The 06/25 silent hang was a hung ``sftp.listdir_attr()`` on the
worker thread — paramiko TCP-acked then went silent, the scheduler's
``asyncio.to_thread`` waited forever, and the operator had no
signal that polling had stalled. Every poll cycle since was
suspected of the same failure mode.
``backend/src/cyclone/clearhouse/__init__.``
- New ``_op_timeout_seconds()`` helper reads
``CYCLONE_SFTP_OP_TIMEOUT_SECONDS`` (default 30s). Rejects
unparseable, zero, and negative values — ``asyncio.wait_for(timeout=0)``
raises immediately and ``timeout<0`` is undefined per the asyncio
docs, so a typo would silently turn every SFTP call into an
instant failure. Logs a WARNING and falls back to the default.
- New ``async_list_inbound()`` async wrapper applies
``asyncio.wait_for(asyncio.to_thread(self.list_inbound),
timeout=N)``. ``wait_for`` cancels the awaiter after N
seconds but the worker thread keeps running until paramiko returns
on its own (paramiko is not asyncio-aware, can't be cancelled
cleanly). ``asyncio.TimeoutError`` propagates so the scheduler
can surface it as a transient SFTP error.
``backend/src/cyclone/scheduler.py``
- ``_tick_impl`` now calls ``client.async_list_inbound()``
instead of ``asyncio.to_thread(self._list_inbound)``. Catches
``asyncio.TimeoutError`` explicitly with a clear error message
("list_inbound: timeout") — separate from the generic
``Exception`` catch-all so the operator's tick-result error
reads as the actual cause.
- Deleted the now-dead ``Scheduler._list_inbound()`` shim.
``backend/tests/test_sftp_op_timeout.py`` (new, 6 tests):
1. Default timeout is 30s when the env var is unset.
2. Operator can override via env var without restart-rebuild.
3. Unparseable value (e.g. "30s") falls back to default.
4. Zero and negative values fall back to default.
5. A hanging list_inbound raises ``asyncio.TimeoutError`` within
the configured bound (the 06/25 hang pin).
6. A non-hanging call returns the stub's empty list normally
(sanity check that the wrapper doesn't break the happy path).
Scope note: only ``async_list_inbound`` is wired up. The other
SFTP methods (``list_inbound_names``, ``download_inbound``,
``read_file``, ``write_file``) are called from
operator-triggered paths (admin endpoints, CLI, claim submission)
where the operator can Ctrl-C the request, so a hang is at least
visible. Wrapping them would require making the FastAPI handlers
async, which is out of scope for Task 8. Tracked as a follow-up —
worth folding into the same shape when those endpoints are next
touched.
Gainwell's production filer has shipped at least two inbound filename
shapes — the spec form with a trailing `_{file_type}.x12` suffix and
a shorter suffix-less form where the disambiguator token (between
`-` and `_M`) doubles as both orig_tx and file_type. The 6/15–6/19
835 batch arrived in the suffix-less form, and the strict
`INBOUND_RE` rejected them outright — the scheduler silently
dropped 5 days of production data without logging an error.
`backend/src/cyclone/edi/filenames.py`
- New `INBOUND_RE_LOOSE` regex: same prefix/tpid/tracking/ts/seq
rules as `INBOUND_RE`, but the disambiguator token is required
to be 3–5 uppercase alnum (covers 999, TA1, 835, 277CA, ENCR; the
5-char cap stops the engine from over-eating the next `_M` token
in a degenerate input).
- `parse_inbound_filename` now tries `INBOUND_RE` first
(preserves historical behavior for every existing caller) and
falls back to `INBOUND_RE_LOOSE`. In the loose form, orig_tx is
set to the disambiguator token so the parsed shape matches what
the strict form produces when orig_tx == file_type. The
`ALLOWED_FILE_TYPES` check is enforced in both branches.
- `is_inbound_filename` is loosened in the same shape so the two
never disagree — a refactor that pre-filters a directory listing
with `is_inbound_filename` then re-parses with
`parse_inbound_filename` would otherwise see the suffix-less
files rejected twice.
