Test Report Ci Ubuntu-Latest 3.10

Environnement

Python

3.10.20

Platform

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

CI

true

System

Linux

CPU

AMD EPYC 7763 64-Core Processor (3.05 GHz - 2 Cores (4 Logical))

RAM

15.62 GB

GPU

Error detecting GPU: NVML Shared Library Not Found

Summary

240 tests collected, 240 passed ✅, 0 failed ❌, 0 skipped ⏭️ in 0:01:27s on 03/04/2026 at 07:44:46

Monitoring

Test Cases

Palmtracer

Test Name

Status

Duration

Reset Result

✅

73ms

Getter Localization

✅

45ms

Getter Beads

✅

41ms

Getter Tracks

✅

45ms

Getter Tracks Compute

✅

42ms

Get Status

✅

51ms

Getter Path

✅

43ms

Getter Stack

✅

42ms

Getter Suffix

✅

48ms

Load Bad Dll

✅

46ms

Load Nothing

✅

52ms

Load

✅

120ms

Process No Input

✅

43ms

Process Nothing

✅

223ms

Process Bad Dll

✅

42ms

Process Multiple Stack

✅

89ms

Process Only Localization

✅

89ms

Process Only Localization Spline Bad

✅

59ms

Process Only Localization Spline

✅

107ms

Process Only Beads Extraction No Beads

✅

76ms

Process Plane Discontinuous

✅

50ms

Process Only Beads Extraction

✅

79ms

Process Only Tracking

✅

282ms

Process Only Tracking Blinking

✅

75ms

Process Only Tracks Compute

✅

135ms

Process Only Visualization Hr

✅

236ms

Process Only Visualization Graph

✅

5.40s

Process Only Gallery

✅

77ms

Process All

✅

5.50s

Reset Filtered

✅

47ms

Update Filtered

✅

75ms

Save Filtered

✅

54ms

Filter Plan

✅

72ms

Filter All Localization

✅

118ms

Filter All Tracking

✅

105ms

Filter All Tracks Compute

✅

176ms

Filter Outside

✅

47ms

Add Color

✅

68ms
Log Test : Update Filtered 
[03-04-2026 07:43:33] Log opened : /home/runner/work/palm-tracer/palm-tracer/palm_tracer/_tests/input/stack_PALM_Tracer/log-20260403_074333.log
[03-04-2026 07:43:33] Start Processing.
[03-04-2026 07:43:33] Output folder: /home/runner/work/palm-tracer/palm-tracer/palm_tracer/_tests/input/stack_PALM_Tracer
[03-04-2026 07:43:33] Settings saved.
[03-04-2026 07:43:33] Meta file saved.
[03-04-2026 07:43:33] Localization disabled.
[03-04-2026 07:43:33]  Loading a pre-computed localization file.
[03-04-2026 07:43:33]      File '/home/runner/work/palm-tracer/palm-tracer/palm_tracer/_tests/input/stack_PALM_Tracer/localizations-20260403_074333.csv' loaded successfully, 451 localization(s) found.
[03-04-2026 07:43:33] Beads Extraction disabled.
[03-04-2026 07:43:33]      No pre-computed beads extraction data.
[03-04-2026 07:43:33] Tracking disabled.
[03-04-2026 07:43:33]     No pre-computed tracking data.
[03-04-2026 07:43:33] Blinking Reconnection disabled.
[03-04-2026 07:43:33] Tracks Computes disabled.
[03-04-2026 07:43:33]     No pre-computed tracks computes data.
[03-04-2026 07:43:33]  No pre-computed tracks computes data.
[03-04-2026 07:43:33]  No pre-computed tracks computes data.
[03-04-2026 07:43:33] High-resolution visualization disabled.
[03-04-2026 07:43:33] Graphical visualization disabled.
[03-04-2026 07:43:33] Gallery generation disabled.
[03-04-2026 07:43:33] Processing complete.
[03-04-2026 07:43:33] Log closed : /home/runner/work/palm-tracer/palm-tracer/palm_tracer/_tests/input/stack_PALM_Tracer/log-20260403_074333.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

