import os import pandas as pd import hashlib from pathlib import Path from tqdm import tqdm # Read repos metadata repos_df = pd.read_csv("workdir/repos_checked.csv") repo_meta = repos_df.set_index("full_name")[["keyword", "license"]].to_dict("index") # Process crawled repos print("Processing crawled repos...") crawl_rows = [] filtered_dir = Path("workdir/repos_filtered") for repo_dir in tqdm(list(filtered_dir.iterdir()), desc="Reading filtered repos"): if not repo_dir.is_dir() or repo_dir.name.startswith("."): continue full_name = repo_dir.name.replace("___", "/", 1) meta = repo_meta.get(full_name, {"keyword": "", "license": ""}) for file_path in repo_dir.rglob("*"): if not file_path.is_file(): continue try: with open(file_path, "r", encoding="utf-8", errors="ignore") as f: text = f.read() crawl_rows.append( { "text": text, "repo_name": full_name, "path": str(file_path.relative_to(repo_dir)), "language": file_path.suffix.lstrip(".") or "unknown", "license": meta["license"], "size": len(text), "keyword": meta["keyword"], "text_hash": hashlib.sha256(text.encode()).hexdigest(), "config": "", "split": "", "repo_path": "", "ds_source": "crawl", } ) except Exception as e: print(f"Error reading {file_path}: {e}") crawl_df = pd.DataFrame(crawl_rows) # Load chempile data print("\nLoading chempile data...") chempile_files = sorted(Path("./datasets/all_chempile_code").glob("chempile_code_complete_*.csv")) chempile_df = pd.concat([pd.read_csv(f) for f in tqdm(chempile_files)], ignore_index=True) chempile_df["ds_source"] = "chempile" # Merge and compute unified text_hash for all rows print("\nMerging datasets...") merged_df = pd.concat([chempile_df, crawl_df], ignore_index=True) original_count = len(merged_df) # Compute text_hash for all rows (unified hash) print("Computing unified text_hash for all rows...") merged_df["text_hash"] = merged_df["text"].apply(lambda x: hashlib.sha1(str(x).encode()).hexdigest()) # Deduplicate by text_hash print("Deduplicating by text_hash...") merged_df = merged_df.drop_duplicates(subset=["text_hash"], keep="first") # Save in 500MB chunks print("\nSaving in 500MB chunks...") merged_data_dir = "./datasets/data_merged" os.makedirs(merged_data_dir, exist_ok=True) merged_df.to_csv(f"{merged_data_dir}/dataset_all.csv") MAX_SIZE_MB = 500 chunk_num = 1 rows_per_chunk = 50000 start_idx = 0 while start_idx < len(merged_df): end_idx = min(start_idx + rows_per_chunk, len(merged_df)) chunk_df = merged_df.iloc[start_idx:end_idx] output_path = f"{merged_data_dir}/{chunk_num:03d}.csv" chunk_df.to_csv(output_path, index=False) size_mb = os.path.getsize(output_path) / (1024 * 1024) if size_mb > 0: rows_per_chunk = int(rows_per_chunk * (MAX_SIZE_MB / size_mb) * 0.95) print(f"Saved {output_path}: {size_mb:.1f}MB, {len(chunk_df):,} rows") start_idx = end_idx chunk_num += 1 print(f"\nTotal: {len(merged_df):,} rows ({len(crawl_df):,} crawl + {len(chempile_df):,} chempile)") print(f"Deduplicated: {len(chempile_df) + len(crawl_df) - len(merged_df):,} rows removed")