`backend/tests/test_inbound_filename_loose.py` (new, 10 tests):
1. Spec form with explicit `_835.x12` suffix still wins (strict
path unchanged).
2-5. Suffix-less 835 / 999 / 277CA / ENCR all parse correctly.
6. Suffix-less `.txt` is still rejected (the `.x12` ext check
applies to both forms).
7. Suffix-less unknown type (4-char `ABCD`) is rejected by
ALLOWED_FILE_TYPES — the loose regex's `{3,5}` shape would
otherwise let it through.
8. Suffix-less 6-char token (`999XX6`) is rejected by the
5-char cap, preventing the engine from swallowing the next
`_M` token.
9. Strict form takes precedence over the loose form when both
match — pinning the parser's branch order so a refactor can't
silently change the parsed shape.
10. `is_inbound_filename` accepts the loose form, the spec form,
and rejects garbage.
Live smoke: 5/5 suffix-less Gainwell patterns now parse correctly
(were ValueError before); spec form unchanged; 4 invalid forms
still rejected. Full backend suite: 1085/1121 — the 36 pre-existing
failures (test_serialize_837, test_api_stream_live,
test_inbox_endpoints) are unrelated and confirmed pre-existing by
running them on stashed pre-change code.
The Acks page silently capped at 100 of 1056 rows in the operator's
DB: the eyebrow read `${items.length} on file` (not the server's
`total`), the KPI strip summed from the 100 visible items, and the
endpoint accepted no `offset` — so the user had no signal that 956
more acks existed. Same class of bug on the Activity page (cap=200,
no 'X of Y' hint).
Backend
- /api/acks (acks.py): add `offset`, bump `le=1000`→`le=5000`,
slice `rows[offset:offset+limit]`, return server-side
`aggregates` (accepted/rejected/received summed over the full
row set, not the page) so the KPI strip reflects every persisted
999 instead of just the visible 50.
- /api/activity list + stream (api.py): bump `le=500`→`le=5000` so
the page can ask for a denser snapshot.
- /api/277ca-acks (api.py): bump `le=1000`→`le=5000` for
consistency.
- /api/ta1-acks: left at `le=1000` — TA1s aren't shipped today and
the structural fix (offset + aggregates) wasn't applied, so a
larger cap would just make the same latent silent-failure easier
to hit. (TODO: fold in the same shape when Gainwell starts
shipping TA1s.)
Frontend
- listAcks (api.ts): accept `offset`, surface `aggregates`,
adapt wire `*_count` keys to the in-page
`accepted`/`rejected`/`received` shape so the page can use
`data.aggregates` as a drop-in for the page-local fallback
accumulator.
- useAcks (hooks): pass `offset` through; return type carries
`aggregates`.
- Acks.tsx: add `page` state (PAGE_SIZE=50), use `data.total`
for eyebrow + watermark (not `items.length`), use
`data.aggregates` for the KPI strip (with in-page fallback
accumulator on first paint), render `<Pagination>` when
`totalCount > PAGE_SIZE`. Footer row reads "N rows on file"
instead of "N rows".
- ActivityLog.tsx: bump `limit: 200`→`limit: 500`, eyebrow reads
"Activity · showing N most recent" to make the bounded-window
semantics honest (the endpoint doesn't expose a true total — it
reports events matching the current kind/since filter, capped at
the request limit).
Tests
- test_acks.py: 4 new tests pin the fix:
1. `offset` walks the full set; `has_more` flips at the
boundary.
2. `aggregates` reflects the full row set, not the page (the
silent-failure pin) — and stays stable across page slices.
3. `limit` cap of 5000 is enforced (422 above it).
4. `offset` past the end returns an empty page with stable
aggregates (a stale UI page state across a row count change
must not 500 or zero the KPIs).
Live smoke-verified: /api/acks?limit=2&offset=0 vs ?offset=2 return
the expected row slices, aggregates stable at 15/10/15 for 5 seeded
rows, /api/acks?limit=10000 rejected with 422.
Triage note: the TA1 section (`Ta1AcksSection`, lines 609-616 of
Acks.tsx) has the same latent silent-failure pattern (page-sums
KPIs, no offset on /api/ta1-acks). Left untouched because the
empty-state copy says Gainwell doesn't ship TA1s today and the
larger structural fix belongs in a follow-up.
CycloneStore split precedent (SP21) — lift three helpers from
scheduler.py + api.py into one module. Both callers will switch
to this in Task 6. The new package also defines HandleResult
and the HANDLERS registry; handle_999 / handle_ta1 / handle_277ca
/ handle_835 fill in over Tasks 2-5.
The registry is lazy + best-effort: register_handlers() catches
broad Exception so a partial-modification SyntaxError in one
in-flight handler module can't break scheduler or API import.
11 tests added; existing suite unchanged (1 failed + 2 errors
pre-existing in test_provider_extended_response.py are not
introduced by this commit).
Two related fixes land together because the UI was reporting
"1 accepted 1 rejected" for every 999 even though every inbound file
Gainwell ships has IK5=A.
1. Gainwell's MFT uses IK5 where the X12 005010X231A1 spec calls
for AK5 (the per-set accept/reject segment). The parser only
recognized AK5, so set_responses[0].set_accept_reject.code
defaulted to 'R' and the count summary showed all rejections.
_consume_ak2 now accepts either AK5 or IK5; the orchestrator's
segment-skip set picks up IK5 too. A new fixture
(minimal_999_ik5_gainwell.txt) is a verbatim copy of one of the
files in the FromHPE inbound staging dir.
2. _ack_count_summary (api + scheduler) now trusts the per-set
IK5 codes over the functional-group AK9. Gainwell's AK9 is
internally inconsistent — the per-claim IK5=A but the AK9
reports accepted=1, rejected=1, received=1 (sum exceeds
received). Trusting the per-set codes restores the right
answer: accepted=1, rejected=0, code='A'.
3. The Acks page now has a TA1 envelope register alongside the
999 register. TA1s are the lower-level sibling of the 999
(one row per inbound ISA/IEA). The backend surface (parser,
store, API at /api/ta1-acks) was already in place; this
adds the UI: Ta1Ack type, listTa1Acks API method, useTa1Acks
hook, and a Ta1AcksSection card with KPIs + table.
After reprocessing 1056 cached 999s through the new code: every row
shows code='A' with accepted=1, rejected=0 — matches the Gainwell
portal's per-claim accepted state. The user's earlier observation
("the claims look to be accepted in the portal") was correct: the
underlying claim state was always fine, only the displayed count was
wrong.
- backend/src/cyclone/parsers/parse_999.py | 21 ++-
- backend/src/cyclone/api.py | 11 +-
- backend/src/cyclone/scheduler.py | 13 +-
- backend/tests/test_parse_999.py | 32 ++++
- backend/tests/fixtures/minimal_999_ik5_gainwell.txt
- src/types/index.ts | 32 ++++
- src/lib/api.ts | 62 +++++-
- src/hooks/useTa1Acks.ts | 26 +++ (new)
- src/pages/Acks.tsx | 209 +++++++++++++++++++-
Three changes that unblock the daily inbound pull from Gainwell's
FromHPE MFT path:
1. INBOUND_RE now accepts both 'TP' and 'tp' prefixes via inline
(?i:TP) scoping — case-folding the whole pattern would let
lowercase '837p' / tracking IDs through, which is invalid HCPF.
The rest of the pattern is still case-sensitive.
2. _list_inbound_paramiko skips *_warn.txt entries. Gainwell's MFT
drops ~583 advisory text-format notes in the same inbound dir;
they come first alphabetically and were padding every poll with
~80 min of pointless downloads.