✅

18ms
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

✅

59ms

Remove Beads

✅

11ms

Get Drift Bad Input

✅

6ms

Get Drift

✅

25ms

Apply Drift Bad Input

✅

3ms

Apply Drift

✅

15ms

Chain Drift

✅

22ms

Drift Correction

✅

26ms

Processing Grapher

Test Name

Status

Duration

Blank

✅

177ms

Histogram

✅

637ms

Scatter

✅

384ms

Cloud

✅

826ms

Astigmatism3D Curve

✅

71ms

Processing Palm

Test Name

Status

Duration

Palm Dll Valid

✅

2ms

Palm Cpu Empty Result

✅

6ms

Palm Cpu Image

✅

1.05s

Palm Cpu Stack

✅

3.39s

Palm Cpu Stack Plane Selection

✅

194ms

Palm Cpu Stack Dll Check Quadrant

✅

256ms

Cpu Auto Threshold

✅

57ms

Tracking

✅

6.73s

Blinking Reconnection

✅

265ms

Tracks Compute

✅

75ms

Align

✅

87ms

Wavelett

✅

64ms

Astigmatism 3D Calibration

✅

9ms

Astigmatism 3D Estimation

✅

5ms
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

✅

3ms

Log10 Dataframe

✅

3ms

Parse Irregular Array

✅

2ms

Parse Result

✅

18ms

Parse Localization For Tracking

✅

4ms

Processing Renderer

Test Name

Status

Duration

Set Size

✅

1ms

Get Localization Colors

✅

6ms

Get Tracks Colors

✅

29ms

Draw Line

✅

1ms

Localizations

✅

1ms

Tracks

✅

1ms

Processing Visualization

Test Name

Status

Duration

Normalize Data

✅

1ms

Render Hr Image

✅

15ms

Render Hr Image Bad Input

✅

2ms

Render Tracks Image

✅

20ms

Render Tracks Image Bad Input

✅

4ms

Render Roi

✅

42ms

Render Roi Bad Input

✅

2ms

Plot Histogram

✅

1.21s

Plot Histogram Bad Input

✅

174ms

Plot Violin

✅

772ms

Plot Violin Bad Input

✅

86ms

Plot Heatmap

✅

498ms

Plot Heatmap Bad Input

✅

86ms

Settings Groups

Test Name

Status

Duration

Base Group

✅

3ms

Batch

✅

77ms

Batch Get Path

✅

4ms

Batch Get Stacks

✅

13ms

Calibration

✅

8ms

Localization

✅

24ms

Gaussian Fit

✅

8ms

Spline Fit

✅

6ms

Beads

✅

5ms

Tracking

✅

4ms

Tracks Blinking Reconnection

✅

7ms

Tracks Computes

✅

8ms

Gallery

✅

5ms

Visualization Hr

✅

7ms

Visualization Graph

✅

4ms

Filtering

✅

47ms

Filtering L

✅

25ms

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: 139891923010320
X id: 139891923018096
limits id 139891922091136
- 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: 139891922921952
X id: 139891922912256
limits id 139891921747392
- 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

✅

86ms

Settings Group Getter

✅

46ms

Settings Signal

✅

49ms

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

✅

4ms

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

✅

2ms

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_074352
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

✅

3ms

Update Meta

✅

4ms

Open Old File

✅

5ms

Open Old Irregular File

✅

4ms

Column Migrator

✅

3ms

Analyze

✅

3ms

Migrate

✅

254ms
Log Test : Analyze 
.

Tools Logger

Test Name

Status

Duration

Logger

✅

8ms

Logger Bad Use

✅

2ms

Logger With Use

✅

3ms

Tools Monitoring

Test Name

Status

Duration

Monitoring

✅

1.20s

Monitoring Save

✅

6.86s
Log Test : Monitoring 
6 entrées.
Timestamps : [0.0, 0.2, 0.41, 0.61, 0.82, 1.01]
CPU Usage : [0.0, 0.0, 0.0, 0.0, 2.5, 0.0]
GPU Usage : [0, 0, 0, 0, 0, 0]
Memory Usage : [653.30859375, 653.3203125, 653.328125, 653.3359375, 653.34765625, 653.34765625]
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

