Automated Mass Spectrometry Data Pipeline Orchestration

Design a robust Bash script that can automatically process large-scale mass spectrometry raw data files from multiple instrument models (Thermo Fisher, Bruker, Waters). The script must: 1) Detect new .raw files in a watched directory, 2) Validate file integrity using cryptographic checksums, 3) Convert files to standardized mzML format using appropriate conversion tools, 4) Dynamically allocate computational resources based on file size, 5) Log all processing steps with timestamps and error tracking, 6) Integrate with a remote HPC cluster for parallel processing of large datasets.