diff --git a/.github/workflows/release.yml b/.github/workflows/release.yml index c7366ae..ed272d6 100644 --- a/.github/workflows/release.yml +++ b/.github/workflows/release.yml @@ -16,7 +16,7 @@ jobs: release: runs-on: ubuntu-latest steps: - - uses: actions/checkout@v4 + - uses: actions/checkout@v5 # Guard the release: the tag, pyproject.toml version, and CHANGELOG.md must # agree. Fail loudly rather than publish a mislabeled release. @@ -48,7 +48,7 @@ jobs: # `uv lock --check` fails if the lock is out of date (e.g. the version was # bumped in pyproject.toml but uv.lock was never re-locked to match). - name: Verify uv.lock is in sync with pyproject.toml - uses: astral-sh/setup-uv@v5 + uses: astral-sh/setup-uv@v7 - name: uv lock --check run: uv lock --check @@ -79,7 +79,7 @@ jobs: echo "file=$notes_file" >> "$GITHUB_OUTPUT" - name: Create GitHub Release - uses: softprops/action-gh-release@v2 + uses: softprops/action-gh-release@v3 with: name: ${{ github.ref_name }} body_path: ${{ steps.notes.outputs.file }} diff --git a/.github/workflows/tests.yml b/.github/workflows/tests.yml index 23a717c..8c719b8 100644 --- a/.github/workflows/tests.yml +++ b/.github/workflows/tests.yml @@ -8,7 +8,7 @@ jobs: pytest: runs-on: ubuntu-latest steps: - - uses: actions/checkout@v4 + - uses: actions/checkout@v5 # Octave is the reference engine for the calibration MATLAB-parity test # (tests/test_calibration_matlab_parity.py). Without it that test skips @@ -21,18 +21,29 @@ jobs: octave --version | head -1 - name: Install uv - uses: astral-sh/setup-uv@v5 + uses: astral-sh/setup-uv@v7 # PsychoPy is deliberately NOT installed: it's a heavy GUI/audio dep whose # transitive build (ffpyplayer → SDL headers) is fragile on headless CI. # The source modules guard their psychopy imports (try/except), so the - # whole test suite imports and runs without it; only pandas is needed at - # runtime (sequences.py). We install just that + pytest and put `src` on - # PYTHONPATH rather than resolving the project's full dependency graph. + # whole test suite imports and runs without it; pandas (sequences.py) and + # pydantic (psyexp-core's manifest models, since core 0.7.0) are needed at + # runtime. We install just those + pytest and put `src` on PYTHONPATH + # rather than resolving the project's full dependency graph. + # + # psyexp-core is installed --no-deps for the same reason: the light modules + # the tests pull in (recording / manifest / rundir / diagnostics / keyboard) + # are import-clean without PsychoPy, so --no-deps avoids dragging the GUI + # stack back in (pydantic, installed above, is its one non-GUI runtime dep + # the tests touch). Its pinned version is read from uv.lock via `uv export` + # rather than hardcoding it here — the lockfile stays the single source of + # truth. - name: Create venv and install minimal test deps run: | uv venv - uv pip install pytest pandas + uv pip install pytest pandas pydantic + uv export --frozen --no-hashes --no-emit-project | grep '^psyexp-core==' > psyexp-core-req.txt + uv pip install --no-deps -r psyexp-core-req.txt # tests/test_overlay.py is excluded: it's not an automated test (no test # functions) but a manual `visual.Window` script that needs a live display diff --git a/AGENTS.md b/AGENTS.md index 74edc7e..9650b53 100644 --- a/AGENTS.md +++ b/AGENTS.md @@ -19,4 +19,44 @@ engine the test skips with a loud warning rather than silently passing. and its PyPI dependencies from `pyproject.toml` (`pip install -e .`). The UV-only sections (`[tool.uv.*]`) and `uv.lock` are silently ignored by pip/conda, so no `pyproject.toml` changes are needed to support conda — conda just resolves dependencies fresh from PyPI instead of from the -lockfile. \ No newline at end of file +lockfile. + +## Shared harness: psyexp-core + +The generic experiment plumbing — fullscreen window + VSYNC/frame-timing setup, timestamped run +directories, the `CsvWriter` base, run-manifest writing, setup-wizard primitives, the instruction +pager, and the keyboard abstraction — lives in the shared [`psyexp-core`](https://github.com/HAPNlab/psyexp-core) +package. This repo keeps only MID-specific logic (trial loop, reward rule, adaptive staircase, +sequences, ratings survey, legacy MATLAB CSV) and consumes the harness as a dependency. + +`psyexp-core` is a **published PyPI package**, declared in `[project].dependencies` as +`psyexp-core>=X.Y`; the exact version is pinned in `uv.lock` so both uv and pip/conda resolve the +same core, and every run's `manifest.json` records the resolved `psyexp_core_version`. + +To **co-develop** the core against this task, overlay an editable sibling checkout. The catch: +`uv.lock` is authoritative, so *any* `uv sync` reverts the overlay back to the locked PyPI version — +`--inexact` does **not** help (it only spares packages absent from the lock, and the core is in it). +The one thing that preserves the overlay is skipping the sync: + +```sh +uv pip install -e ../psyexp-core +uv run --no-sync pytest # or: export UV_NO_SYNC=1 for the shell +``` + +The `just` recipes wrap this: `just core-dev` overlays the editable checkout, then `just core-run` / +`just core-test` run with `--no-sync`; `just core-release` drops it (plain `uv sync`). Don't run a +bare `uv sync`/`uv run` while overlaying — it silently reverts the editable core. For a setup that +survives sync, declare the path source in `pyproject.toml` +(`[tool.uv.sources] psyexp-core = { path = "../psyexp-core", editable = true }`) and keep that edit +local with `git update-index --skip-worktree pyproject.toml uv.lock` so it never lands in a commit. + +**Updating to a new `psyexp-core` release:** a bare `uv sync` won't move it — it installs exactly +what `uv.lock` pins. Re-resolve the lock, then apply it (or run `just core-upgrade`): + +```sh +uv lock --upgrade-package psyexp-core # rewrite uv.lock to the newest version the constraint allows +uv sync +``` + +Commit the updated `uv.lock` (and bump the `>=` floor in `pyproject.toml` first if you want to +require a new minimum). \ No newline at end of file diff --git a/docs/STANDARDIZATION.md b/docs/STANDARDIZATION.md new file mode 100644 index 0000000..2a40024 --- /dev/null +++ b/docs/STANDARDIZATION.md @@ -0,0 +1,304 @@ +# Standardizing task design across PsychoPy tasks + +Status: **proposal**. This documents where `mid-task-deterministic` and +[`heat-task`](https://github.com/HAPNlab/heat-task) still diverge, the shared +design we should converge on, and what belongs in +[`psyexp-core`](https://github.com/HAPNlab/psyexp-core) versus each task repo. + +The PR that introduced this file already applied the **consumer-side** half +(everything that lives in this repo). The **core-side** half — moving shared code +into `psyexp-core` so the duplication is actually deleted, not just made +consistent — is sequenced in [Migration plan](#migration-plan) and needs a +`psyexp-core` release plus a matching change in `heat-task`. + +Guiding rule: **task repos keep only task-specific logic; anything a second task +would copy belongs in `psyexp-core`.** A divergence is "a thing the next task +author has to re-decide." Each one below is small on its own; the cost is that +they compound across tasks. + +--- + +## 1. Keyboard bindings (keymaps) + +The original trigger for this doc. The two tasks defined keymaps differently: + +| | mid-task (before) | heat-task | +|---|---|---| +| value type | `dict[str, str]` (one key) | `dict`/`list[str]` (many keys) | +| numpad / button-box variants | none | `num_1`, `num_0` included | +| quit key | `"end": "escape"` inside the dict | dedicated `QUIT_KEYS` | +| fMRI vs behavioral | two identical dicts (`KEYS_FMRI`/`KEYS_BEHAVIORAL`) | single set | +| on-screen label | the single string | `KEYS[0]` (canonical) | + +**Standard schema** (now adopted in `mid_det/config.py`, matching heat-task): + +```python +INSTRUCTION_KEYS: dict[str, list[str]] = {"forward": ["1", "num_1"], "back": []} +START_KEYS: list[str] = ["0", "num_0"] # begin the run (non-fMRI) +END_KEYS: list[str] = ["0", "num_0"] # dismiss the end screen / exit +QUIT_KEYS: list[str] = ["escape"] # abort at any prompt +``` + +Rules of the schema: + +1. **Every action maps to a `list[str]`.** Single keys are length-1 lists. +2. **`list[0]` is canonical** — the key echoed on screen and in logs. +3. **Numpad / button-box aliases live in the list** (`num_0` next to `0`), so a + scanner button box that reports `num_1` works without touching call sites. +4. **`QUIT_KEYS` is its own binding**, not smuggled in as `"end"`. The shared + keyboard helpers append it, so escape-to-quit is uniform and never hardcoded. +5. **Participant response keys are separate** from operator/navigation keys + (`RESPONSE_KEYS` here; heat-task has no participant keypresses). + +This schema is currently duplicated (identically) in both `config.py` files. It +is a small, stable vocabulary and a good first thing to host in +`psyexp_core.keys` as a `TypedDict` / dataclass plus validation, with each task +supplying the literal key names. + +## 2. Keyboard helpers (`wait_for_key`, `check_quit`, …) + +Both tasks wrap `psyexp_core.keyboard` the same way: + +- heat-task: `task/phases.py` → `wait_for_key`, `check_quit`, `wait_for_start`, + `run_end_screen`. +- mid-task: `ratings/__main__.py::_wait_keys` (= `wait_for_key` + quit) and + `task/phases.py::_poll_hotkeys` (quit + overlay toggle). + +**Done (core v0.9.0).** `wait_for_key(kb, key_list, *, quit_keys=(), +clear_first=True, on_quit=…)` and `check_quit(kb, quit_keys, *, on_quit=…)` now +live in `psyexp_core.keyboard`, parameterized by each task's quit keys (the quit +action defaults to `psychopy.core.quit`, injectable for tests). mid-task's +short-lived `mid_det/keyboard.py` shim was deleted and `ratings/__main__.py` calls +the core helpers directly; heat-task's local `wait_for_key`/`check_quit` in +`task/phases.py` were removed in favour of the core ones (`sequence.py` calls +`check_quit(kb, config.QUIT_KEYS)`). + +Still correctly task-local: mid's `_poll_hotkeys` (device-direct `get_presses` in +the timing hot loop) and the operator-gated screens (`wait_for_start`, +`run_end_screen`) — generic only once they take a "draw this frame" callback (the +inversion `psyexp_core.instructions.page_through` already uses); a worthwhile but +separate extraction. + +## 3. Setup wizard + +Shared today, copy-pasted: + +- `_SUBJECT_PLACEHOLDER = "XXX000"` is defined in both repos (mid-task's ratings + wizard already imports it from the main wizard — good; heat-task redefines it). +- The `subject_id = ask_text("Subject ID", placeholder=…).strip() or PLACEHOLDER` + idiom appears in three wizards. +- Each repo has a `SessionInfo` dataclass with overlapping fields + (`subject_id`, `show_instructions`, screen/run identifiers). + +**Proposal:** host the placeholder constant and a `prompt_subject_id()` helper in +`psyexp_core.wizard`, and offer a small `SessionInfoBase` (subject_id + +show_instructions) that task `SessionInfo`s extend. Task-specific fields +(`fmri`, `base_rt_s`, `host`/`port`, `run_file`) stay in each task. + +## 4. Live-view console + +`mid_det/task/console.py::TrialLiveView` and +`heat_task/task/console.py::SequenceLiveView` share a skeleton: a Rich `Live` +wrapped in a context manager, a `_RowData` dataclass, a `_make_table`, and a +throttled `_refresh`. heat-task's adds a status line, heartbeat blink, and +latency chip. + +**Proposal:** a `psyexp_core.console.LiveTableView` base owning the `Live` +lifecycle (`__enter__`/`__exit__`), the row list, and `_refresh(force=…)` +throttling. Subclasses declare columns and how a row renders. The status +line/blink is an optional mixin. Lower priority than 1–3 (the two views differ +enough that the shared surface is mostly the container). + +## 5. Manifest writer — align the core API + +`psyexp-core` renamed `write_manifest(session_time=…)` → +`write_manifest(session_started_at=…)` in **0.8.0**. mid-task moved to 0.8.0 and +the new kwarg; **heat-task is still on 0.7.0 and still passes `session_time=`**. +So the two repos are pinned to different core majors and call the manifest writer +differently. + +**Proposal:** bump heat-task to `psyexp-core>=0.8.0` and rename its +`write_manifest` call's kwarg to `session_started_at`. Keep the per-run +`psyexp_core_version` in every manifest (already done) so the resolved core is +always recoverable. Going forward, treat the core's public signature as a shared +contract: a rename is a coordinated bump across all task repos in the same batch. + +## 6. Entry-point skeleton (`run()`) + +Both `__main__.py::run()` functions walk a similar spine: configure backend → +screen + frame rate → wizard → run dir + logging → session summary → stimuli + +keyboard → manifest → instructions → wait for start → live-view loop → end +screen → cleanup. It is tempting to read that as "extract one `run()` scaffold +and pass hooks." **Don't** — the spine's similarities are cosmetic and its +differences are load-bearing: + +- **Ordering inverts.** mid opens the screen *before* the wizard + (`run_wizard(frame_dur_s=…)` needs the measured frame duration for its RT-field + defaults); heat runs the wizard *first* (it returns the `screen_index` and must + precede the window so the operator can arm the MMS). A scaffold with fixed + `wizard`/`screen` slots is wrong for one task no matter which order it picks. +- **Teardown is asymmetric.** heat wraps the whole loop in `try/except/finally` + and, on the way out, chooses MMS `abort` vs `stop` (a thermode left running is a + safety issue). mid just closes four CSV writers. One imposed loop shape either + burdens mid with machinery it doesn't need or denies heat the guaranteed + teardown it does. +- **The middles are genuinely task-specific.** Scanner pulse-counter + adaptive + calibration + debug-overlay flip-patch (mid) vs. background `StatusPoller` + + MMS program-select + START-coupled-to-the-start-key (heat). These aren't the + same hook at the same point; they interleave differently. + +So a `psyexp_core.runner` that sequences phases and calls task hooks is the wrong +shape. Two flexible alternatives instead: + +### (a) Leave `run()` per-task, built from shared leaf helpers — *default* + +Each task keeps its own top-to-bottom `run()`; the reuse comes entirely from the +leaf utilities in §1–§5 (`screen.setup_screen`, a frame-rate resolver, +`rundir.make_run_dir`, `write_manifest`, `wait_for_key`, `LiveTableView`). What +stays duplicated is ~15 lines of *glue* — the order those helpers are called in — +not logic. + +This is the right default because `run()` is read far more than it is written: an +explicit script you can follow end-to-end beats indirection through a framework, +and the ordering differences above stop being a problem when they are just +different lines in different files. *Library, not framework.* + +- **Cost:** the call sequence looks similar across tasks (though never identical, + per the ordering point) — some apparent boilerplate remains. +- **Benefit:** zero coupling; each `run()` is a literal, greppable record of that + experiment, and a new task can diverge freely without fighting an abstraction. + +### (b) A teardown-owning context manager — *opt in when cleanup gets critical* + +The one piece genuinely worth centralizing is **guaranteed teardown**: flush +logging, close the window, quit, and run task-registered cleanups — on normal +exit *and* on Ctrl-C, a quit-key `SystemExit`, or a mid-run error. heat already +hand-rolls this; the next hardware task should not have to re-derive it. + +A context manager owns *only* that, and nothing about ordering or the loop — and +it needs no bespoke class, because the stdlib's `contextlib.ExitStack` already +*is* this primitive. Pre-register the PsychoPy bookends and hand the stack back: + +```python +# psyexp_core.session +from contextlib import ExitStack, contextmanager + +@contextmanager +def experiment_session(win): + """Guarantee teardown on any exit — normal, Ctrl-C, a quit-key SystemExit, or + a mid-run error. Yields the ExitStack so the task registers its own cleanups: + stack.callback(fn) -> always runs (LIFO); can't see or suppress the exception + stack.push(fn) -> fn(exc_type, exc, tb); lets you branch on abnormal exit + """ + with ExitStack() as stack: + stack.callback(core.quit) # bookends run last (LIFO): + stack.callback(win.close) # flush -> close -> quit + stack.callback(logging.flush) + yield stack +``` + +Because `ExitStack.__exit__` fires on `BaseException`, both Ctrl-C +(`KeyboardInterrupt`) and the `SystemExit` that `core.quit()` raises trigger +teardown for free — heat's hand-rolled `try/except` has to name those explicitly. + +The task still builds the window and writes its own setup/loop; it just registers +what must be torn down: + +```python +# mid-task +with experiment_session(win) as stack: + stack.callback(writers.close) + ... # screen -> framerate -> wizard -> loop, as today + +# heat-task +def _abort(exc_type, exc, tb): + if exc_type is not None: # any abnormal exit (error / Ctrl-C / quit key) + halt_mms("abort") # thermode safety + return False # never suppress + +with experiment_session(win) as stack: + stack.callback(poller.stop) + stack.callback(writers.close) + stack.push(_abort) + ... + run_sequences(...) + halt_mms("stop") # clean path: normal stop +``` + +This captures heat's safety-critical `finally` without dictating the order of +anything else, and mid opts into the same guarantee for one `stack.callback`. It +**composes with (a)** rather than replacing it — the body of the `with` is still a +per-task `run()` made of §1–§5 helpers. (Friendly `on_teardown` / `on_abort` +aliases are trivial sugar over `callback` / `push` if the raw names read poorly.) + +**Status:** both tasks now wrap their `run()` teardown in a **local** `ExitStack` +(heat dropped its `try/finally` + `halted_cleanly` flag and derives MMS stop-vs- +abort from `exc_type`; mid gained the guaranteed teardown it previously lacked). +Each calls `core.quit()` *after* the block so a genuine error still surfaces its +traceback. Promoting this to a **shared** `psyexp_core.experiment_session` helper +(the sketch above) stays deferred until a third — or second hardware — task makes +the dedup worthwhile. The phase-sequencing orchestrator stays rejected. + +--- + +## Migration plan + +1. **(this PR)** Consumer-side consistency in mid-task: standard keymap schema, + `mid_det/keyboard.py`, and todo cleanup. No core release needed. +2. **psyexp-core `0.9.0`**: add `psyexp_core.keys` (schema) and the generalized + `wait_for_key`/`check_quit` (+ optional `wait_for_start`/`end_screen`); add + the wizard helpers (§3). +3. **mid-task**: depend on `0.9.0`; delete `mid_det/keyboard.py`, import the + helpers from core; drop the duplicated placeholder/idioms. +4. **heat-task**: bump to `>=0.8.0` first to fix the manifest kwarg (§5), then to + `0.9.0`; replace its `phases.py` helpers with the core ones. +5. **psyexp-core `0.10.0`** (optional): `LiveTableView` (§4). Both tasks already + use a *local* `ExitStack` for teardown (§6b); consolidating that into a shared + `experiment_session` helper is deferred until a second hardware task needs it. + The phase-sequencing runner is explicitly **not** planned; `run()` stays + per-task (§6a). + +Sequencing keeps each step small and independently shippable, and never leaves a +task repo importing a core symbol that isn't released yet. + +--- + +## Appendix: hand-rolled vs. library + +A pass over all three repos for code that reimplements what a library already +does. The codebases are mostly disciplined here — `conditions.py` (tomllib + +pydantic), `recording.py` (`csv.DictWriter`), `manifest.py` (pydantic + +`py-cpuinfo`), `screen/setup.py` (`numpy` percentiles), and the medoc CLI +(`argparse`) all reach for the right tool — so this is short. + +**Fixed** + +- **heat-task `last_connection` persistence → pydantic.** `io/setup_wizard.py` + hand-rolled `json.load` + per-field `isinstance` checks + a `TypedDict`, in the + same package that validates run files with pydantic in `conditions.py`. Now a + `LastConnection(BaseModel)` with `model_validate_json` / `model_dump_json` + (pydantic is already a dependency). Fixes a latent bug en route: the old + `.get("screen")` + naive truthiness default would have dropped screen index `0`. + +**Adopt with the core extraction (§2 / §6b)** + +- **Prompt waits + quit → `psyexp_core.keyboard`.** `wait_for_key` / `check_quit` + were duplicated in heat's `task/phases.py` and mid's `mid_det/keyboard.py`; now + hosted in core (v0.9.0), parameterized by each task's quit keys. +- **Teardown → `contextlib.ExitStack`.** heat's `__main__` hand-rolls + `try/except (KeyboardInterrupt, SystemExit, Exception)/finally` + a + `halted_cleanly` flag; that is exactly `ExitStack` (see §6b), which also covers + the `BaseException` paths for free. + +**Considered, but hand-rolling is correct (left as-is)** + +- **`StatusPoller` exponential backoff (`task/status.py`) → tenacity/backoff?** + No. The bounded backoff is ~3 lines and is coupled to `stop_event.wait()` for + prompt cancellation; retry libraries wrap a *callable* and don't fit a + long-lived, stop-event-interruptible reconnect-and-stream loop. The surrounding + `threading` + `queue.SimpleQueue` are already the right primitives. +- **`sum(x) / len(x)` rolling means (`phase_tracker.py`) → numpy?** No. They run + per-sample over ~5-element windows; building an ndarray each sample is slower. + numpy is correctly reserved for the calibration array. +- **Plain `@dataclass` CSV-row records → pydantic?** No. Internal records with no + validation need; pydantic would be pure overhead. diff --git a/docs/development.md b/docs/development.md index 9b944d5..e6029da 100644 --- a/docs/development.md +++ b/docs/development.md @@ -61,6 +61,47 @@ pip install -e ".