`tmd==2.2.0` changed slightly the API

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#86 opened on Mar 28, 2023 0 comments 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: python
Domain: machine-learning

Research direction

Start in morphoclass/utils.py around line 53, where SectionType.basal_dendrite indexes TYPE_DCT with "basal". Inspect the tmd 2.2.0 API and nearby uses of TYPE_DCT to determine the compatible key mapping. Done means importing morphoclass.utils succeeds with tmd 2.2.0 without the KeyError.

Written by the indexing model from the issue text.

Description

TYPE_DCT is a dictionary created by tmd package and the key values changed in the new version 2.2.0

 from morphoclass.utils import print_warning                                                                                                                                                            
  File "/gpfs/bbp.cscs.ch/project/proj148/home/dictus/play_with_morphology/morphoclass/venv/lib/pyth                                                                                                       
on3.8/site-packages/morphoclass/utils.py", line 53, in <module>                                                                                                                                            
    SectionType.basal_dendrite: TYPE_DCT["basal"],                                                                                                                                                         
KeyError: 'basal'

Dominant language: Python
Stars: 12
Forks: 6
PR merge metrics: No merged PRs in 30d

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