Empty output directories

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#1 opened on Jun 14, 2022 1 comment 0 reactions 0 assignees View on GitHub

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Assessment

Difficulty: 3/5
Estimated time: 1-2 days
Newbie friendliness: 35/100

Issue type: Bug
Clarity: Mostly clear
Activity status: Stale
Tech stack: matlab, python
Domain: backend

Research direction

Reproduce the Windows run from AnalyzeDeluxe3D.m and follow the traceback through Call_Me_At_The_End.py into Batch_Droplet_Class_Analysis.py, especially the directory listing at line 94. Check how the CoordsAndCurves path is constructed and confirm the fix by rerunning the example until the output directory is populated without FileNotFoundError.

Written by the indexing model from the issue text.

Description

On Windows, there is a scenario where the output/ folder remains empty when running AnalyzeDeluxe3D.m. In the MATLAB output, there is this error message:

Traceback (most recent call last): 
  File "Call_Me_At_The_End.py", line 17, in <module> 
    BDCA.Load_Dict_From_Matfile(test_matfile_file_path) 
  File "C:\Users\Administrator\Desktop\STRESS-main\STRESS-main\Batch_Droplet_Class_Analysis.py", line 54, in Load_Dict_From_Matfile 
    Batch_Droplet_Class_Analysis(Loaded_Dict) 
  File "C:\Users\Administrator\Desktop\STRESS-main\STRESS-main\Batch_Droplet_Class_Analysis.py", line 94, in __init__ 
    for index, file in enumerate(sorted(os.listdir(str(directory).replace("\\","/")))): 
FileNotFoundError: [WinError 3] The system cannot find the path specified: 'C:/Users/Username/Desktop/STRESS-main/STRESS-main/Short_ExampleTifSequence-InteriorLabel-vsx_2.076um-vsz_3.998um-TimeInterval_3.00min-21timesteps-1_analyzed_2022_6_13_18_25/seg3DResults-Quick Edge Detection - Parallelized/CoordsAndCurves_2022_6_13_18_25'

This error is related to this: https://stackoverflow.com/questions/19187812/os-listdir-cant-see-my-directory

Dominant language: Python
Stars: 8
Forks: 4
PR merge metrics: No merged PRs in 30d

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