Description:
Add functionality to log the steps performed or skipped during the variant analysis process. The log should explain why certain steps were skipped (e.g., variant already in VCF format, thus variant recoder skipped).
Acceptance Criteria:
Implement logging for each step of the process.
Include explanations for skipped steps.
Provide an option to enable or disable logging through command-line parameters.
Description:
Add functionality to log the steps performed or skipped during the variant analysis process. The log should explain why certain steps were skipped (e.g., variant already in VCF format, thus variant recoder skipped).
Acceptance Criteria: