docs/update session summary through e3c979a

Add items 8-12 (timing log, account-change reset, optics
skip-if-in-position, OSA collision warning, tomo_alignment_scan) plus
the BEC_ptycho_align naming fix, updated test count (458), and
corresponding manual-check lines.

Co-Authored-By: Claude Sonnet 5 <noreply@anthropic.com>

csaxs_bec/bec_ipython_client/plugins/LamNI/AI_docs/HW_COMMISSIONING_SESSION_2026-07.md

@@ -1,6 +1,6 @@
 # flomni/lamni parity fixes — 2026-07 session summary
 
-Branch `fixes/lamni_hw_commissioning`, commits `6c3d603..c3877ec`. Very brief
+Branch `fixes/lamni_hw_commissioning`, commits `6c3d603..e3c979a`. Very brief
 by design — `git show <hash>` on any commit below has the full reasoning and
 diff; that's the source of truth if something needs revisiting.
 
@@ -39,13 +39,58 @@ diff; that's the source of truth if something needs revisiting.
    before this session — confirmed identical to flomni's, nothing changed
    there. GUI needed no new UI code, just flipping lamni's
    `has_zero_deg_reference` profile flag to `True`.
+8. **`e59a42f`** — ported flomni's per-projection/tomogram JSONL timing log
+   (`~/data/raw/logs/timing_statistics/*.jsonl`) and `scilog_last_ptycho_scans(n)`
+   to lamni, adapted for lamni's own param names (no `fovx`/`fovy`/
+   `single_point_instead_of_fermat_scan` — uses `tomo_circfov`/
+   `lamni_piezo_range_x`/`y` instead).
+9. **`b4c262d`** — lamni now offers a tomo-parameter reset when the active
+   BEC account changes (`_maybe_reset_params_on_account_change()`/
+   `_set_default_tomo_params()`), preventing a new experiment silently
+   inheriting the previous one's tuned FOV/stitch/etc.
+10. **`7863b8f`** — `lfzp_in()`/`losa_in()` now skip the move (and, for the
+    FZP, the expensive feedback-disable + reset-enable cycle) when already in
+    position, matching flomni's `ffzp_in()`/`fosa_in()`. Also added the same
+    optimization to `losa_out()` as a lamni-side enhancement (flomni's
+    `fosa_out()` has no equivalent). **Found and fixed a real correctness
+    risk while checking every existing caller**: `x_ray_eye_align.py`'s
+    "Step 0: FZP centre" (start of a fresh alignment run) depended entirely
+    on `lfzp_in()`'s old *unconditional* reset to re-zero the interferometer
+    — now explicitly calls `lfzp_in(force_feedback_reset=True)` there so that
+    behavior is preserved regardless of the new skip-optimization.
+11. **`db18929`** — added flomni's OSA collision-clearance warning
+    (`ffzp_info()`) to lamni's `lfzp_info()`. lamni's own collision-boundary
+    constant has never been measured, so it's read from `loptz`'s device
+    config (`userParameter.collision_offset`, currently unset everywhere,
+    including the simulated config) via a new non-raising
+    `_get_user_param_optional()` helper — prints a clear "not commissioned"
+    warning and skips the numeric estimate until someone adds the real
+    measured value to the config. Deliberately **not** a CLI-settable
+    parameter (per your explicit correction) — this is deployment-level
+    hardware calibration.
+12. **`12b2538`, `e3c979a`** — new `lamni.tomo_alignment_scan()`, replacing
+    the awkward documented workaround (configure a full tomo_type-1 setup
+    with 96 projections, launch just `sub_tomo_scan(1, 0)`) with a dedicated
+    command mirroring flomni's: adjust `tomo_parameters()`, then call
+    `tomo_alignment_scan()` directly — no tomo_type/sub-tomogram bookkeeping
+    needed. Runs 12 points across the full 360° (lamni has no 180° symmetry
+    the way flomni does, so covers the whole circle rather than flomni's
+    5-point/180° scan). Aborts if x-ray-eye alignment hasn't been done yet.
+    Writes the same 4-line scan-number/angle/offset log flomni's version
+    does, to `~/data/raw/logs/ptychotomoalign_scannum.txt`, for
+    **`BEC_ptycho_align`** (not `SPEC_ptycho_align.m` as initially assumed —
+    corrected in `e3c979a`). `docs/user/ptychography/lamni.md`'s "Fine
+    alignment" section rewritten to match. Known scope limit: calls
+    `leye_out()` unconditionally (flomni's equivalent skip-if-already-set-up
+    optimization has no lamni-side helpers to reuse yet — separate follow-up
+    if needed).
 