[dev]" `uv.lock`) are ignored by pip/conda, so the conda install resolves dependencies fresh from PyPI rather than from the lockfile. +## Updating `psyexp-core` + +The shared experiment harness lives in the published [`psyexp-core`](https://github.com/HAPNlab/psyexp-core) +package, declared as `psyexp-core>=X.Y` in `pyproject.toml` with the exact version pinned in +`uv.lock`. A bare `uv sync` does **not** pull a newer release — it installs exactly what `uv.lock` +pins, so a newly published version is ignored until the lock is regenerated. To upgrade: + +```bash +uv lock --upgrade-package psyexp-core # rewrite uv.lock to the newest version the constraint allows +uv sync # apply it +``` + +Then commit the updated `uv.lock`. Raise the `>=` floor in `pyproject.toml` first if you want to +require a new minimum. (`just core-upgrade` runs both commands.) + +## Co-developing `psyexp-core` locally + +To work on the harness from a sibling checkout, overlay an editable install. The catch: `uv.lock` +is authoritative, so **any `uv sync` reverts the overlay** back to the locked PyPI version. +`--inexact` does *not* help — it only retains packages absent from the lock, and the core is in it. +The only thing that preserves the overlay is skipping the sync entirely: + +```bash +uv pip install -e ../psyexp-core # one time +uv run --no-sync mid-task-det # or: export UV_NO_SYNC=1 for the shell +``` + +The `just` recipes wrap this workflow: + +```bash +just core-dev # overlay the editable ../psyexp-core +just core-run # run the task with --no-sync (overlay preserved) +just core-test # run pytest with --no-sync +just core-release # drop the overlay, restore the locked PyPI core (plain uv sync) +``` + +Don't run a bare `uv sync`/`uv run` while overlaying — it silently reverts the editable core. For a +setup that survives sync, declare the path source in `pyproject.toml` +(`[tool.uv.sources] psyexp-core = { path = "../psyexp-core", editable = true }`) and keep that edit +local with `git update-index --skip-worktree pyproject.toml uv.lock` so it never lands in a commit. + ## Project Structure ``` diff --git a/justfile b/justfile new file mode 100644 index 0000000..3d55a41 --- /dev/null +++ b/justfile @@ -0,0 +1,50 @@ +# mid-task-deterministic dev tasks. Run `just` to list recipes. +# Requires `just` (https://github.com/casey/just): `brew install just`. + +# Show available recipes +default: + @just --list + +# Install/refresh the venv from the locked PyPI psyexp-core +sync: + uv sync + +# Run the experiment (locked PyPI core) +run *args: + uv run mid-task-det {{args}} + +# Run the standalone cue-ratings survey +ratings *args: + uv run mid-ratings-det {{args}} + +# Run the test suite +test *args: + uv run pytest {{args}} + +# --- Co-developing psyexp-core from ../psyexp-core --------------------------- +# uv.lock is authoritative, so a plain `uv sync`/`uv run` reverts an editable +# overlay back to the locked PyPI version. `--inexact` does NOT prevent this — it +# only spares packages absent from the lock, and the core is in it. The only way +# to keep the overlay is to skip the sync, which these recipes do via --no-sync. + +# Overlay an editable sibling checkout of ../psyexp-core +core-dev: + uv pip install -e ../psyexp-core + @echo "Editable psyexp-core overlaid. Use 'just core-run' / 'just core-test' so it isn't reverted." + +# Run the experiment against the editable overlay (skips the revert-causing sync) +core-run *args: + uv run --no-sync mid-task-det {{args}} + +# Run the tests against the editable overlay +core-test *args: + uv run --no-sync pytest {{args}} + +# Drop the overlay and restore the locked PyPI psyexp-core +core-release: + uv sync + +# Upgrade to the newest published psyexp-core and update the lock +core-upgrade: + uv lock --upgrade-package psyexp-core + uv sync diff --git a/pyproject.toml b/pyproject.toml index a4614df..f328941 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -7,9 +7,19 @@ name = "mid-task-deterministic" version = "1.0.0-rc.2" description = "Deterministic Monetary Incentive Delay Task - PsychoPy implementation for fMRI (no adaptive staircase)" readme = "README.md" -requires-python = ">=3.11" +requires-python = ">=3.11,<3.12" authors = [{ name = "Eric Wang" }] dependencies = [ + # Shared experiment harness (screen/frame-timing, run dirs, manifests, CSV + # writers, setup-wizard primitives, instruction pager, keyboard abstraction). + # Published PyPI package; the exact version is pinned in uv.lock for + # reproducible clones and the run manifest also records psyexp_core_version. + # pip/conda resolve it too (production uses conda — see AGENTS.md). For + # co-development, overlay an editable sibling checkout and run with --no-sync + # (any uv sync reverts it — --inexact does NOT help; the core is in the lock): + # uv pip install -e ../psyexp-core + # uv run --no-sync ... # or: export UV_NO_SYNC=1 (see `just core-*`) + "psyexp-core>=0.8.0", "psychopy>=2026.1", "scipy>=1.11", "numpy>=1.26", diff --git a/src/mid_det/__main__.py b/src/mid_det/__main__.py index 0d416da..383a11c 100644 --- a/src/mid_det/__main__.py +++ b/src/mid_det/__main__.py @@ -5,6 +5,7 @@ from __future__ import annotations import platform +from contextlib import ExitStack from datetime import datetime from pathlib import Path @@ -13,16 +14,20 @@ core.checkPygletDuringWait = False -from psychopy import logging, prefs - -prefs.hardware["keyboardBackend"] = "ptb" - -from psychopy.hardware import keyboard +from psychopy import logging +from psyexp_core import rundir, screen +from psyexp_core.keyboard import ( + KEYBOARD_BACKEND, + build_keyboard, + configure_psychopy_backend, + get_keys, + wait_for_keys, +) from rich.console import Console from mid_det import config from mid_det.task import display, instructions, trial -from mid_det.io import bootstrap, recording, scanner, sequences, setup_wizard +from mid_det.io import recording, scanner, sequences, setup_wizard from mid_det.task.calibration import CalibrationState from mid_det.task.console import TrialLiveView from mid_det.task.debug import DebugOverlay, DebugState @@ -48,6 +53,10 @@ def _raise_process_priority() -> str | None: def run() -> None: priority_status = _raise_process_priority() + # Select the keyboard backend before any Keyboard is built. MID timing + # requires the robust PTB backend. + configure_psychopy_backend() + import argparse parser = argparse.ArgumentParser(prog="mid-task-det") parser.add_argument( @@ -58,9 +67,13 @@ def run() -> None: args = parser.parse_args() # ── SCREEN & FRAME RATE ────────────────────────────────────────────────── - # Open the window first so we have a real frame duration to pass into the - # setup wizard (it uses it for RT-field defaults and frame-alignment hints). - win_res, win, screen_diag = bootstrap.setup_screen() + # Let the operator pick the display (auto-returns 0 when there's only one), + # then open the window first so we have a real frame duration to pass into + # the setup wizard (it uses it for RT-field defaults and frame-alignment + # hints). The chosen monitor's OS-level detail is captured in screen_diag and + # recorded in the run manifest. + screen_index = screen.prompt_screen() + win_res, win, screen_diag = screen.setup_screen(screen=screen_index) if args.fps is not None: frame_rate: float = args.fps @@ -94,11 +107,12 @@ def run() -> None: # ── SETUP WIZARD ───────────────────────────────────────────────────────── session_info = setup_wizard.run_wizard(frame_dur_s=frame_dur_s) - session_time = datetime.now() + session_started_at = datetime.now() # ── LOGGING ────────────────────────────────────────────────────────────── data_dir = Path("data") - run_dir = bootstrap.make_run_dir(data_dir, session_info, session_time) + run_label = f"{session_info.subject_id}_run{session_info.run_n}" + run_dir = rundir.make_run_dir(data_dir, run_label, session_started_at) logging.LogFile(str(run_dir / "experiment.log"), level=logging.EXP) logging.console.setLevel(logging.WARNING) @@ -135,7 +149,6 @@ def run() -> None: # ── BUILD STIMULI ──────────────────────────────────────────────────────── stimuli_obj = display.build_stimuli(win) - display.update_instr_keys(stimuli_obj, session_info.fmri) # ── DEBUG OVERLAY (F3 to toggle) ───────────────────────────────────────── debug_state = DebugState( @@ -174,189 +187,192 @@ def _flip_with_overlay(*args, **kwargs): # noqa: E306 f"win-ratio threshold={config.WIN_RATIO_THRESHOLD}" ) - # ── SETUP OUTPUT FILES ─────────────────────────────────────────────────── + # ── SETUP OUTPUT FILES + GUARANTEED TEARDOWN ───────────────────────────── + # Register teardown on an ExitStack as each resource is acquired, so the + # writers, logging, and the window are always closed — on normal completion, + # a quit key (core.quit -> SystemExit from _poll_hotkeys), or a mid-run error + # — not just the happy path. core.quit() is called after the block (not + # registered) so a genuine error still propagates with its traceback. file_stem = f"{session_info.subject_id}_run{session_info.run_n}" - behavioral_writer = recording.BehavioralCsvWriter(run_dir / f"behavioral_{file_stem}.csv") - target_timing_writer = recording.TargetTimingCsvWriter(run_dir / f"target_timing_{file_stem}.csv") - scan_log_writer = recording.ScanLogWriter(run_dir / f"scan_log_{file_stem}.csv") - legacy_dir = data_dir / "legacy-fmt" - legacy_dir.mkdir(parents=True, exist_ok=True) - # MATLAB PartialParseData.m numbers trials continuously across blocks: block 1 - # is trials 1-42, so block 2 continues from 43. Our trial_n restarts at 1 each - # run, so shift run 2 up by block 1's length (42) to restore that numbering. - legacy_trial_offset = 42 if session_info.run_n == "2" else 0 - legacy_writer = recording.LegacyMidCsvWriter( - legacy_dir / f"{session_info.legacy_name}_b{session_info.run_n}.csv", - trial_offset=legacy_trial_offset, - ) - recording.write_manifest( - run_dir=run_dir, - session_info=session_info, - session_time=session_time, - frame_rate=frame_rate, - n_trials=n_trials, - screen_diag=screen_diag, - frame_dur_s=frame_dur_s, - frame_dur_source=fps_source, - win_res=win_res, - priority_raised=(priority_status == "HIGH_PRIORITY_CLASS"), - ) - - # ── KEYBOARD & MOUSE ───────────────────────────────────────────────────── - kb = keyboard.Keyboard() - actual_backend = kb.device.getBackend() - if actual_backend != "ptb": - win.close() - raise RuntimeError( - f"Keyboard backend is '{actual_backend}', not 'ptb'. " - "Install psychtoolbox: pip install psychtoolbox" + with ExitStack() as stack: + stack.callback(win.close) + stack.callback(logging.flush) + + behavioral_writer = recording.BehavioralCsvWriter(run_dir / f"behavioral_{file_stem}.csv") + stack.callback(behavioral_writer.close) + target_timing_writer = recording.TargetTimingCsvWriter(run_dir / f"target_timing_{file_stem}.csv") + stack.callback(target_timing_writer.close) + scan_log_writer = recording.ScanLogWriter(run_dir / f"scan_log_{file_stem}.csv") + stack.callback(scan_log_writer.close) + legacy_dir = data_dir / "legacy-fmt" + legacy_dir.mkdir(parents=True, exist_ok=True) + # MATLAB PartialParseData.m numbers trials continuously across blocks: block 1 + # is trials 1-42, so block 2 continues from 43. Our trial_n restarts at 1 each + # run, so shift run 2 up by block 1's length (42) to restore that numbering. + legacy_trial_offset = 42 if session_info.run_n == "2" else 0 + legacy_writer = recording.LegacyMidCsvWriter( + legacy_dir / f"{session_info.legacy_name}_b{session_info.run_n}.csv", + trial_offset=legacy_trial_offset, + ) + stack.callback(legacy_writer.close) + recording.write_manifest( + run_dir=run_dir, + session_info=session_info, + session_started_at=session_started_at, + frame_rate=frame_rate, + n_trials=n_trials, + screen_diag=screen_diag, + frame_dur_s=frame_dur_s, + frame_dur_source=fps_source, + win_res=win_res, + priority_raised=(priority_status == "HIGH_PRIORITY_CLASS"), ) - # PsychoPy ≥2024.1 defaults muteOutsidePsychopy=True on macOS, silently - # dropping all keypresses when isRegisteredApp() returns False (common - # when launched from a terminal or IDE). Disable it for experiment use. - kb.device.muteOutsidePsychopy = False - win.mouseVisible = False - - # ── INSTRUCTIONS ───────────────────────────────────────────────────────── - if session_info.show_instructions: - instructions.display_instructions(win, stimuli_obj, session_info, kb, rcon) - - # ── PULSE COUNTER ──────────────────────────────────────────────────────── - backend = scanner.make_backend(session_info.fmri) - backend_name = "hardware (MCC DAQ)" if isinstance(backend, scanner.HardwareBackend) else "emulated" - rcon.print(f"[bold]Scanner backend:[/bold] {backend_name}") - logging.exp(f"Scanner backend: {backend_name}") - pulse_counter = scanner.PulseCounter(backend) - - # ── WAIT FOR SCAN START ────────────────────────────────────────────────── - stimuli_obj.wait.draw() - win.flip() - - if session_info.fmri: - rcon.print("[bold yellow]Waiting for first TR pulse...