3. New SftpClient.list_inbound_names() + download_inbound() pair
gives a metadata-only listing and on-demand fetch. The
scheduler's existing full-listing path still works (now without
the warn padding); the new path is what the new
/api/admin/scheduler/pull-inbound endpoint and the
'cyclone pull-inbound' CLI use to fast-target a date range
without paying the cost of a full ~6000-file download.
Scheduler.process_inbound_files() runs the same per-file pipeline
as a regular tick on the pre-fetched list, so dedup via
processed_inbound_files still applies.
Tests added in test_filenames.py (lowercase + mixed-case cases),
test_sftp_paramiko.py (warn skip + no-download listing), and
test_scheduler.py (process_inbound_files idempotency).
With this, the daily 385-file pull for 20260624 completes in
seconds via 'docker exec cyclone-backend-1 python -m cyclone
pull-inbound --date 20260624 --block dzinesco' (or the equivalent
POST to /api/admin/scheduler/pull-inbound?date=20260624).
The dzinesco SP9 seed had `paths.inbound` and `paths.outbound` mapped to
the wrong Gainwell MFT directories:
- paths.outbound was FromHPE/ (HPE sends files FROM here TO us — inbound)
- paths.inbound was ToHPE/ (we send files TO here — outbound)
So `/api/clearhouse/submit` was writing 837P claims to FromHPE (where
HPE puts acks/835s) and the SP16 scheduler was polling ToHPE (where our
claims go). 999 / TA1 / 835 files in the real FromHPE inbox were
unreachable.
Semantics per operator (2026-06-24):
- FromHPE = HPE/Gainwell → us = 999, TA1, 835 (inbound)
- ToHPE = us → HPE/Gainwell = 837P claims (outbound)
**Runtime code (the actual fix):**
- backend/src/cyclone/store.py — SP9 seed paths flipped
- backend/src/cyclone/edi/filenames.py — docstring corrected
**Test fixtures + assertions (would otherwise fail on the new seed):**
- backend/tests/test_clearhouse_api.py
- backend/tests/test_providers_seed.py
- backend/tests/test_sftp_stub.py — incl. inbound dir paths
- backend/tests/test_sftp_paramiko.py
- backend/tests/test_store_update_clearhouse.py
- backend/tests/test_api_clearhouse_patch.py
- backend/tests/test_scheduler.py
- backend/tests/test_api_scheduler.py
**Docs (text-only — keeps the codebase self-consistent):**
- README.md
- docs/reference/co-medicaid.md
- docs/superpowers/specs/2026-06-20-cyclone-multi-payer-npi-sftp-design.md
**Operator action required after merge:** the existing clearhouse row in
`~/.local/share/cyclone/cyclone.db` was seeded with the old wrong
paths. Easiest recovery:
1. `rm ~/.local/share/cyclone/cyclone.db` and let `ensure_clearhouse_seeded` re-run on next boot, OR
2. PATCH /api/clearhouse with the new `paths` block (the SP25
reconfigure hook picks it up live, including by the running scheduler).
**Verification:**
- 82 tests in the affected files pass (test_clearhouse_api, test_providers_seed,
test_sftp_stub, test_sftp_paramiko, test_store_update_clearhouse,
test_api_clearhouse_patch, test_scheduler, test_api_scheduler, test_filenames).
- Full backend suite: 1029 pass + 36 pre-existing order-dependent flakes
unrelated to this change (verified by running the same tests in isolation).
Bring the SP25 SFTP Polling Enablement (PATCH /api/clearhouse,
scheduler hot-reload, env-var-first secret lookup) and SP26
SFTP Password File Companion (Docker secret _FILE tier) onto
the v1.0.0 release branch so the production stack can actually
flip the Gainwell MFT poll from stub → real.
Conflict resolved in docker-compose.yml: kept both the SP26
CYCLONE_SFTP_PASSWORD_FILE env var and the new 'Always bind
to 0.0.0.0' comment.
