Release Release v1.3.0 · BU-ISCIII/relecov-tools

Release summary for relecov-tools v1.3.0 - 2024-12-23

Included files-folder option for read-lab-metadata when no samples_data.json is provided.
Included folder_names multiple argument for pipeline_manager to specify names of folders to process.
Included send-mail module: Automated email notification module to generate and send validation reports.

logs-to-excel: Now handles logs with multiple keys and includes folder logs in a new sheet called Global Report.
Improved logging messages for duplicated sample IDs in read-lab and download modules.
New method string_to_date() in utils to search for a date pattern within a string.
Integrated jinja2 for template rendering in the mail module.
Mail module configurations added to configuration.json.
Added static method get_invalid_count in log_summary.py.
Included try-except for every module to catch unexpected errors in main.py.
Added, removed, and renamed collecting institutions and their cities.
Updated contact directory to integrate additional institution data.
Added support for multiple recipients in the email_receiver field.
Introduced a new Jinja template for successful and error validation reports.
Modified module logic to dynamically select and render email templates based on user input.
Enhanced email formatting and added a default CC to mails.
Validate module now takes an optional argument to select the name of the sheet to check in the Excel file.

Fixed python linting workflow: It was still waiting for .py files.
files-folder argument: Now works with relative paths in read-lab-metadata.
check-gzip-integrity(): Now catches any exception in utils.py as it only needs to return True when the file can be decompressed.
validate module: Does not crash when no METADATA_LAB sheet is found.
Fixed email module.

Pipeline-manager: fields_to_split is now in configuration.json to group samples by those fields.
Homogenized style of report global report sheet in logs-excel.