Fix hardcoded path for Lightning AI compatibility

- Use Path.cwd() instead of hardcoded Mac path
- Enables cross-platform execution on Lightning AI and other cloud environments

Author: Chris2004m

scripts/generation/generate_esm2_peptides.py

@@ -116,8 +116,8 @@ def write_fasta(sequences: List[str], output_file: Path, prefix: str = "peptide"
 def generate_esm2_datasets():
     """Generate all 4 ESM2-based peptide datasets."""
 
-    # Configuration
-    base_dir = Path("/Users/chris/Desktop/Griffith Lab/Peptide Sequence Synthesis")
+    # Configuration - Use current working directory for cross-platform compatibility
+    base_dir = Path.cwd()  # Current working directory
     output_dir = base_dir / "data" / "ESM2_1M_Peptides"
 
     lengths = [8, 9, 10, 11]