The PERMISSIONS matrix only listed the POST /api/acks entry (parse-999
ingest). The GET list + detail endpoints for 999 / TA1 / 277CA acks
were missing, so the matrix_gate (default-deny) returned 403 to every
authenticated role, breaking the 999 ACKs / TA1 / 277CA inbox pages.
Add the three GET entries as ALL_ROLES — they're read-only metadata
surfaces that every authenticated operator needs to see. Add a
regression test that logs in as admin via the public route and
exercises the matrix; the existing test_existing_endpoints_require_auth
suite only checks the unauthenticated 401 path, which is why this slipped
through.
Fixes the live-verification 'Couldn't load ACKs from the backend /
forbidden' error reported against the UI.
Add a second tab to the Upload page that surfaces the persisted batch
archive and lets the user re-download any 837P batch as a ZIP without
re-parsing the original file.
- Backend: /api/batches now carries per-row claimIds (837P only).
835 batches return an empty list, which the UI uses as the signal
to hide the Re-export button on those rows. Avoids an extra
round-trip to /api/batches/{id} per row.
- Frontend: BatchSummary.claimIds added to the list-endpoint type.
- Upload page: page body wrapped in Tabs.Root with a History trigger
that mirrors ?tab= in the URL for deep-link round-trip. The
History tab renders UploadHistory → HistoryTable → HistoryRow with
a one-click Re-export ZIP button per 837P row. The button calls
POST /api/batches/{id}/export-837 with the row's claim ids and
downloads the ZIP via downloadBlob. Falls back to the in-memory
parsedBatches store when the backend returns no rows so the tab
stays useful in sample-data mode.
- Backend tests: claimIds present on 837P rows, empty on 835 rows.
- Frontend tests: 13 tests covering tab switching, URL deep-link,
loading/error/empty states, the 837P-vs-835 button visibility
split, the Re-export happy path, and the failure toast.
Two test-only fixes after running test_compose_up_brings_up_healthy_stack
on a non-CI host for the first time:
1. The test only used -f docker-compose.yml, but the production compose
points secrets at /etc/cyclone/secrets/{db.key,admin_username,
admin_pw} — which requires sudo to create. The test then failed with
'bind source path does not exist: /etc/cyclone/secrets/db.key' even
though the stack itself was correctly configured.
Fix: if docker-compose.override.yml exists at the repo root, the
test uses `-f compose.yml -f override.yml` so secrets come from
/tmp/cyclone-test-secrets/. Production CI skips the override.
2. The stack publishes host port 8080. If another local service (e.g.
nocodb on a dev workstation) is bound to 8080, the test fails with
'Bind for 0.0.0.0:8080 failed: port is already allocated' — which is
a confusing failure mode for what's actually a host-state issue, not
a Cyclone bug.
Fix: probe 127.0.0.1:8080 before bringing up; if it's already bound
by something else, skip the test with a clear 'rerun on a fresh host'
message. CI workers don't have this conflict.
Verified end-to-end:
- With port 8080 free: full stack comes up (healthy), pytest passes.
- With port 8080 bound: pytest skips cleanly with the message above.
After the 8-commit SP23 implementation landed, kicking the tires on
`docker compose build && docker compose up -d` (the gated DOCKER_TESTS=1
live test) surfaced five real bugs that don't show up in unit tests:
1. Backend wheel was built from the stub `__init__.py`, not the real
source. The Dockerfile's 'stub __init__, wheel, copy src, wheel
again' pattern silently kept the first wheel's contents — only
`__init__.py` got re-stubbed. The installed package had an empty
`__init__.py`, so `from cyclone import __version__` failed at import
time and the backend kept crashing in a restart loop.
Fix: single `COPY src/` + single `pip wheel`. Comment explains
why the stub trick is gone for good.
2. Backend binds to 127.0.0.1 (intentional — local-only by design,
see CLAUDE.md). But that means the frontend container can't reach
it over the compose bridge network — nginx got 'Connection refused'.
Fix: `CYCLONE_HOST` env var, defaults to 127.0.0.1 (preserves local
posture for non-Docker runs), set to 0.0.0.0 by the docker-compose
backend service. Network isolation is provided by the compose bridge
network (only `cyclone-frontend` joins).
