Use pyproject.toml and update CLI flag

[Ulthran]

Summary

• adopt pyproject.toml with setuptools dynamic version and console entry point
• remove legacy setup.py and scripts directory
• replace --has-index with --no-index flag in backup CLI

Testing

• black .
• pytest

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https://chatgpt.com/codex/tasks/task_e_68a60f1b02fc8323ba0e689d7e1bfe2d

[Copilot]

Pull Request Overview

This PR modernizes the package configuration by migrating from legacy setup.py to pyproject.toml and improves the CLI interface by replacing the confusing --has-index flag with a clearer --no-index flag.

• Migrated from setup.py to pyproject.toml with dynamic versioning
• Replaced legacy script with console entry point
• Changed CLI flag from --has-index to --no-index for better usability

Reviewed Changes

Copilot reviewed 4 out of 4 changed files in this pull request and generated no comments.

File	Description
setup.py	Removed legacy setup.py configuration file
pyproject.toml	Added modern package configuration with dynamic versioning and console entry point
scripts/backup_illumina.py	Removed legacy script file
seqBackupLib/backup.py	Updated CLI argument from --has-index to --no-index with proper action and help text

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