[/bold yellow]") - logging.exp("Waiting for first TR pulse") - pulse_counter.wait_for_start() - else: - keys_map = config.KEYS_BEHAVIORAL - rcon.print(f"[bold yellow]Press '{keys_map['start']}' to start the experiment...[/bold yellow]") - logging.exp(f"Waiting for '{keys_map['start']}' key to start experiment") - kb.waitKeys(keyList=[keys_map["start"]], waitRelease=False) - backend.start() - rcon.print("[bold green]Scan started[/bold green] — global clock reset") - logging.exp("Scan started — global clock reset") - - # ── GLOBAL CLOCK & INITIAL FIXATION ────────────────────────────────────── - global_clock = core.Clock() - global_clock.reset() - - is_practice = session_info.run_n == "practice" - leadin_s = config.PRACTICE_INITIAL_FIX_DUR_S if is_practice else config.INITIAL_FIX_DUR_S - leadout_s = config.PRACTICE_CLOSING_FIX_DUR_S if is_practice else config.CLOSING_FIX_DUR_S - - t_fix_end = leadin_s - while global_clock.getTime() < t_fix_end: - stimuli_obj.fix_o.draw() - win.flip() - if kb.getKeys(keyList=["f3"], waitRelease=False): - debug_overlay.toggle() - - nominal_time = global_clock.getTime() - - # ── TRIAL LOOP ─────────────────────────────────────────────────────────── - pulse_ct = 0 - total_earned = 0 - n_hits = 0 - n_trials_done = 0 - - with TrialLiveView(rcon, n_trials) as view: - for trial_idx, row in sequence.iterrows(): - trial_n = int(trial_idx) + 1 - n_iti = int(row["n_iti"]) - cue_lbl = config.cue_label(str(row["polarity"]), int(row["magnitude"])) - - view.start_trial(trial_n, cue_lbl, n_hits, n_trials_done) - - debug_overlay.state.trial_n = trial_n - debug_overlay.state.n_hits = n_hits - debug_overlay.state.n_trials_done = n_trials_done - debug_overlay.state.total_earned = total_earned - - rec, target_timing, scan_phases, nominal_time, total_earned = trial.run_trial( - win=win, - stimuli=stimuli_obj, - kb=kb, - global_clock=global_clock, - row=row, - trial_n=trial_n, - n_trials=n_trials, - n_iti_trs=n_iti, - nominal_time=nominal_time, - total_earned=total_earned, - subject_id=session_info.subject_id, - run_n=session_info.run_n, - pulse_ct=pulse_ct, - pulse_counter=pulse_counter, - calibration=calibration, - frame_dur_s=frame_dur_s, - on_window=view.on_window, - on_response=view.on_response, - overlay=debug_overlay, - ) - - if scan_phases: - pulse_ct = scan_phases[-1].pulse_ct - - n_trials_done += 1 - n_hits += rec.hit - hit_rate = n_hits / n_trials_done * 100 - rt_str = f"{rec.rt_ms:.0f} ms" if rec.rt_ms != "" else "—" - win_str = f"{rec.target_dur_ms_actual:.2f} ms" if rec.target_dur_ms_actual != "" else "—" - result_label = "HIT" if rec.hit else ("early" if rec.early_press else "miss") - logging.exp( - f" -> {result_label:<5} RT={rt_str:>6} win={win_str} " - f"outcome={rec.reward_outcome:>4} total={f'${rec.total_earned}':>5} " - f"hit_rate={hit_rate:3.0f}%" + # ── KEYBOARD & MOUSE ───────────────────────────────────────────────── + # build_keyboard() returns the PTB Keyboard (muteOutsidePsychopy disabled + # so keys register without the window holding OS focus). MID requires PTB. + if KEYBOARD_BACKEND != "ptb": + raise RuntimeError( + f"Keyboard backend is '{KEYBOARD_BACKEND}', not 'ptb'. " + "Install psychtoolbox: pip install psychtoolbox" ) + kb = build_keyboard() + win.mouseVisible = False + + # ── INSTRUCTIONS ───────────────────────────────────────────────────── + if session_info.show_instructions: + instructions.display_instructions(win, stimuli_obj, kb, rcon) + + # ── PULSE COUNTER ──────────────────────────────────────────────────── + backend = scanner.make_backend(session_info.fmri) + backend_name = "hardware (MCC DAQ)" if isinstance(backend, scanner.HardwareBackend) else "emulated" + rcon.print(f"[bold]Scanner backend:[/bold] {backend_name}") + logging.exp(f"Scanner backend: {backend_name}") + pulse_counter = scanner.PulseCounter(backend) + + # ── WAIT FOR SCAN START ────────────────────────────────────────────── + stimuli_obj.wait.draw() + win.flip() - behavioral_writer.append(rec) - target_timing_writer.append(target_timing) - legacy_writer.append(rec) - for sp in scan_phases: - scan_log_writer.append(sp) + if session_info.fmri: + rcon.print("[bold yellow]Waiting for first TR pulse...[/bold yellow]") + logging.exp("Waiting for first TR pulse") + pulse_counter.wait_for_start() + else: + start_key = config.START_KEYS[0] + rcon.print(f"[bold yellow]Press '{start_key}' to start the experiment...[/bold yellow]") + logging.exp(f"Waiting for '{start_key}' key to start experiment") + wait_for_keys(kb, config.START_KEYS) + backend.start() + rcon.print("[bold green]Scan started[/bold green] — global clock reset") + logging.exp("Scan started — global clock reset") + + # ── GLOBAL CLOCK & INITIAL FIXATION ────────────────────────────────── + global_clock = core.Clock() + global_clock.reset() + + is_practice = session_info.run_n == "practice" + leadin_s = config.PRACTICE_INITIAL_FIX_DUR_S if is_practice else config.INITIAL_FIX_DUR_S + leadout_s = config.PRACTICE_CLOSING_FIX_DUR_S if is_practice else config.CLOSING_FIX_DUR_S + + t_fix_end = leadin_s + while global_clock.getTime() < t_fix_end: + stimuli_obj.fix_o.draw() + win.flip() + if get_keys(kb, config.OVERLAY_TOGGLE_KEYS): + debug_overlay.toggle() + + nominal_time = global_clock.getTime() + + # ── TRIAL LOOP ─────────────────────────────────────────────────────── + pulse_ct = 0 + total_earned = 0 + n_hits = 0 + n_trials_done = 0 + + with TrialLiveView(rcon, n_trials) as view: + for trial_idx, row in sequence.iterrows(): + trial_n = int(trial_idx) + 1 + n_iti = int(row["n_iti"]) + cue_lbl = config.cue_label(str(row["polarity"]), int(row["magnitude"])) + + view.start_trial(trial_n, cue_lbl, n_hits, n_trials_done) + + debug_overlay.state.trial_n = trial_n + debug_overlay.state.n_hits = n_hits + debug_overlay.state.n_trials_done = n_trials_done + debug_overlay.state.total_earned = total_earned + + rec, target_timing, scan_phases, nominal_time, total_earned = trial.run_trial( + win=win, + stimuli=stimuli_obj, + kb=kb, + global_clock=global_clock, + row=row, + trial_n=trial_n, + n_trials=n_trials, + n_iti_trs=n_iti, + nominal_time=nominal_time, + total_earned=total_earned, + subject_id=session_info.subject_id, + run_n=session_info.run_n, + pulse_ct=pulse_ct, + pulse_counter=pulse_counter, + calibration=calibration, + frame_dur_s=frame_dur_s, + on_window=view.on_window, + on_response=view.on_response, + overlay=debug_overlay, + ) + + if scan_phases: + pulse_ct = scan_phases[-1].pulse_ct + + n_trials_done += 1 + n_hits += rec.hit + hit_rate = n_hits / n_trials_done * 100 + rt_str = f"{rec.rt_ms:.0f} ms" if rec.rt_ms != "" else "—" + win_str = f"{rec.target_dur_ms_actual:.2f} ms" if rec.target_dur_ms_actual != "" else "—" + result_label = "HIT" if rec.hit else ("early" if rec.early_press else "miss") + + logging.exp( + f" -> {result_label:<5} RT={rt_str:>6} win={win_str} " + f"outcome={rec.reward_outcome:>4} total={f'${rec.total_earned}':>5} " + f"hit_rate={hit_rate:3.0f}%" + ) + + behavioral_writer.append(rec) + target_timing_writer.append(target_timing) + legacy_writer.append(rec) + for sp in scan_phases: + scan_log_writer.append(sp) + + rcon.print( + f"\n[bold]Run complete:[/bold] {n_hits}/{n_trials_done} hits " + f"([cyan]{n_hits / n_trials_done * 100:.0f}%[/cyan]) " + f"total earned: [bold cyan]${total_earned}[/bold cyan]" + ) + logging.exp( + f"Run complete: {n_hits}/{n_trials_done} hits " + f"({n_hits / n_trials_done * 100:.0f}%) total earned: ${total_earned}" + ) - rcon.print( - f"\n[bold]Run complete:[/bold] {n_hits}/{n_trials_done} hits " - f"([cyan]{n_hits / n_trials_done * 100:.0f}%[/cyan]) " - f"total earned: [bold cyan]${total_earned}[/bold cyan]" - ) - logging.exp( - f"Run complete: {n_hits}/{n_trials_done} hits " - f"({n_hits / n_trials_done * 100:.0f}%) total earned: ${total_earned}" - ) + # ── CLOSING FIXATION ───────────────────────────────────────────────── + t_close_start = global_clock.getTime() + while global_clock.getTime() < t_close_start + leadout_s: + stimuli_obj.fix_o.draw() + win.flip() + if get_keys(kb, config.OVERLAY_TOGGLE_KEYS): + debug_overlay.toggle() - # ── CLOSING FIXATION ───────────────────────────────────────────────────── - t_close_start = global_clock.getTime() - while global_clock.getTime() < t_close_start + leadout_s: - stimuli_obj.fix_o.draw() + # ── END SCREEN ─────────────────────────────────────────────────────── + stimuli_obj.end.draw() win.flip() - if kb.getKeys(keyList=["f3"], waitRelease=False): - debug_overlay.toggle() - - # ── END SCREEN ─────────────────────────────────────────────────────────── - stimuli_obj.end.draw() - win.flip() - rcon.print("[bold yellow]Press '0' to exit the experiment...[/bold yellow]") - logging.exp("Waiting for '0' key to exit experiment") - kb.waitKeys(keyList=["0"], waitRelease=False) - - # ── CLEANUP ────────────────────────────────────────────────────────────── - behavioral_writer.close() - target_timing_writer.close() - scan_log_writer.close() - legacy_writer.close() - logging.flush() - win.close() + end_key = config.END_KEYS[0] + rcon.print(f"[bold yellow]Press '{end_key}' to exit the experiment...