3. Healthcheck probed `/api/healthz` (404 — the route is `/api/health`).
Same in: backend Dockerfile HEALTHCHECK, docker-compose healthcheck,
nginx.conf doesn't have one (frontend proxies through), RUNBOOK.md,
scripts/post-deploy.sh, scripts/smoke.sh.
Fix: `/api/healthz` → `/api/health` everywhere SP23 owns.
4. The auth matrix in `cyclone.auth.permissions` had
`("GET", "/api/healthz"): set()` — which is the WRONG path (the
route is `/api/health`). So even after fixing the healthcheck URL,
the public auth bypass wouldn't have applied to `/api/health` and
it would have been DENY-by-default (fail-closed).
Fix: matrix entry updated to `/api/health`.
5. nginx upstream pointed at `cyclone-backend` (the project+service
name), but compose v2 only resolves the bare service name (`backend`)
over the bridge network. nginx crashed at config-load with 'host not
found in upstream cyclone-backend'.
Fix: `cyclone-backend:8000` → `backend:8000` in nginx.conf + spec
+ plan.
6. Frontend HEALTHCHECK used `http://localhost:8080/`. nginx in the
alpine image listens on IPv6 (per the entrypoint's IPv6-by-default
script), so `localhost` (which prefers IPv6 `::1` in musl) connects,
but the resolved flow inside wget is unreliable. `127.0.0.1` works.
Fix: HEALTHCHECK uses `http://127.0.0.1:8080/`.
Also moves `frontend/Dockerfile` → `Dockerfile.frontend` and
`frontend/nginx.conf` → `nginx.conf` at repo root (because the
frontend lives at the repo root, not in `frontend/`, and compose's
`build.context: .` needs them at the same root as compose.yml).
The frontend's pre-existing `.dockerignore` was empty/unused, so it's
dropped — the root `.dockerignore` covers it.
Adds `docker-compose.override.yml` for local bring-up testing on a
host without sudo. Production uses `/etc/cyclone/secrets/` directly.
Verified end-to-end on this dev host with `DOCKER_TESTS=1`:
- Both containers `(healthy)` within ~60s
- `curl http://localhost:8080/api/health` → 200 with valid JSON
- Login as admin → 200, /api/auth/me → 200
- `POST /api/parse-837` with docs/goodclaim.x12 → 200, batch created
- Full backend test suite: 1014 passed, 9 skipped (prodfiles gitignored)
Eight tests: compose file exists, docker compose config validates, services declare required volumes/restart/healthcheck/ports/depends_on, secrets and volumes tables include the names the operator expects, backend wires CYCLONE_BACKUP_AUTOSTART=1, both Dockerfiles pass . The live bring-up test (compose up + wait for healthy) is gated on DOCKER_TESTS=1 so it skips on bare CI. PyYAML was already a hard dep.
Add _read_secret() helper that prefers *_FILE env vars (the standard Docker-secret pattern) over bare env vars. Strips trailing whitespace from file contents so printf/echo newlines don't break bcrypt verify. Existing CYCLONE_ADMIN_USERNAME + CYCLONE_ADMIN_PASSWORD still work for non-Docker deployments. Add tests/test_auth_bootstrap_file.py covering: file-path read, file-overrides-bare, bare-fallback, whitespace-stripping, missing-file raises.
- test_migration_latest_idempotent_on_fresh_db now uses the pytest
tmp_path fixture instead of a literal /tmp path that did not exist,
so sqlite can create the test DB.
- test_drop_claims_unique_constraint_migration now inserts the NOT
NULL batches.kind / input_filename / parsed_at columns when seeding
the parent row for the two same-PCN claims.
Adds migration 0015_drop_claims_unique_constraint.sql that recreates the
claims table without the inline UNIQUE(batch_id, patient_control_number)
constraint, plus tests proving the migration runs cleanly and the
constraint is not re-introduced.
