms

Palm Cpu Empty Result

✅

7ms

Palm Cpu Image

✅

1.20s

Palm Cpu Stack

✅

5.31s

Palm Cpu Stack Plane Selection

✅

292ms

Palm Cpu Stack Dll Check Quadrant

✅

378ms

Cpu Auto Threshold

✅

58ms

Tracking

✅

8.98s

Blinking Reconnection

✅

298ms

Tracks Compute

✅

81ms

Align

✅

94ms

Wavelett

✅

57ms

Astigmatism 3D Calibration

✅

10ms

Astigmatism 3D Estimation

✅

4ms
Log Test : Palm Cpu Image 
Comparaison avec : '/home/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 : '/home/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 : '/home/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 : '/home/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%)
Comparaison avec : '/home/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%)
Log Test : Palm Cpu Stack 
Comparaison avec : '/home/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 : '/home/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 : '/home/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 : '/home/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%)
Comparaison avec : '/home/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 : '/home/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 : '/home/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 : '/home/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 : '/home/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%)
Comparaison avec : '/home/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 
Comparaison avec : '/home/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 
Comparaison terminée : 269 Points comparés, 269 Points identiques (100.00%)
Log Test : Tracking 
Comparaison avec : '/home/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 : '/home/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 : '/home/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 : '/home/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 : '/home/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 '/home/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 : '/home/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 : '/home/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 : '/home/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 : '/home/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 : '/home/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 '/home/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 : '/home/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 : '/home/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 : '/home/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 : '/home/runner/work/palm-tracer/palm-tracer/palm_tracer/_tests/input/ref/tracking2-MSD-True.csv'
Comparaison avec : '/home/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 : '/home/runner/work/palm-tracer/palm-tracer/palm_tracer/_tests/input/ref/tracking2-MSD-False.csv'
Comparaison avec : '/home/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 : '/home/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 : '/home/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 : '/home/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

✅

4ms

Rearrange Dataframe Columns

✅

4ms

Log10 Dataframe

✅

4ms

Parse Irregular Array

✅

2ms

Parse Result

✅

22ms

Parse Localization For Tracking

✅

5ms

Processing Renderer

Test Name

Status

Duration

Set Size

✅

1ms

Get Localization Colors

✅

8ms

Get Tracks Colors

✅

38ms

Draw Line

✅

2ms

Localizations

✅

1ms

Tracks

✅

2ms

Processing Visualization

Test Name

Status

Duration

Normalize Data

✅

1ms

Render Hr Image

✅

15ms

Render Hr Image Bad Input

✅

1ms

Render Tracks Image

✅

18ms

Render Tracks Image Bad Input

✅

5ms

Render Roi

✅

42ms

Render Roi Bad Input

✅

2ms

Plot Histogram

✅

1.04s

Plot Histogram Bad Input

✅

184ms

Plot Violin

✅

760ms

Plot Violin Bad Input

✅

92ms

Plot Heatmap

✅

526ms

Plot Heatmap Bad Input

✅

98ms

Settings Groups

Test Name

Status

Duration

Base Group

✅

2ms

Batch

✅

69ms

Batch Get Path

✅

5ms

Batch Get Stacks

✅

13ms

Calibration

✅

8ms

Localization

✅

20ms

Gaussian Fit

✅

7ms

Spline Fit

✅

6ms

Beads

✅

5ms

Tracking

✅

4ms

Tracks Blinking Reconnection

✅

9ms

Tracks Computes

✅

9ms

Gallery

✅

5ms

Visualization Hr

✅

7ms

Visualization Graph

✅

5ms

Filtering

✅

49ms

Filtering L

✅

26ms

Filtering T

✅

18ms
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
- 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, '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

{'Mode': 2, 'Sigma': 1.0, 'Theta': 0.0}
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 : Filtering 
FilteringL id: 140190814758544
X id: 140190813487952
limits id 140190814257600
- Activate : True
- Save : True
- Plane : [1, 100000]
- Localization :
  - Activate : True
  - X : [0, 100000]
  - Y : [0, 100000]
  - Z : [-1000, 1000]
  - Intensity : [0, 10000000]
  - Sigma X : [0.0, 10.0]
  - Sigma Y : [0.0, 10.0]
  - Circularity : [0.0, 1.0]
  - Theta : [-180.0, 180.0]
  - 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': [-1000, 1000], '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': [-180.0, 180.0], '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 : Filtering L 
FilteringL id: 140190814758544
X id: 140190499981648
limits id 140190516288128
- Activate : True
- X : [2, 9]
- Y : [0, 100000]
- Z : [-1000, 1000]
- Intensity : [0, 10000000]
- Sigma X : [0.0, 10.0]
- Sigma Y : [0.0, 10.0]
- Circularity : [0.0, 1.0]
- Theta : [-180.0, 180.0]
- MSE XY : [0.0, 1.0]
- MSE Z : [0.0, 1.0]