[/bold yellow]") + logging.exp(f"Waiting for '{end_key}' key to exit experiment") + wait_for_keys(kb, config.END_KEYS) + core.quit() diff --git a/src/mid_det/config.py b/src/mid_det/config.py index 594b3b9..713af9c 100644 --- a/src/mid_det/config.py +++ b/src/mid_det/config.py @@ -81,10 +81,23 @@ "sound": False, } -# Keyboard layouts -KEYS_FMRI: dict[str, str] = {"forward": "1", "start": "0", "end": "escape"} -KEYS_BEHAVIORAL: dict[str, str] = {"forward": "1", "start": "0", "end": "escape"} -EXP_KEYS: list[str] = ["1", "2", "3", "4", "5", "6", "7", "8", "9", "10"] +# ── Keyboard bindings ───────────────────────────────────────────────────────── +# Standardized across HAPNlab PsychoPy tasks (cf. heat-task's config): every +# action maps to a *list* of accepted key names, and element [0] is the canonical +# key echoed on screen / in logs. Lists keep numpad and button-box variants +# ("num_1", "num_0") plus any alternates in one place, and reading them through +# the shared keyboard helpers (psyexp_core.keyboard.wait_for_key / check_quit) +# means escape-to-quit (QUIT_KEYS) is handled uniformly instead of hardcoded at +# each call site. +INSTRUCTION_KEYS: dict[str, list[str]] = {"forward": ["1", "num_1"], "back": []} +START_KEYS: list[str] = ["0", "num_0"] # begin the run (non-fMRI; fMRI waits on the first TR) +END_KEYS: list[str] = ["0", "num_0"] # dismiss the end screen / exit the run +QUIT_KEYS: list[str] = ["escape"] # abort the run at any prompt +OVERLAY_TOGGLE_KEYS: list[str] = ["f3"] # toggle the operator debug overlay + +# Participant response keys for the target window (the button box reports the +# digit keys; kept separate from the operator/navigation bindings above). +RESPONSE_KEYS: list[str] = ["1", "2", "3", "4", "5", "6", "7", "8", "9", "10"] def cue_label(polarity: str, magnitude: int) -> str: diff --git a/src/mid_det/io/bootstrap.py b/src/mid_det/io/bootstrap.py index 305b8c3..111ceac 100644 --- a/src/mid_det/io/bootstrap.py +++ b/src/mid_det/io/bootstrap.py @@ -1,19 +1,14 @@ """ -Session bootstrap: the SessionInfo / ScreenDiagnostics dataclasses, screen + -frame-timing setup, and output-directory creation. Instruction presentation -lives in mid_det.task.instructions. +Session bootstrap: the task-specific SessionInfo dataclass. + +Screen + frame-timing setup, the ScreenDiagnostics dataclass, and timestamped +run-directory creation now live in the shared psyexp-core harness +(``psyexp_core.screen`` / ``psyexp_core.diagnostics`` / ``psyexp_core.rundir``). +Instruction presentation lives in mid_det.task.instructions. """ from __future__ import annotations from dataclasses import dataclass -from datetime import datetime -from pathlib import Path - -import platform -import statistics - -import pyglet -from psychopy import core, monitors, visual from mid_det import config @@ -27,96 +22,3 @@ class SessionInfo: base_rt_s: float rt_change_s: float = config.RT_CHANGE_S # staircase step; set by wizard legacy_name: str = "" # NAME for legacy-fmt/{NAME}_b{run}.csv - - -@dataclass -class ScreenDiagnostics: - gl_vendor: str - gl_renderer: str - win_type: str - pyglet_version: str - platform_str: str - calib_median_ms: float - calib_p99_ms: float - calib_max_ms: float - calib_n: int - - -def setup_screen() -> tuple[list[int], visual.Window, ScreenDiagnostics]: - display = pyglet.canvas.get_display() - screens = display.get_screens() - win_res = [screens[-1].width, screens[-1].height] - exp_mon = monitors.Monitor("exp_mon") - exp_mon.setSizePix(win_res) - win = visual.Window( - size=win_res, - screen=len(screens) - 1, - allowGUI=True, - fullscr=True, - monitor=exp_mon, - units="height", - color=(-1, -1, -1), - waitBlanking=True, - ) - - # Explicitly enable VSYNC on the pyglet window. - handle = getattr(win, "winHandle", None) - if handle is not None and hasattr(handle, "set_vsync"): - handle.set_vsync(True) - - # Collect backend identifiers so timing spikes can be correlated with - # driver/compositor in post-hoc analysis. - try: - gl_info = pyglet.gl.current_context.get_info() - gl_vendor = gl_info.get_vendor() - gl_renderer = gl_info.get_renderer() - except Exception: # noqa: BLE001 — diagnostic only - gl_vendor = "?" - gl_renderer = "?" - - # VSYNC calibration: flip ~120 times and measure intervals. If the 99th - # percentile is well above one frame period, vsync is not actually blocking - # — typical on Windows under DWM composition or borderless fullscreen. - intervals_ms: list[float] = [] - # Warm-up flips before measurement: PsychoPy's detectingFrameDrops doc notes - # drops are common during startup as the GPU/driver/compositor settle. Run - # these before the calibration loop so the median feeding frame_dur_s is - # measured on a settled context, not a cold one. - for _ in range(30): - win.flip() - last_t = core.getTime() - for _ in range(120): - win.flip() - now = core.getTime() - intervals_ms.append((now - last_t) * 1000) - last_t = now - intervals_ms.sort() - median = statistics.median(intervals_ms) - p99 = intervals_ms[int(0.99 * len(intervals_ms)) - 1] - mx = intervals_ms[-1] - - # Enable PsychoPy's frame interval recording so response.run_response can read - # win.nDroppedFrames and isolate on-screen drops from measurement artifacts. - win.refreshThreshold = (median / 1000.0) * 1.5 - win.recordFrameIntervals = True - - diagnostics = ScreenDiagnostics( - gl_vendor=gl_vendor, - gl_renderer=gl_renderer, - win_type=str(getattr(win, "winType", "?")), - pyglet_version=str(getattr(pyglet, "version", "?")), - platform_str=platform.platform(), - calib_median_ms=round(median, 3), - calib_p99_ms=round(p99, 3), - calib_max_ms=round(mx, 3), - calib_n=len(intervals_ms), - ) - - return win_res, win, diagnostics - - -def make_run_dir(data_dir: Path, session_info: SessionInfo, session_time: datetime) -> Path: - ts = session_time.strftime("%Y%m%dT%H%M%S") - run_dir = data_dir / f"{session_info.subject_id}_run{session_info.run_n}_{ts}" - run_dir.mkdir(parents=True, exist_ok=True) - return run_dir diff --git a/src/mid_det/io/recording/csv_writers.py b/src/mid_det/io/recording/csv_writers.py index ec0f1c1..7d6af0d 100644 --- a/src/mid_det/io/recording/csv_writers.py +++ b/src/mid_det/io/recording/csv_writers.py @@ -1,13 +1,14 @@ """ -The modern per-trial CSV writers: a generic CsvWriter plus the behavioral, -target-timing, and scan-log writers that bind it to a fixed column schema. The -MATLAB legacy-format writer lives in legacy.py. +The modern per-trial CSV writers: the behavioral, target-timing, and scan-log +writers that bind the shared ``psyexp_core.recording.CsvWriter`` to a fixed +column schema. The MATLAB legacy-format writer lives in legacy.py. """ from __future__ import annotations -import csv from pathlib import Path +from psyexp_core.recording import CsvWriter + from mid_det.io.recording.records import ( BEHAVIORAL_COLUMNS, SCAN_LOG_COLUMNS, @@ -18,22 +19,6 @@ ) -class CsvWriter: - def __init__(self, path: Path, columns: list[str]) -> None: - self._file = open(path, "w", newline="") - self._writer = csv.DictWriter(self._file, fieldnames=columns) - self._writer.writeheader() - self._columns = columns - - def append(self, record: object) -> None: - row = {k: getattr(record, k) for k in self._columns} - self._writer.writerow(row) - self._file.flush() - - def close(self) -> None: - self._file.close() - - class BehavioralCsvWriter(CsvWriter): def __init__(self, path: Path) -> None: super().__init__(path, BEHAVIORAL_COLUMNS) diff --git a/src/mid_det/io/recording/manifest.py b/src/mid_det/io/recording/manifest.py index 0cf489c..0b0ac4d 100644 --- a/src/mid_det/io/recording/manifest.py +++ b/src/mid_det/io/recording/manifest.py @@ -1,89 +1,28 @@ """ -Run manifest writers (manifest.json) plus the best-effort system/hardware -diagnostics they embed: write_manifest for a task run, write_ratings_manifest for -a cue-ratings survey run. +Run manifest writers (manifest.json): write_manifest for a task run, +write_ratings_manifest for a cue-ratings survey run. Both delegate to the shared +``psyexp_core.manifest.write_manifest``, which fills in the system / display / +process diagnostics and the resolved psyexp_core_version; this module supplies +the MID-specific top-level fields (via *header*) and parameters (*study_params*). """ from __future__ import annotations -import json -import platform -import socket -import subprocess -import sys from datetime import datetime from pathlib import Path from typing import TYPE_CHECKING -if TYPE_CHECKING: - from mid_det.io.bootstrap import ScreenDiagnostics, SessionInfo - - -def _git_commit() -> str: - try: - out = subprocess.check_output( - ["git", "rev-parse", "--short", "HEAD"], - cwd=Path(__file__).resolve().parent, - stderr=subprocess.DEVNULL, - text=True, - ) - return out.strip() - except Exception: # noqa: BLE001 — diagnostic only - return "unknown" - - -def _cpu_name() -> str: - """Best-effort friendly CPU name. - - ``platform.processor()`` returns the raw CPUID descriptor on Windows - (e.g. "Intel64 Family 6 Model 158 Stepping 11") and the bare arch on - macOS, neither of which is a marketing name. Read the registry on - Windows; otherwise fall back to ``platform.processor()``. - """ - if platform.system() == "Windows": - try: - import winreg - - key = winreg.OpenKey( - winreg.HKEY_LOCAL_MACHINE, - r"HARDWARE\DESCRIPTION\System\CentralProcessor\0", - ) - try: - name, _ = winreg.QueryValueEx(key, "ProcessorNameString") - finally: - winreg.CloseKey(key) - if name: - return str(name).strip() - except Exception: # noqa: BLE001 — diagnostic only - pass - return platform.processor() or "unknown" - - -def _psychopy_version() -> str: - try: - import psychopy # type: ignore - return getattr(psychopy, "__version__", "unknown") - except Exception: # noqa: BLE001 - return "unknown" +from psyexp_core.manifest import write_manifest as _core_write_manifest +if TYPE_CHECKING: + from psyexp_core.diagnostics import ScreenDiagnostics -def _system_info() -> dict: - return { - "hostname": socket.gethostname(), - "platform": platform.platform(), - "machine": platform.machine(), - "processor": _cpu_name(), - "os_name": platform.system(), - "os_release": platform.release(), - "python_version": platform.python_version(), - "psychopy_version": _psychopy_version(), - "git_commit": _git_commit(), - } + from mid_det.io.bootstrap import SessionInfo def write_manifest( run_dir: Path, session_info: "SessionInfo", - session_time: datetime, + session_started_at: datetime, frame_rate: float, n_trials: int, screen_diag: "ScreenDiagnostics", @@ -94,65 +33,53 @@ def write_manifest( ) -> None: from mid_det import __version__ from mid_det.config import ( - MR_SETTINGS, - INITIAL_FIX_DUR_S, CLOSING_FIX_DUR_S, - WIN_RATIO_THRESHOLD, - MIN_TRIALS_FOR_ADAPT, - JITTER_MIN_S, + INITIAL_FIX_DUR_S, JITTER_MAX_S, + JITTER_MIN_S, + MIN_TRIALS_FOR_ADAPT, + MR_SETTINGS, + WIN_RATIO_THRESHOLD, ) - manifest = { + header = { "mid_task_deterministic_version": __version__, "subject_id": session_info.subject_id, "run_n": session_info.run_n, "fmri": session_info.fmri, "show_instructions": session_info.show_instructions, - "session_time": session_time.isoformat(timespec="seconds"), - "frame_rate_hz": round(frame_rate, 3), - "n_trials": n_trials, - "study_params": { - "tr_duration_s": MR_SETTINGS["TR"], - "initial_fix_dur_s": INITIAL_FIX_DUR_S, - "closing_fix_dur_s": CLOSING_FIX_DUR_S, - "base_rt_s": session_info.base_rt_s, - "rt_change_s": session_info.rt_change_s, - "win_ratio_threshold": WIN_RATIO_THRESHOLD, - "min_trials_for_adapt": MIN_TRIALS_FOR_ADAPT, - "jitter_min_s": JITTER_MIN_S, - "jitter_max_s": JITTER_MAX_S, - }, - "system": _system_info(), - "display": { - "gl_vendor": screen_diag.gl_vendor, - "gl_renderer": screen_diag.gl_renderer, - "win_type": screen_diag.win_type, - "pyglet_version": screen_diag.pyglet_version, - "resolution": list(win_res), - "frame_dur_ms": round(frame_dur_s * 1000, 4), - "frame_dur_source": frame_dur_source, - "vsync_calibration": { - "median_ms": screen_diag.calib_median_ms, - "p99_ms": screen_diag.calib_p99_ms, - "max_ms": screen_diag.calib_max_ms, - "n_samples": screen_diag.calib_n, - }, - }, - "process": { - "priority_raised": priority_raised, - "argv": sys.argv, - }, } - with open(run_dir / "manifest.json", "w") as f: - json.dump(manifest, f, indent=2) + study_params = { + "tr_duration_s": MR_SETTINGS["TR"], + "initial_fix_dur_s": INITIAL_FIX_DUR_S, + "closing_fix_dur_s": CLOSING_FIX_DUR_S, + "base_rt_s": session_info.base_rt_s, + "rt_change_s": session_info.rt_change_s, + "win_ratio_threshold": WIN_RATIO_THRESHOLD, + "min_trials_for_adapt": MIN_TRIALS_FOR_ADAPT, + "jitter_min_s": JITTER_MIN_S, + "jitter_max_s": JITTER_MAX_S, + } + _core_write_manifest( + run_dir, + header=header, + session_started_at=session_started_at, + screen_diag=screen_diag, + win_res=win_res, + study_params=study_params, + frame_rate=frame_rate, + n_trials=n_trials, + frame_dur_s=frame_dur_s, + frame_dur_source=frame_dur_source, + extra_process={"priority_raised": priority_raised}, + ) def write_ratings_manifest( run_dir: Path, subject_id: str, show_instructions: bool, - session_time: datetime, + session_started_at: datetime, screen_diag: "ScreenDiagnostics", win_res: list[int], n_cues: int, @@ -160,28 +87,23 @@ def write_ratings_manifest( ) -> None: """Write manifest.json for a cue-ratings survey run. - The survey is self-paced (no scanner sync / frame-timing), so this is a - trimmed version of write_manifest — no study_params or frame-rate fields. + The survey is self-paced (no scanner sync / frame-timing), so this passes no + study_params or frame-rate fields — just the survey header and display block. """ from mid_det import __version__ - manifest = { + header = { "mid_task_deterministic_version": __version__, "task": "cue-ratings", "subject_id": subject_id, "show_instructions": show_instructions, - "session_time": session_time.isoformat(timespec="seconds"), "n_cues": n_cues, "scale_points": scale_points, - "system": _system_info(), - "display": { - "gl_vendor": screen_diag.gl_vendor, - "gl_renderer": screen_diag.gl_renderer, - "win_type": screen_diag.win_type, - "pyglet_version": screen_diag.pyglet_version, - "resolution": [int(x) for x in win_res], - }, - "process": {"argv": sys.argv}, } - with open(run_dir / "manifest.json", "w") as f: - json.dump(manifest, f, indent=2) + _core_write_manifest( + run_dir, + header=header, + session_started_at=session_started_at, + screen_diag=screen_diag, + win_res=win_res, + ) diff --git a/src/mid_det/io/setup_wizard.py b/src/mid_det/io/setup_wizard.py index d1a7a84..b08cc62 100644 --- a/src/mid_det/io/setup_wizard.py +++ b/src/mid_det/io/setup_wizard.py @@ -2,26 +2,26 @@ Interactive terminal setup wizard for the MID task. Replaces the PsychoPy gui.DlgFromDict dialog with a questionary/prompt_toolkit -wizard that: - - Provides select lists where appropriate (task number) - - Defaults RT fields to frame-aligned values - - Lets operators step RT values with ↑/↓ arrows (±1 frame each press) - - Shows a live "≈ X frames" bottom-toolbar so any entered value is grounded - in display timing +wizard built on the shared psyexp_core.wizard primitives (styles, ask_* helpers, +the overwrite-guarded filename prompt, and quit handling). The MID-specific bits +stay here: a frame-stepping RT prompt that + + - defaults RT fields to frame-aligned values, + - lets operators step RT values with ↑/↓ arrows (±1 frame each press), and + - shows a live "≈ X frames" bottom-toolbar so any entered value is grounded + in display timing. """ from __future__ import annotations -from collections.abc import Callable from pathlib import Path -from typing import NoReturn import questionary from prompt_toolkit import prompt as _pt_prompt from prompt_toolkit.application.current import get_app from prompt_toolkit.formatted_text import HTML, FormattedText from prompt_toolkit.key_binding import KeyBindings -from prompt_toolkit.styles import Style as PtStyle from prompt_toolkit.validation import ValidationError, Validator +from psyexp_core import wizard from rich.console import Console from rich.panel import Panel from rich.rule import Rule @@ -32,37 +32,10 @@ _rcon = Console(stderr=True) -# ── Styles ──────────────────────────────────────────────────────────────────── - # Placeholder subject ID — shown greyed-out and used as the fallback when the # field is left empty (handy for testing). _SUBJECT_PLACEHOLDER = "XXX000" -# Match questionary's default palette so everything looks cohesive. -_QSTYLE = questionary.Style( - [ - ("qmark", "fg:#5f819d bold"), - ("question", "bold"), - ("answer", "fg:#ff9d00 bold"), - ("pointer", "fg:#ff9d00 bold"), - ("highlighted", "fg:#ff9d00 bold"), - ("selected", "fg:#cc5454"), - ("separator", "fg:#6c6c6c"), - ("instruction", "fg:#858585 italic"), - ("placeholder", "fg:#6c6c6c"), - ] -) - -# prompt_toolkit style for the custom RT prompts -_PT_STYLE = PtStyle.from_dict( - { - "prompt": "#ff9d00 bold", # ❯ arrow: matches questionary answer - "placeholder": "#6c6c6c italic", # greyed-out example, not submitted - "bottom-toolbar": "bg:#1e1e1e #888888", - "bottom-toolbar.text": "bg:#1e1e1e", - } -) - # ── Helpers ─────────────────────────────────────────────────────────────────── @@ -77,90 +50,9 @@ def _nearest_frame_aligned(value_ms: float, frame_dur_ms: float) -> float: return round(round(value_ms / frame_dur_ms) * frame_dur_ms, 2) -def _quit() -> NoReturn: - from psychopy import core # late import — avoids circular / slow startup - core.quit() - raise SystemExit(0) # unreachable; tells the type checker this never returns - - -def prompt_legacy_name(legacy_dir: Path, filename_for: Callable[[str], str]) -> str: - """Prompt for the legacy-format file's NAME and guard against clobbering an - existing file (the legacy names aren't timestamped, so same subject/run can - collide). *filename_for* maps the entered NAME to the target filename. - - Re-prompts until the resulting path is free or the operator confirms an - overwrite. Returns the chosen NAME. - """ - # Print the label above the input field (the prompt itself is just "❯"). - _rcon.print( - "[bold #5f819d]?[/bold #5f819d] [bold]Legacy filename[/bold] " - "[dim]NAME is only part of the saved file[/dim]", - highlight=False, - ) - - # Bottom toolbar: live preview of the resolved path as NAME is typed. - def _toolbar(): - typed = get_app().current_buffer.text.strip() - if not typed: - return FormattedText( - [("fg:ansired bold", " ✗ Name cannot be empty")] - ) - preview = legacy_dir / filename_for(typed) - return FormattedText([("fg:ansigreen bold", f" → saves as {preview}")]) - - while True: - raw = "" - try: - raw = _pt_prompt( - FormattedText([("class:prompt", "❯ ")]), - placeholder=HTML("e.g. 1"), - bottom_toolbar=_toolbar, - style=_PT_STYLE, - ) - except (KeyboardInterrupt, EOFError): - _quit() - name = raw.strip() - if not name: - _rcon.print("[red]Name cannot be empty.[/red]") - continue - - target = legacy_dir / filename_for(name) - if not target.exists(): - return name - - overwrite: bool | None = questionary.confirm( - f"{target.name} already exists in {legacy_dir}/ — overwrite?", - default=False, - style=_QSTYLE, - ).ask() - if overwrite is None: - _quit() - if overwrite: - return name - # else: loop and re-prompt for a different NAME - # Unreachable: the loop only exits via `return` or `_quit()`. Present so the - # type checker can see every path returns `str` (not `str | None`). - raise AssertionError("prompt_legacy_name loop exited unexpectedly") - - # ── Custom RT field ─────────────────────────────────────────────────────────── -class _PosFloatValidator(Validator): - def validate(self, document): - text = document.text.strip() - try: - v = float(text) - except ValueError: - raise ValidationError( - message="Enter a number (ms)", cursor_position=len(text) - ) - if v <= 0: - raise ValidationError( - message="Value must be > 0 ms", cursor_position=len(text) - ) - - class _RTMaxValidator(Validator): """Positive-float validator with an upper-bound check (in ms).""" @@ -273,7 +165,7 @@ def _toolbar(): jitter_max_ms=jitter_max_ms if jitter_max_ms is not None else 0.0, ) else: - validator = _PosFloatValidator() + validator = wizard.PosFloatValidator(unit="ms") try: raw = _pt_prompt( @@ -283,10 +175,10 @@ def _toolbar(): bottom_toolbar=_toolbar, validator=validator, validate_while_typing=False, - style=_PT_STYLE, + style=wizard.PT_STYLE, ) except (KeyboardInterrupt, EOFError): - _quit() + wizard.quit_app() return float(raw) @@ -321,42 +213,24 @@ def run_wizard(frame_dur_s: float) -> SessionInfo: # Placeholder (not a default): shown greyed-out so production users type the # real ID without having to clear the default value. Pressing Enter on an # empty field falls back to the placeholder value — convenient for testing. - subject_id: str | None = questionary.text( - "Subject ID", - placeholder=HTML(f"{_SUBJECT_PLACEHOLDER}"), - style=_QSTYLE, - ).ask() - if subject_id is None: - _quit() - subject_id_str: str = subject_id.strip() or _SUBJECT_PLACEHOLDER - - run_n: str | None = questionary.select( + subject_id = wizard.ask_text("Subject ID", placeholder=_SUBJECT_PLACEHOLDER) + subject_id_str = subject_id.strip() or _SUBJECT_PLACEHOLDER + + run_n: str = wizard.ask_select( "Task", choices=[ questionary.Choice("Practice run", value="practice"), questionary.Choice("Run 1", value="1"), questionary.Choice("Run 2", value="2"), ], - style=_QSTYLE, - ).ask() - if run_n is None: - _quit() - run_n: str = run_n - - fmri: bool | None = questionary.confirm( - "fMRI session?", default=False, style=_QSTYLE - ).ask() - if fmri is None: - _quit() - - show_instructions: bool | None = questionary.confirm( - "Show instructions?", default=True, style=_QSTYLE - ).ask() - if show_instructions is None: - _quit() + ) + + fmri = wizard.ask_confirm("fMRI session?", default=False) + show_instructions = wizard.ask_confirm("Show instructions?", default=True) # ── Legacy-format filename ──────────────────────────────────────────────── - legacy_name = prompt_legacy_name( + legacy_name = wizard.prompt_unique_name( + "Legacy filename", Path("data") / "legacy-fmt", lambda n: f"{n}_b{run_n}.csv", ) diff --git a/src/mid_det/ratings/__main__.py b/src/mid_det/ratings/__main__.py index 9ae314d..a18502d 100644 --- a/src/mid_det/ratings/__main__.py +++ b/src/mid_det/ratings/__main__.py @@ -18,15 +18,19 @@ core.checkPygletDuringWait = False -from psychopy import prefs - -prefs.hardware["keyboardBackend"] = "ptb" - from psychopy import visual from psychopy.hardware import keyboard +from psyexp_core import rundir, screen +from psyexp_core.keyboard import ( + KEYBOARD_BACKEND, + build_keyboard, + configure_psychopy_backend, + wait_for_key, +) from rich.console import Console -from mid_det.io import bootstrap, recording +from mid_det import config +from mid_det.io import recording from mid_det.ratings import core as rcore from mid_det.ratings import display as rdisplay from mid_det.ratings.setup_wizard import run_ratings_wizard @@ -42,7 +46,6 @@ _ADVANCE_KEYS = [_KEY_LEFT, _KEY_RIGHT, _KEY_SELECT] # Instruction/text pages advance on button 1 only (forward-only, no going back). _PAGE_ADVANCE_KEYS = [_KEY_LEFT] -_QUIT_KEYS = ["escape"] def _load_instruction_pages() -> list[str]: @@ -56,22 +59,9 @@ def _load_instruction_pages() -> list[str]: return pages -def _wait_keys(kb: keyboard.Keyboard, key_list: list[str]): - """Block until one of *key_list* (or escape) is pressed; return the name. - Escape quits the survey.""" - kb.clearEvents() - while True: - pressed = kb.getKeys(keyList=key_list + _QUIT_KEYS, waitRelease=False) - if pressed: - name = pressed[0].name - if name in _QUIT_KEYS: - core.quit() - return name - - def _show_text_page( win: visual.Window, - kb: keyboard.Keyboard, + kb: keyboard.Keyboard | None, text_stim: visual.TextStim, hint_stim: visual.TextStim, text: str, @@ -80,12 +70,12 @@ def _show_text_page( text_stim.draw() hint_stim.draw() win.flip() - _wait_keys(kb, _PAGE_ADVANCE_KEYS) + wait_for_key(kb, _PAGE_ADVANCE_KEYS, quit_keys=config.QUIT_KEYS) def _run_slider( win: visual.Window, - kb: keyboard.Keyboard, + kb: keyboard.Keyboard | None, stim: rdisplay.RatingStimuli, scale: str, cue: rcore.RatingCue | None, @@ -95,7 +85,7 @@ def _run_slider( rdisplay.draw_scale(stim, scale, pos, cue) win.flip() while True: - key = _wait_keys(kb, _ADVANCE_KEYS) + key = wait_for_key(kb, _ADVANCE_KEYS, quit_keys=config.QUIT_KEYS) if key == _KEY_LEFT: pos = rcore.clamp_slider(pos, -1) elif key == _KEY_RIGHT: @@ -113,12 +103,18 @@ def _show_fixation(win: visual.Window, stim: rdisplay.RatingStimuli) -> None: def run() -> None: + # Select the keyboard backend before any Keyboard is built. + configure_psychopy_backend() + # ── SCREEN ─────────────────────────────────────────────────────────────── - win_res, win, screen_diag = bootstrap.setup_screen() + # Let the operator pick the display (auto-returns 0 when there's only one); + # the chosen monitor is captured in screen_diag and recorded in the manifest. + screen_index = screen.prompt_screen() + win_res, win, screen_diag = screen.setup_screen(screen=screen_index) # ── WIZARD ─────────────────────────────────────────────────────────────── subject_id, show_instructions, legacy_name = run_ratings_wizard() - session_time = datetime.now() + session_started_at = datetime.now() rcon = Console(stderr=True) rcon.print(f"[bold]Cue-ratings survey:[/bold] subject=[cyan]{subject_id}[/cyan]") @@ -126,14 +122,14 @@ def run() -> None: # ── RUN DIR + MANIFEST ─────────────────────────────────────────────────── # Write the manifest up front (mirroring the MID task) so session metadata is # captured even if the survey is aborted before the CSV is written at the end. - ts = session_time.strftime("%Y%m%dT%H%M%S") - run_dir = _PROJECT_ROOT / "data" / f"{subject_id}_ratings_{ts}" - run_dir.mkdir(parents=True, exist_ok=True) + run_dir = rundir.make_run_dir( + _PROJECT_ROOT / "data", f"{subject_id}_ratings", session_started_at + ) recording.write_ratings_manifest( run_dir=run_dir, subject_id=subject_id, show_instructions=show_instructions, - session_time=session_time, + session_started_at=session_started_at, screen_diag=screen_diag, win_res=win_res, n_cues=len(rcore.RATING_CUES), @@ -141,15 +137,13 @@ def run() -> None: ) # ── KEYBOARD ───────────────────────────────────────────────────────────── - kb = keyboard.Keyboard() - actual_backend = kb.device.getBackend() - if actual_backend != "ptb": + if KEYBOARD_BACKEND != "ptb": win.close() raise RuntimeError( - f"Keyboard backend is '{actual_backend}', not 'ptb'. " + f"Keyboard backend is '{KEYBOARD_BACKEND}', not 'ptb'. " "Install psychtoolbox: pip install psychtoolbox" ) - kb.device.muteOutsidePsychopy = False + kb = build_keyboard() win.mouseVisible = False # ── STIMULI ────────────────────────────────────────────────────────────── @@ -218,7 +212,11 @@ def run() -> None: ) end.draw() win.flip() - core.wait(1.5) + + rcon.print("[bold green]Run complete[/bold green]") + exit_key = config.END_KEYS[0] + rcon.print(f"[bold yellow]Press '{exit_key}' to exit...[/bold yellow]") + wait_for_key(kb, config.END_KEYS, quit_keys=config.QUIT_KEYS) win.close() core.quit() diff --git a/src/mid_det/ratings/setup_wizard.py b/src/mid_det/ratings/setup_wizard.py index 9218288..2d3192a 100644 --- a/src/mid_det/ratings/setup_wizard.py +++ b/src/mid_det/ratings/setup_wizard.py @@ -1,27 +1,23 @@ """ Trimmed interactive setup wizard for the cue-ratings survey. -Reuses the styling and quit helpers from mid_det.io.setup_wizard; prompts only for -Subject ID and whether to show instructions (no fmri/run/timing fields). +Built on the shared psyexp_core.wizard primitives; prompts only for Subject ID +and whether to show instructions (no fmri/run/timing fields). """ from __future__ import annotations from pathlib import Path -import questionary -from prompt_toolkit.formatted_text import HTML +from psyexp_core import wizard +from rich.console import Console from rich.panel import Panel from rich.text import Text -from mid_det.io.setup_wizard import ( - _QSTYLE, - _SUBJECT_PLACEHOLDER, - _quit, - _rcon, - prompt_legacy_name, -) +from mid_det.io.setup_wizard import _SUBJECT_PLACEHOLDER -# Project root: src/mid_det/ratings/wizard.py -> project root (matches __main__). +_rcon = Console(stderr=True) + +# Project root: src/mid_det/ratings/setup_wizard.py -> project root (matches __main__). _PROJECT_ROOT = Path(__file__).resolve().parent.parent.parent.parent @@ -44,24 +40,15 @@ def run_ratings_wizard() -> tuple[str, bool, str]: # Placeholder (not a default): shown greyed-out so production users type the # real ID without clearing a field. Pressing Enter on an empty field falls # back to the placeholder value — convenient for testing. - subject_id: str | None = questionary.text( - "Subject ID", - placeholder=HTML(f"{_SUBJECT_PLACEHOLDER}"), - style=_QSTYLE, - ).ask() - if subject_id is None: - _quit() - subject_id: str = subject_id.strip() or _SUBJECT_PLACEHOLDER + subject_id = wizard.ask_text("Subject ID", placeholder=_SUBJECT_PLACEHOLDER) + subject_id_str = subject_id.strip() or _SUBJECT_PLACEHOLDER - show_instructions: bool | None = questionary.confirm( - "Show instructions?", default=True, style=_QSTYLE - ).ask() - if show_instructions is None: - _quit() + show_instructions = wizard.ask_confirm("Show instructions?", default=True) - legacy_name = prompt_legacy_name( + legacy_name = wizard.prompt_unique_name( + "Legacy filename", _PROJECT_ROOT / "data" / "legacy-fmt", lambda n: f"{n}_ratings.csv", ) - return subject_id, show_instructions, legacy_name + return subject_id_str, show_instructions, legacy_name diff --git a/src/mid_det/task/display.py b/src/mid_det/task/display.py index 3462487..4b5c698 100644 --- a/src/mid_det/task/display.py +++ b/src/mid_det/task/display.py @@ -105,9 +105,9 @@ def build_stimuli(win: visual.Window) -> Stimuli: height=font_h, wrapWidth=wrap_w, color=text_col, autoLog=False, ) - keys_map = config.KEYS_BEHAVIORAL # updated per session in update_instr_keys instr_first = visual.TextStim( - win, name="instr_first", text=f"Press {keys_map['forward']} to continue.", + win, name="instr_first", + text=f"Press {config.INSTRUCTION_KEYS['forward'][0]} to continue.", height=font_h, color=text_col, pos=(0, -y_scr / 4), autoLog=False, ) @@ -151,12 +151,6 @@ def build_stimuli(win: visual.Window) -> Stimuli: ) -def update_instr_keys(stimuli: Stimuli, fmri: bool) -> None: - """Update instruction navigation key labels based on run mode.""" - keys_map = config.KEYS_FMRI if fmri else config.KEYS_BEHAVIORAL - stimuli.instr_first.text = f"Press {keys_map['forward']} to continue." - - def draw_cue(stimuli: Stimuli, polarity: str, magnitude: int) -> None: """Draw the trial cue: shape + magnitude line + dollar label.""" # Shape body diff --git a/src/mid_det/task/instructions.py b/src/mid_det/task/instructions.py index 5c79cb1..ea8c16d 100644 --- a/src/mid_det/task/instructions.py +++ b/src/mid_det/task/instructions.py @@ -1,23 +1,21 @@ """ -Instruction presentation: a self-paced, keypress-driven loop that pages through -text/instructions_MID.txt (one page per non-blank line) and waits for the start -key. Same draw → flip → poll pattern as the per-phase loops in phases.py, but -shown once before the trial loop rather than per trial. +Instruction presentation: pages through text/instructions_MID.txt (one page per +non-blank line) via the shared psyexp_core instruction pager, then waits for the +start key. The task owns the pages and how each is drawn; the harness owns the +flip + key-polling navigation loop. """ from __future__ import annotations from pathlib import Path -from typing import TYPE_CHECKING -from psychopy import core, visual +from psychopy import visual from psychopy.hardware import keyboard +from psyexp_core import instructions as core_instructions +from psyexp_core.keyboard import get_keys from rich.console import Console from mid_det import config -if TYPE_CHECKING: - from mid_det.io.bootstrap import SessionInfo - _PROJECT_ROOT = Path(__file__).resolve().parents[3] # src/mid_det/task/ -> project root _TEXT_DIR = _PROJECT_ROOT / "text" @@ -36,45 +34,35 @@ def _load_pages(path: Path) -> list[str]: def display_instructions( win: visual.Window, stimuli, # Stimuli dataclass from display.py; avoid circular import - session_info: "SessionInfo", kb: keyboard.Keyboard, rcon: Console, ) -> None: """Display instructions from text/instructions_MID.txt one page at a time.""" - keys_map = config.KEYS_FMRI if session_info.fmri else config.KEYS_BEHAVIORAL - forward_key = keys_map["forward"] - start_key = keys_map["start"] - end_key = keys_map["end"] - pages = _load_pages(_TEXT_DIR / "instructions_MID.txt") if not pages: return - kb.clearEvents() - page_idx = 0 - - while True: - stimuli.instr_prompt.text = pages[page_idx] + def _draw_page(page: str, _is_last: bool) -> None: + stimuli.instr_prompt.text = page stimuli.instr_prompt.draw() stimuli.instr_first.draw() - win.flip() - pressed = kb.getKeys(keyList=[forward_key, end_key], waitRelease=False) - if not pressed: - continue - key_name = pressed[0].name - if key_name == end_key: - core.quit() - elif key_name == forward_key: - page_idx += 1 - if page_idx >= len(pages): - break + core_instructions.page_through( + win, + pages, + _draw_page, + forward_keys=config.INSTRUCTION_KEYS["forward"], + back_keys=config.INSTRUCTION_KEYS["back"], + quit_keys=config.QUIT_KEYS, + kb=kb, + ) + start_key = config.START_KEYS[0] rcon.print( f"[bold yellow]End of instructions — press '{start_key}' to continue...