Before this change, every claim — matched or not — came back from
`/api/claims` with `receivedAmount: 0.0`. `to_ui_claim_from_orm`
hardcoded the value, so the Dashboard's 'Received' KPI and the
claim detail drawer's paid amount always read $0 regardless of
whether the claim had been paired with a paying remittance.
The fix threads the real value through the read path:
- `to_ui_claim_from_orm` accepts a new `received_total: float`
kwarg (default 0.0 for callers that don't have a remittance in
scope).
- `iter_claims` bulk-loads `Remittance.total_paid` for every
matched claim id in the result set (single SQL roundtrip via
`IN` filter — no N+1) and stamps the sum onto each claim dict.
- `manual_match` passes `float(remit.total_paid)` from the remit
it's already holding.
- `manual_unmatch` reads `paired_remit.total_paid` before clearing
the FK so the response still reports what was paid pre-unpair.
- `add` (write path) and `list_unmatched` (filters matched-remit
is NULL) pass `0.0` explicitly for readability.
The dev seed CLI now also generates matched Remittance rows for
every PAID/PARTIAL claim — `matched_remittance_id` is set on the
claim, and the remittance's `total_paid` is derived from the
billed amount using the same ratios the frontend's old sample
fixtures used (60–100% for PAID, 20–50% for PARTIAL). That gives
the Dashboard a non-zero 'Received' KPI on a fresh dev DB.
New tests:
- tests/test_iter_claims_received.py — 4 cases covering matched,
unmatched, orphan FK, and bulk-load paths. Catches regressions
if anyone re-introduces the hardcoded 0.0 or breaks the bulk
query.
- inbox_lanes, inbox_dismiss_candidates, inbox_export_csv: switch
module-level 'app' to per-request 'request.app' so per-endpoint
state stays consistent with the test's TestClient target across
importlib.reload() (test_api.py::test_cors_extra_origins_via_env
reloads the api module to mutate CORS allow-lists; pre-reload
endpoints then mutate the wrong app instance).
- _http_exc_handler: when HTTPException.detail is a dict, wrap under
'detail' so the standard envelope stays stable and callers can
branch on body['detail']['error'].
- conftest._auto_init_db: re-resolve cyclone.api.app each fixture
invocation (instead of caching at module load) so the reload pattern
doesn't leave event_bus set on a stale app.
- test_acks.test_migration_latest_idempotent_on_fresh_db: bump
user_version assertion from 12 to 14 after auth migration renumber
(0013 users+sessions, 0014 audit_log.user_id).
Also installs sqlcipher3 + paramiko into the backend venv so the
capability tests can run; both modules were optional deps that
test_db_crypto and test_sftp_paramiko assume are present.
Backend test results: 1008 passed, 9 skipped (gitignored prodfile
fixtures), 0 failed.
- New test_existing_endpoints_require_auth.py: spot-check that existing
/api/* endpoints now require auth (gated via Depends(matrix_gate)) when
AUTH_DISABLED is False. Health remains public.
- conftest.py: flip AUTH_DISABLED=True for the suite so the legacy
pre-auth tests keep passing without login. Auth tests flip it back
off via their own autouse fixture (now patched to use monkeypatch
for cleanup).
Verified: 53 auth tests pass; 222 pre-existing non-auth failures are
unchanged.
Backend:
- New POST /api/batches/{id}/export-837: regenerate X12 837 files
for a list of claim_ids into a ZIP using HCPF file naming standards,
with a unique interchange/group control number per export. Wire
the clearhouse Loop 1000A (NM1*41 + PER) and per-payer receiver
(NM1*40) blocks so the serializer no longer falls back to
CYCLONE / RECEIVER placeholders.
- /api/parse-837 and /api/parse-835 now surface the server-side
batch_id in both JSON and NDJSON response shapes so the frontend
can hit batch-scoped endpoints without an extra listBatches
round-trip.
- Filename helpers and the 837 serializer updated to match the new
HCPF envelope; tests cover batch export, parse batch_id, and the
serializer's control-number uniqueness guarantee.
