Feature/core

[glrs]

This pull request introduces significant changes to the AbstractProject class in the lib/base/abstract_project.py file to improve project initialization and management. Additionally, it refactors the project processing logic in the ygg-mule.py and ygg_trunk.py scripts by moving database checks and project creation into the AbstractProject class.

Key changes include:

Enhancements to AbstractProject class:

• Added custom_logger for logging purposes and initialized it within the AbstractProject class.
• Renamed the yggdrasil_db_manager attribute to ydm for brevity.
• Enhanced the __init__ method to initialize additional attributes such as project_id, doc_id, method, status, project_info, samples, and proceed.
• Added the initialize_project_in_db method to handle project initialization in the Yggdrasil database.
• Added the add_samples_to_project_in_db method to add samples to the project in the Yggdrasil database.

Refactoring of project processing logic:

• Removed redundant project existence checks and creation logic from ygg-mule.py and ygg_trunk.py scripts, as these are now handled within the AbstractProject class. [1] [2]