✅

45ms

Bad Compute

✅

5ms

Compute

✅

6ms

Bad Align

✅

6ms

Align

✅

30ms

Ui Astigmatism3Dwidget

Test Name

Status

Duration

Widget Creation

✅

651ms

Bad Load Loc

✅

138ms

Bad Load Model

✅

134ms

Bad Compute

✅

132ms

Compute

✅

340ms

Compute Remove Multi

✅

338ms

Compute Z

✅

337ms

Compute Center Z

✅

334ms

Bad Estimate

✅

176ms

Estimate

✅

244ms

Estimate Backup

✅

245ms

Sync Spin

✅

171ms

Download

✅

191ms
Log Test : Download 
/home/runner/work/palm-tracer/palm-tracer/palm_tracer/_tests/input/ref

Ui Baseplotlywidget

Test Name

Status

Duration

Creation

✅

39ms

Update Plotly

✅

45ms

Update Plotly No Js

✅

45ms

Download Plotly

✅

46ms

Export Plotly

✅

47ms
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

✅

6ms

Mirgate

✅

27ms

Ui Graphviewer

Test Name

Status

Duration

Widget Creation

✅

247ms

Add Stack

✅

343ms

Actualize

✅

531ms

Reset Filtered

✅

361ms

Update Filtered

✅

441ms

Update Plot

✅

852ms

Dual Source

✅

448ms

Get Plot Data

✅

1.01s

Tracks Source

✅

247ms
Log Test : Add Stack 
No valid settings file to load.

Ui Viewerhrwidget

Test Name

Status

Duration

Widget Creation

✅

1.77s

Add Stack

✅

1.35s

Change Source

✅

1.34s

Actualize

✅

1.34s

Reset Filtered

✅

1.38s

Update Filtered

✅

1.38s

Save

✅

1.38s

Generate

✅

1.41s

Generate Drift

✅

1.43s
Log Test : Save 
INFO: Image file saved successfully.

Ui Widget

Test Name

Status

Duration

Widget Creation

✅

1.34s

Widget On Load Setting

✅

1.32s

Widget Reset Setting

✅

1.33s

Widget Reset Layer

✅

1.98s

Widget Get Actual Image

✅

1.62s

Widget Add Detection Layers

✅

4.10s

Widget Preview

✅

2.16s

Widget Roi Filter Layer

✅

1.84s

Widget Auto Threshold

✅

1.60s

Widget Thread Process

✅

1.67s

Widget Keyblocker

✅

1.66s

Viewer3D

✅

1.76s
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 07:44:40] Log opened : /home/runner/work/palm-tracer/palm-tracer/palm_tracer/_tests/input/stack_PALM_Tracer/log-20260403_074440.log
[03-04-2026 07:44:40] Start Processing.
[03-04-2026 07:44:40] Output folder: /home/runner/work/palm-tracer/palm-tracer/palm_tracer/_tests/input/stack_PALM_Tracer
[03-04-2026 07:44:40] Settings saved.
[03-04-2026 07:44:40] Meta file saved.
[03-04-2026 07:44:40] Localization disabled.
[03-04-2026 07:44:40]   No pre-computed localization data.
[03-04-2026 07:44:40] Beads Extraction disabled.
[03-04-2026 07:44:40]         No pre-computed beads extraction data.
[03-04-2026 07:44:40] Tracking disabled.
[03-04-2026 07:44:40]     No pre-computed tracking data.
[03-04-2026 07:44:40] Blinking Reconnection disabled.
[03-04-2026 07:44:40] Tracks Computes disabled.
[03-04-2026 07:44:40]     No pre-computed tracks computes data.
[03-04-2026 07:44:40]  No pre-computed tracks computes data.
[03-04-2026 07:44:40]  No pre-computed tracks computes data.
[03-04-2026 07:44:40] High-resolution visualization disabled.
[03-04-2026 07:44:40] Graphical visualization disabled.
[03-04-2026 07:44:40] Gallery generation disabled.
[03-04-2026 07:44:40] Processing complete.
[03-04-2026 07:44:40] Log closed : /home/runner/work/palm-tracer/palm-tracer/palm_tracer/_tests/input/stack_PALM_Tracer/log-20260403_074440.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.