Feature/cluster 1

[dermatologist]

No description provided.

[Copilot]

Pull Request Overview

This PR adds new test suites and updates core modules to enhance data visualization, file reading, neural network modeling with PyTorch, and clustering functionality.

• Added/updated tests for visualization, NLP and numerical output.
• Updated file reading to accept different input types and refactored ML modules to use PyTorch.
• Introduced clustering extensions and updated packaging configuration.

Reviewed Changes

Copilot reviewed 15 out of 17 changed files in this pull request and generated 2 comments.

Show a summary per file

File	Description
tests/test_visualize.py	Added tests for QRVisualize plotting functions.
tests/test_readfiles.py	Updated tests to use a single filename instead of a list.
tests/test_num.py	Adjusted assertion to match updated output capitalization.
tests/test_nlp.py	Minor improvements in fixtures and assertions.
test.py	Added a standalone test for spaCy based NLP processing.
src/qrmine/visualize.py	Implements various plotting methods using matplotlib and wordcloud; includes wordcloud function.
src/qrmine/readfiles.py	Refactored read_file function to support file, folder, and URL inputs.
src/qrmine/mlqrmine.py	Replaces Keras-based NN with PyTorch implementation for predictions and evaluation.
src/qrmine/content.py	Minor addition: exposing tokens property for filtering processed tokens.
src/qrmine/cluster.py	New file added for clustering operations using LDA and topic representations.
src/qrmine/init.py	Updated to include new modules for clustering and visualization.
pyproject.toml	Updated project metadata and dependencies.
notes/*.md	Added/updated documentation notes on pip-tools and conda environment setup.

Files not reviewed (2)

• setup.cfg: Language not supported
• src/qrmine/resources/df_dominant_topic.csv: Language not supported

[Copilot]

The type-check conditions in read_file are redundant since all inputs are checked as 'str'. Consider distinguishing file, folder, and URL cases with dedicated checks (e.g. os.path.isfile, os.path.isdir, or URL pattern matching) to ensure the correct branch is executed.

Suggested change

	# if input is a folder name
	elif isinstance(input, str):
	import os
	# Check if input is a folder
	elif os.path.isdir(input):

[Copilot]

The lambda in the WordCloud instantiation captures 'i', which is undefined at that point. Capture the current index explicitly (e.g. using a default parameter like lambda *args, i=i, **kwargs: cols[i]) to fix the reference.

Suggested change

	color_func=lambda *args, **kwargs: cols[i],
	color_func=lambda *args, i=i, **kwargs: cols[i],