 **Parked, not done:** `DataDrivenLamNI`'s broken `_start_beam_check()` calls
 (missing mixin) — deferred on request, separate task if ever needed.
 
 ## What to test to confirm everything's still healthy
 
-**Automated** — should show `423 passed, 15 skipped`:
+**Automated** — should show `458 passed, 15 skipped`:
 ```
 /opt/bec_deployments/production/bec_venv/bin/python -m pytest tests/ -q
 ```
@@ -59,17 +104,31 @@ beamline:**
 - `lamni.tomo_queue_add()` a couple of jobs → `tomo_queue_execute()` →
   `tomo_queue_reacquire(0, <n>)` on a finished job → confirm status flips and
   later jobs go `pending` → `tomo_queue_resume()` re-runs them.
-- `lamni.tomo_parameters()`: confirm the hook line (if one's registered) and
-  the "Estimated Fermat scan points" line both appear, with a warning shown
-  for a deliberately tiny piezo range / coarse step.
+- `lamni.tomo_parameters()`: confirm the hook line (if one's registered),
+  the "Estimated Fermat scan points" line, and the account-change reset
+  prompt (switch `bec.active_account` and re-instantiate `LamNI`) all behave
+  as expected.
 - GUI (`TomoParamsWidget`, lamni active): hover a queued job and confirm only
   relevant fields show; confirm the new Fermat-points field updates live and
-  turns orange under the same tiny-FOV condition.
+  turns orange under a tiny-FOV condition; confirm the "0° reference each
+  sub-tomo" checkbox (type 1) is now available.
 - A real `lamni_fermat_scan` with too few points should still hit its
   `ScanAbortion` safety net unchanged (the warning above is advisory, not a
   replacement for it).
-- `lamni.zero_deg_reference_at_each_subtomo = True` (or the GUI's "0°
-  reference each sub-tomo" checkbox, type 1 only), run a short type-1
+- `lamni.zero_deg_reference_at_each_subtomo = True`, run a short type-1
   `tomo_scan()`, and confirm the extra 0-deg shots land right before
-  sub-tomograms 1/3/5/7 plus one final shot after sub-tomogram 8, in the
-  console output / `tomography_scannumbers.txt`.
+  sub-tomograms 1/3/5/7 plus one final shot after sub-tomogram 8.
+- Call `lamni.lfzp_in()`/`losa_in()`/`losa_out()` twice in a row and confirm
+  the second call skips the move; run `start_x_ray_eye_alignment()` twice in
+  a row (FZP already in position the second time) and confirm the
+  interferometer is still freshly reset at Step 0 both times.
+- `lamni.lfzp_info()`: confirm the OSA "not commissioned" warning appears
+  (no `collision_offset` configured yet); once a real value is measured and
+  added to `loptz`'s device config, confirm the collision-clearance numbers
+  print sensibly.
+- `lamni.tomo_alignment_scan()`: with `tomo_fit_xray_eye` unset, confirm it
+  aborts; with it set, confirm 12 scans run across 360°, the scan-number
+  file is written, and the console/scilog summary is correct. Confirm
+  `BEC_ptycho_align` can actually consume the written file format (this is
+  the one item in this batch whose exact file-format compatibility with the
+  real Matlab tool hasn't been confirmed against real data).