Commands¶
| Command | Description |
|---|---|
neuromaestro run | Submit pipeline jobs to SLURM |
neuromaestro init | Initialise a new project directory with config and script templates |
neuromaestro check-outputs | Inspect which subjects completed a task |
neuromaestro detect-subjects | Find subject IDs in a directory |
neuromaestro list-tasks | List all configured tasks |
neuromaestro generate-config | Generate a blank project config template |
neuromaestro generate-checks | Generate a blank results-check config template |
neuromaestro merge-logs | Manually merge JSONL logs into the SQLite database |
neuromaestro force-rebuild | Rebuild a fresh database from all JSONL logs, including archived |
neuromaestro generate-report | Generate a standalone HTML report from the job database |
python -m neuromaestro.pipeline.utils.job_db query_jobs | Print recent job records from the database (the command run prints at the end) |
neuromaestro-gui | Launch the web-based GUI |
neuromaestro run
All flags for submitting pipeline jobs — subjects, stages, dry-run, resume, wait.
Database Commands
check-outputs, merge-logs, force-rebuild, query_jobs, generate-report, and the database schema.
Utility Commands
detect-subjects, init, list-tasks, neuromaestro-gui, generate-config, generate-checks.