(run_dir: Path)
| 288 | |
| 289 | |
| 290 | def write_workflow(run_dir: Path) -> None: |
| 291 | scripts_dir = run_dir / "workflow" / "scripts" |
| 292 | scripts_dir.mkdir(parents=True, exist_ok=True) |
| 293 | shutil.copy2(WORKFLOW_ROOT / "run_bulk_de.R", scripts_dir / "run_bulk_de.R") |
| 294 | |
| 295 | |
| 296 | def r_command(args: argparse.Namespace, run_dir: Path, method: dict[str, Any]) -> list[str]: |