{'X': [2, 9], 'Y': [0, 100000], 'Z': [-1000, 1000], 'Intensity': [0, 10000000], 'Sigma X': [0.0, 10.0], 'Sigma Y': [0.0, 10.0], 'Circularity': [0.0, 1.0], 'Theta': [-180.0, 180.0], 'MSE XY': [0.0, 1.0], 'MSE Z': [0.0, 1.0]}
Log Test : Filtering 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

✅

90ms

Settings Group Getter

✅

46ms

Settings Signal

✅

50ms

Settings Signal

Test Name

Status

Duration

Connect And Emit Direct

✅

1ms

Disconnect

✅

1ms

Block Simple Coalescence Last Value

✅

1ms

Block Without Emits No Output

✅

1ms

Nested Blocks Emit Once At Outer Exit

✅

1ms

Emit Default None Coalesced

✅

1ms

Block Flags Reset After Flush

✅

1ms

Blocked Returns Context Manager Instance

✅

1ms

Internal Block Begin End Paths

✅

1ms

Coalescence Overwrite Multiple Times

✅

1ms

Emit Direct After Previous Block

✅

1ms

Settings Types

Test Name

Status

Duration

Base Setting

✅

2ms

Create Setting From Dict

✅

5ms

Create Setting From Dict Fail

✅

1ms

Spin Int

✅

3ms

Spin Float

✅

3ms

Check Box

✅

2ms

Combo

✅

3ms

Browse File

✅

3ms

File List

✅

4ms

Check Range Int

✅

4ms

Check Range Float

✅

5ms

Button

✅

2ms

Tools Fileio

Test Name

Status

Duration

Add Extension

✅

1ms

Add Suffix

✅

1ms

Get Timestamp For Files

✅

1ms

Get Last File

✅

2ms

Extract Suffix

✅

1ms

Load Dll

✅

2ms

Save Json

✅

1ms

Open Json

✅

1ms

Open Json Bad File

✅

1ms

Save Tif

✅

2ms

Save Tif 2D

✅

2ms

Save Tif Bad Stack

✅

1ms

Open Tif

✅

4ms

Open Tif Bad File

✅

1ms

Save Png

✅

7ms

Save Png Color

✅

12ms

Save Png Bad Sample

✅

1ms

Open Calibration Mat Bad File

✅

1ms

Open Calibration Mat

✅

3ms
Log Test : Get Timestamp For Files 
Timestamp with hour : 20260403_074405
Timestamp without hour : 20260403
Log Test : Get Last File 
/home/runner/work/palm-tracer/palm-tracer/palm_tracer/_tests/input/File-03.txt
/home/runner/work/palm-tracer/palm-tracer/palm_tracer/_tests/input/File-03.txt
Log Test : Load Dll 
Unable to load the DLL 'PALMTracer_File.so':
 /home/runner/work/palm-tracer/palm-tracer/palm_tracer/DLL/PALMTracer_File.so: cannot open shared object file: No such file or directory

Tools Filemigrator

Test Name

Status

Duration

Open

✅

4ms

Update Meta

✅

5ms

Open Old File

✅

5ms

Open Old Irregular File

✅

4ms

Column Migrator

✅

3ms

Analyze

✅

4ms

Migrate

✅

332ms
Log Test : Analyze 
.

Tools Logger

Test Name

Status

Duration

Logger

✅

6ms

Logger Bad Use

✅

2ms

Logger With Use

✅

3ms

Tools Monitoring

Test Name

Status

Duration

Monitoring

✅

1.20s

Monitoring Save

✅

6.83s
Log Test : Monitoring 
6 entrées.
Timestamps : [0.0, 0.2, 0.41, 0.61, 0.82, 1.0]
CPU Usage : [0.0, 0.0, 0.0, 0.0, 0.0, 2.5]
GPU Usage : [0, 0, 0, 0, 0, 0]
Memory Usage : [635.296875, 635.3046875, 635.3203125, 635.328125, 635.3359375, 635.33203125]
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

✅

4ms

Builders Spin

✅

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

✅

7ms

Bad Load Tif

✅

6ms

Bad Load Coef

✅

54ms

Bad Compute

✅

6ms

Compute

✅

7ms

Bad Align

✅

9ms

Align

✅

34ms

Ui Astigmatism3Dwidget

Test Name

Status

Duration

Widget Creation

✅

881ms

Bad Load Loc

✅

146ms

Bad Load Model

✅

142ms

Bad Compute

✅

141ms

Compute

✅

369ms

Compute Remove Multi

✅

364ms

Compute Z

✅

365ms

Compute Center Z

✅

359ms

Bad Estimate

✅

188ms

Estimate

✅

257ms

Estimate Backup

✅

272ms

Sync Spin

✅

189ms

Download

✅

208ms
Log Test : Download 
/home/runner/work/palm-tracer/palm-tracer/palm_tracer/_tests/input/ref

