Modified .rst files and jupyter notebooks to improve readability

[ramosv]

• Jupyter Notebooks outputs updated to improve readability
• More competencies review and update of .rst
• updated non working hyperlinks

[Copilot]

Pull Request Overview

This PR enhances documentation readability across .rst files, updates development dependencies, and refines preprocessing and downstream-task code behavior.

• Streamlined and reformatted documentation in utils.rst, metrics.rst, index.rst, and Sphinx config.
• Added a new build dependency and updated autosummary exports.
• Refactored preprocess_clinical column handling and adjusted logging levels, hyperparameter options, and resource settings in dpmon.py.

Reviewed Changes

Copilot reviewed 39 out of 39 changed files in this pull request and generated 3 comments.

Show a summary per file

File	Description
requirements-dev.txt	Added the build package
docs/source/utils.rst	Reformatted function listings and examples for clarity
docs/source/metrics.rst	Updated examples, ASCII tables, and code snippets
docs/source/index.rst	Simplified installation section and reordered TOC entries
docs/source/conf.py	Enabled custom CSS by moving html_css_files
docs/source/_autosummary/bioneuralnet.utils.preprocess.rst	Exported OrdinalEncoder in the autosummary
bioneuralnet/utils/preprocess.py	Modified column concatenation logic and added (unused) import
bioneuralnet/downstream_task/dpmon.py	Changed log levels, hyperparameter ranges, and CPU allocation

Comments suppressed due to low confidence (1)

bioneuralnet/utils/preprocess.py:103

• The function builds a df_selected including ignored columns but returns df_features[selected_columns] instead of df_selected; update the return to return df_selected.

return df_features[selected_columns]

[abdelhafizm]

lgtm

[ramosv]

@abdelhafizm please review again and merge when all checks pass.

[abdelhafizm]

better