[/bold yellow]" ) while True: stimuli.instr_finish.draw() win.flip() - if kb.getKeys(keyList=[start_key], waitRelease=False): + if get_keys(kb, config.START_KEYS): break diff --git a/src/mid_det/task/phases.py b/src/mid_det/task/phases.py index aa8c642..b20d99b 100644 --- a/src/mid_det/task/phases.py +++ b/src/mid_det/task/phases.py @@ -6,6 +6,8 @@ """ from __future__ import annotations +from psyexp_core.keyboard import clear_events, get_presses + from mid_det import config from mid_det._psychopy import core, keyboard, visual from mid_det.task.debug import DebugOverlay @@ -41,7 +43,7 @@ def run_fixation( overlay: DebugOverlay | None = None, ) -> bool: """Display fixation; return True if any response key was pressed (early press).""" - kb.clearEvents() + clear_events(kb) early = False timer = core.CountdownTimer(config.STUDY_TIMES_S["fixation"]) while timer.getTime() > 0: @@ -49,10 +51,10 @@ def run_fixation( win.flip() _poll_hotkeys(kb, overlay) # Poll in the loop so a press doesn't sit in the buffer until end-of-phase, - # where a downstream kb.clearEvents() could discard it before inspection. - if not early and kb.getKeys(keyList=config.EXP_KEYS, waitRelease=False): + # where a downstream clear_events() could discard it before inspection. + if not early and get_presses(kb, config.RESPONSE_KEYS): early = True - if not early and kb.getKeys(keyList=config.EXP_KEYS, waitRelease=False): + if not early and get_presses(kb, config.RESPONSE_KEYS): early = True return early @@ -91,8 +93,12 @@ def run_iti( def _poll_hotkeys(kb: keyboard.Keyboard, overlay: DebugOverlay | None = None) -> None: - """Per-frame operator-hotkey poll: quit on escape, toggle the debug overlay on f3.""" - if kb.getKeys(keyList=["escape"], waitRelease=False): + """Per-frame operator-hotkey poll: quit on escape, toggle the debug overlay on f3. + + Uses the device-direct get_presses (not the backend-switching get_keys): the + trial hot loop always holds a real PTB Keyboard, and reading it directly keeps + this PsychoPy-free so the timing tests can drive it with a fake keyboard.""" + if get_presses(kb, config.QUIT_KEYS): core.quit() - if overlay is not None and kb.getKeys(keyList=["f3"], waitRelease=False): + if overlay is not None and get_presses(kb, config.OVERLAY_TOGGLE_KEYS): overlay.toggle() diff --git a/src/mid_det/task/response.py b/src/mid_det/task/response.py index 424e397..8404332 100644 --- a/src/mid_det/task/response.py +++ b/src/mid_det/task/response.py @@ -1,8 +1,9 @@ """ The response window: target onset/offset timing and keypress capture. -run_response is the timing-critical core of a trial. It uses -psychopy.hardware.keyboard.Keyboard for accurate RT timestamping. FlipTimer +run_response is the timing-critical core of a trial. It reads frame-accurate +reaction times through the shared psyexp_core keyboard helpers (get_presses / +reset_clock_on_flip / clock_time), which expose the PTB keyboard clock. FlipTimer (flip_timer.py) accumulates per-flip diagnostics; _ResponseState classifies the keypress outcome. No rendering objects are built here; no data is written here. """ @@ -10,6 +11,8 @@ from dataclasses import dataclass +from psyexp_core.keyboard import clock_time, get_presses, reset_clock_on_flip + from mid_det import config from mid_det._psychopy import core, keyboard, visual from mid_det.task.debug import DebugOverlay @@ -27,12 +30,10 @@ class _ResponseState: rt_s: float | None = None def poll_pretarget(self, kb: keyboard.Keyboard) -> None: - """Before target onset any EXP_KEYS press is early. Also drains presses + """Before target onset any RESPONSE_KEYS press is early. Also drains presses queued before the loop (e.g. during wait_for_tr); a plain - kb.clearEvents() would silently discard those.""" - if not self.early_press and kb.getKeys( - keyList=config.EXP_KEYS, waitRelease=False - ): + clear_events() would silently discard those.""" + if not self.early_press and get_presses(kb, config.RESPONSE_KEYS): self.early_press = True def poll_target( @@ -42,7 +43,7 @@ def poll_target( pressed before the onset-flip clock reset → early, never a hit.""" if self.hit or self.rt_s is not None or self.early_press: return - keys = kb.getKeys(keyList=config.EXP_KEYS, waitRelease=False) + keys = get_presses(kb, config.RESPONSE_KEYS) if not keys: return rt = keys[0].rt @@ -93,16 +94,16 @@ def run_response( response = _ResponseState(early_press=early_press) # Drain any presses queued between fixation end and now (e.g. during - # pulse_counter.wait_for_tr() or scheduler hiccups). Any EXP_KEYS press here - # belongs to the pre-target window and must count as early. + # pulse_counter.wait_for_tr() or scheduler hiccups). Any RESPONSE_KEYS press + # here belongs to the pre-target window and must count as early. response.poll_pretarget(kb) while phase_clock.getTime() < config.STUDY_TIMES_S["response"]: t = phase_clock.getTime() - # Schedule kb.clock reset to fire on the next flip so t=0 aligns with onset. + # Schedule kb clock reset to fire on the next flip so t=0 aligns with onset. if not target_onset_scheduled and t >= jitter_s: - win.callOnFlip(kb.clock.reset) + reset_clock_on_flip(kb, win) target_onset_scheduled = True # Decide removal BEFORE the flip: omitting draw_target clears the target @@ -111,7 +112,7 @@ def run_response( # already shown and +1 counts the frame this upcoming flip will complete. should_remove = False if target_on_screen and target_removed_at is None: - frames_shown_after_next_flip = round(kb.clock.getTime() / frame_dur_s) + 1 + frames_shown_after_next_flip = round(clock_time(kb) / frame_dur_s) + 1 should_remove = frames_shown_after_next_flip >= n_target_frames if target_onset_scheduled and target_removed_at is None and not should_remove: diff --git a/tests/test_calibration_matlab_parity.py b/tests/test_calibration_matlab_parity.py index ab156a0..1b38d81 100644 --- a/tests/test_calibration_matlab_parity.py +++ b/tests/test_calibration_matlab_parity.py @@ -75,37 +75,45 @@ def _python_windows( return out -def _octave_windows( - cues: list[int], wins: list[int], base_rt: float, rt_change: float -) -> list[float]: - """Per-trial target window from the MATLAB/Octave reference engine.""" +Case = tuple[list[int], list[int], float, float] # cues, wins, base_rt, rt_change +_Key = tuple[tuple[int, ...], tuple[int, ...], float, float] + + +def _case_key(cues: list[int], wins: list[int], base_rt: float, rt_change: float) -> _Key: + return (tuple(cues), tuple(wins), base_rt, rt_change) + + +def _engine_batch(cases: list[Case]) -> list[list[float]]: + """Run every reference computation in a SINGLE engine invocation. + + Launching octave/MATLAB once per parametrized case spawns the app ~17× per + run (dock churn, slow startup dominates). Instead, emit one program that runs + all cases, delimiting each result block with a ``===`` marker, and split the + output back apart. Returns one list of per-trial windows per case, in order. + """ assert _ENGINE is not None kind, exe = _ENGINE - cues_lit = " ".join(str(c) for c in cues) - wins_lit = " ".join(str(w) for w in wins) - # %.17g round-trips a double exactly; printf recycles the format per element. - code = ( - f"addpath('{_REF_DIR}');" - f"cv = calibration_ref([{cues_lit}], [{wins_lit}], {base_rt!r}, {rt_change!r});" - f"printf('%.17g\\n', cv);" - ) + parts = [f"addpath('{_REF_DIR}');"] + for cues, wins, base_rt, rt_change in cases: + cues_lit = " ".join(str(c) for c in cues) + wins_lit = " ".join(str(w) for w in wins) + # %.17g round-trips a double exactly; printf recycles the format per element. + parts.append( + f"cv = calibration_ref([{cues_lit}], [{wins_lit}], {base_rt!r}, {rt_change!r});" + f"printf('%.17g\\n', cv); printf('===\\n');" + ) + code = "".join(parts) cmd = [exe, "-batch", code] if kind == "matlab" else [exe, "--quiet", "--eval", code] - proc = subprocess.run(cmd, capture_output=True, text=True, timeout=120) + proc = subprocess.run(cmd, capture_output=True, text=True, timeout=300) if proc.returncode != 0: raise RuntimeError( f"{kind} reference failed (rc={proc.returncode}):\n{proc.stderr}" ) - return [float(line) for line in proc.stdout.split() if line.strip()] - - -def _assert_parity( - cues: list[int], wins: list[int], base_rt: float, rt_change: float -) -> list[float]: - py = _python_windows(cues, wins, base_rt, rt_change) - ref = _octave_windows(cues, wins, base_rt, rt_change) - assert len(py) == len(cues) - assert ref == pytest.approx(py, abs=1e-12) - return py + results = [ + [float(tok) for tok in block.split() if tok.strip()] + for block in proc.stdout.split("===") + ] + return [block for block in results if block] # drop trailing empty split # ── shared test data ────────────────────────────────────────────────────────── @@ -127,33 +135,79 @@ def _random_sequence(seed: int, n: int) -> tuple[list[int], list[int]]: _BOUNDARY = ([4] * 51, [1] * 33 + [0] * 17 + [1]) # ratio hits exactly 33/50 = 0.66 _PARAMS = [(config.BASE_RT_S, config.RT_CHANGE_S), (config.BASE_RT_PRACTICE_S, 1 / 60.0)] +_SEEDS = [0, 1, 7, 42, 123] +_EDGE_CASES = [_ALL_WINS, _ALL_MISS, _BOUNDARY] +_DISCRIMINATING = (_random_sequence(seed=99, n=40), (config.BASE_RT_S, config.RT_CHANGE_S)) + + +def _all_cases() -> list[Case]: + """Every (cues, wins, base_rt, rt_change) the tests below reference — kept in + sync with their parametrize lists so all references resolve from one batch.""" + cases: list[Case] = [] + for base_rt, rt_change in _PARAMS: + for seed in _SEEDS: + cues, wins = _random_sequence(seed, n=120) + cases.append((cues, wins, base_rt, rt_change)) + for base_rt, rt_change in _PARAMS: + for cues, wins in _EDGE_CASES: + cases.append((list(cues), list(wins), base_rt, rt_change)) + (dcues, dwins), (dbase, dchange) = _DISCRIMINATING + cases.append((dcues, dwins, dbase, dchange)) + return cases + + +@pytest.fixture(scope="session") +def engine_refs() -> dict[_Key, list[float]]: + """Reference windows for every case, computed in one engine launch per session.""" + if _ENGINE is None: + return {} + cases = _all_cases() + results = _engine_batch(cases) + assert len(results) == len(cases), ( + f"engine returned {len(results)} result blocks for {len(cases)} cases" + ) + return {_case_key(*case): result for case, result in zip(cases, results)} + + +def _assert_parity( + engine_refs: dict[_Key, list[float]], + cues: list[int], + wins: list[int], + base_rt: float, + rt_change: float, +) -> list[float]: + py = _python_windows(cues, wins, base_rt, rt_change) + ref = engine_refs[_case_key(cues, wins, base_rt, rt_change)] + assert len(py) == len(cues) + assert ref == pytest.approx(py, abs=1e-12) + return py # ── tests ───────────────────────────────────────────────────────────────────── @requires_engine @pytest.mark.parametrize("base_rt,rt_change", _PARAMS) -@pytest.mark.parametrize("seed", [0, 1, 7, 42, 123]) -def test_parity_random_sequences(base_rt, rt_change, seed): +@pytest.mark.parametrize("seed", _SEEDS) +def test_parity_random_sequences(engine_refs, base_rt, rt_change, seed): cues, wins = _random_sequence(seed, n=120) - windows = _assert_parity(cues, wins, base_rt, rt_change) + windows = _assert_parity(engine_refs, cues, wins, base_rt, rt_change) # guard against a vacuous pass: adaptation must actually have moved the window assert any(w != pytest.approx(base_rt) for w in windows) @requires_engine @pytest.mark.parametrize("base_rt,rt_change", _PARAMS) -@pytest.mark.parametrize("cues,wins", [_ALL_WINS, _ALL_MISS, _BOUNDARY]) -def test_parity_edge_cases(base_rt, rt_change, cues, wins): - _assert_parity(list(cues), list(wins), base_rt, rt_change) +@pytest.mark.parametrize("cues,wins", _EDGE_CASES) +def test_parity_edge_cases(engine_refs, base_rt, rt_change, cues, wins): + _assert_parity(engine_refs, list(cues), list(wins), base_rt, rt_change) @requires_engine -def test_parity_check_is_discriminating(): +def test_parity_check_is_discriminating(engine_refs): """A deliberately wrong Python result must NOT match the reference — proves the comparison can actually fail, so a passing parity run is meaningful.""" - cues, wins = _random_sequence(seed=99, n=40) - ref = _octave_windows(cues, wins, config.BASE_RT_S, config.RT_CHANGE_S) + (cues, wins), (base_rt, rt_change) = _DISCRIMINATING + ref = engine_refs[_case_key(cues, wins, base_rt, rt_change)] perturbed = list(ref) perturbed[-1] += 0.020 # one trial off by a full rt_change step assert perturbed != pytest.approx(ref, abs=1e-12) diff --git a/tests/test_recorder.py b/tests/test_recorder.py index 62e0098..c904306 100644 --- a/tests/test_recorder.py +++ b/tests/test_recorder.py @@ -50,6 +50,7 @@ class _FakeScreenDiag: calib_p99_ms: float = 17.0 calib_max_ms: float = 18.0 calib_n: int = 120 + monitor: dict | None = None def test_ratings_manifest_written(tmp_path: Path): @@ -57,7 +58,7 @@ def test_ratings_manifest_written(tmp_path: Path): 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