Ui Baseplotlywidget

Test Name

Status

Duration

Creation

✅

41ms

Update Plotly

✅

51ms

Update Plotly No Js

✅

49ms

Download Plotly

✅

53ms

Export Plotly

✅

56ms
Log Test : Download Plotly 
/home/runner/work/palm-tracer/palm-tracer/palm_tracer/_tests/output
/home/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

✅

7ms

Bad Load

✅

7ms

Mirgate

✅

33ms

Ui Graphviewer

Test Name

Status

Duration

Widget Creation

✅

256ms

Add Stack

✅

354ms

Actualize

✅

559ms

Reset Filtered

✅

363ms

Update Filtered

✅

468ms

Update Plot

✅

907ms

Dual Source

✅

474ms

Get Plot Data

✅

1.09s

Tracks Source

✅

261ms
Log Test : Add Stack 
No valid settings file to load.

Ui Viewerhrwidget

Test Name

Status

Duration

Widget Creation

✅

1.83s

Add Stack

✅

1.43s

Change Source

✅

1.42s

Actualize

✅

1.41s

Reset Filtered

✅

1.42s

Update Filtered

✅

1.43s

Save

✅

1.45s

Generate

✅

1.46s

Generate Drift

✅

1.50s
Log Test : Save 
INFO: Image file saved successfully.

Ui Widget

Test Name

Status

Duration

Widget Creation

✅

1.39s

Widget On Load Setting

✅

1.39s

Widget Reset Setting

✅

1.43s

Widget Reset Layer

✅

2.00s

Widget Get Actual Image

✅

1.62s

Widget Add Detection Layers

✅

4.35s

Widget Preview

✅

1.88s

Widget Roi Filter Layer

✅

1.85s

Widget Auto Threshold

✅

1.65s

Widget Thread Process

✅

1.69s

Widget Keyblocker

✅

1.68s

Viewer3D

✅

1.80s
Log Test : Widget Get Actual Image 
INFO: Loaded /home/runner/work/palm-tracer/palm-tracer/palm_tracer/_tests/input/stack.tif into Napari viewer.
Log Test : Widget Roi Filter Layer 
INFO: Loaded /home/runner/work/palm-tracer/palm-tracer/palm_tracer/_tests/input/stack.tif into Napari viewer.
Log Test : Widget Thread Process 
INFO: Loaded /home/runner/work/palm-tracer/palm-tracer/palm_tracer/_tests/input/stack.tif into Napari viewer.
INFO: Thread Process done.
[03-04-2026 07:44:54] Log opened : /home/runner/work/palm-tracer/palm-tracer/palm_tracer/_tests/input/stack_PALM_Tracer/log-20260403_074454.log
[03-04-2026 07:44:54] Start Processing.
[03-04-2026 07:44:54] Output folder: /home/runner/work/palm-tracer/palm-tracer/palm_tracer/_tests/input/stack_PALM_Tracer
[03-04-2026 07:44:54] Settings saved.
[03-04-2026 07:44:54] Meta file saved.
[03-04-2026 07:44:54] Localization disabled.
[03-04-2026 07:44:54]   No pre-computed localization data.
[03-04-2026 07:44:54] Beads Extraction disabled.
[03-04-2026 07:44:54]         No pre-computed beads extraction data.
[03-04-2026 07:44:54] Tracking disabled.
[03-04-2026 07:44:54]     No pre-computed tracking data.
[03-04-2026 07:44:54] Blinking Reconnection disabled.
[03-04-2026 07:44:54] Tracks Computes disabled.
[03-04-2026 07:44:54]     No pre-computed tracks computes data.
[03-04-2026 07:44:54]  No pre-computed tracks computes data.
[03-04-2026 07:44:54]  No pre-computed tracks computes data.
[03-04-2026 07:44:54] High-resolution visualization disabled.
[03-04-2026 07:44:54] Graphical visualization disabled.
[03-04-2026 07:44:54] Gallery generation disabled.
[03-04-2026 07:44:54] Processing complete.
[03-04-2026 07:44:54] Log closed : /home/runner/work/palm-tracer/palm-tracer/palm_tracer/_tests/input/stack_PALM_Tracer/log-20260403_074454.log
INFO: Thread Process done.
Auto Threshold: 63.95
INFO: Thread Process done.
Log Test : Widget Keyblocker 
INFO: Loading the setting file '/home/runner/.palm_tracer/settings.json'.
INFO: Loaded /home/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.