Frontend:
- New shared components: ClaimCard, ClaimCard837, DominantKpiCard,
EditorialNote, ExportBar, TickerTape, and a charts/ set
(BarChart, HBarChart, SegmentedBar, AgingBars).
- New useBatchExport hook driving ExportBar's download flow against
the new endpoint.
- ClaimDrawer, Lane, and Layout migrated from raw CSS-variable
colors to Tailwind theme tokens (bg-card, text-foreground,
border/60, etc.) for consistency with the rest of the instrument
chrome; the active tab indicator gains a subtle accent glow.
- Upload, Inbox, Batches, BatchDiff, Reconciliation, and Acks pages
reworked to compose the new shared components and consume the new
batch-scoped API surface (notably ExportBar wired into Batches).
Tooling / Docs:
- Add audit-uiux.mjs and a docs/goodclaim.x12 sample fixture.
- Update ClaimDrawer testids and add coverage for the new
components and the useBatchExport hook.
Rolls up into the v0.2.0 release tag.
Three independent improvements that fix real browser-facing bugs:
1. CORS: allow 127.0.0.1:5173 in addition to localhost:5173. Both
resolve to the same Vite dev server but CORS treats them as distinct
origins, so tabs opened via the IP form silently break.
2. CORS: support CYCLONE_ALLOWED_ORIGINS env var (comma-separated) for
LAN / staging hosts. The middleware reads it at module import.
3. Catch-all exception handler: returns JSON 500 with CORS headers
instead of a bare Uvicorn text/plain response. Without this, any
unhandled exception is misreported by browsers as a CORS error
because the body can't be read without the allow-origin header.
4. IntegrityError → 409: when (batch_id, patient_control_number) is
UNIQUE-constrained and a duplicate collides, return 409 with the
batch id instead of letting the exception 500. Same problem as (3)
for the most common ingest failure mode.
Tests added:
- test_cors_headers_present_for_loopback_ip
- test_cors_extra_origins_via_env (uses importlib.reload because the
allow-list is built at module import)
Adds pure local validators for the 10-digit NPI Luhn checksum (CMS-
published algorithm with the '80840' NPPES prefix) and 9-digit EIN
format (rejects reserved prefixes 00/07/80-89). No NPPES round-trip,
no IRS e-file lookup — catches the 99% typo case at parse time.
Surface:
- cyclone.npi.is_valid_npi / is_valid_tax_id / normalize_tax_id
- CLI: 'cyclone validate-npi <npi>' and 'cyclone validate-tax-id <ein>'
- API: GET /api/admin/validate-provider?npi=&tax_id=
- Parser validator: new R021_npi_checksum rule (warning, not error,
to keep test fixtures with placeholder NPIs ingestible)
- minimal_837p.txt fixture NPI updated from '1234567890' to the
Luhn-valid '1993999998' so strict-mode CLI parses still pass
Tests:
- test_npi.py — 27 cases (Luhn math, valid/invalid NPIs, EIN cases,
normalize_tax_id edge cases)
- test_api_validate_provider.py — 4 cases (both valid, both invalid,
omitted NPI, omitted tax_id)
- test_cli_validate.py — 8 cases (valid/invalid for both subcommands,
exit codes, malformed inputs)
- test_validator.py — 4 new R021 cases (valid Luhn silent, bad Luhn
warning, skipped when format bad, skipped when NPI missing)
Total: 923 tests pass.
Three pure-ASGI middlewares close completeness-review gaps §3.1.4
(no body/rate limits) and §3.1.25 (no security headers):
- BodySizeLimitMiddleware — rejects oversized uploads (50 MB
default, CYCLONE_MAX_BODY_BYTES override). 413 on over-cap
Content-Length and on chunked reads that cross the cap.
- RateLimitMiddleware — sliding-window per-IP limiter (300/min
default, CYCLONE_RATE_LIMIT_PER_MIN override). 429 over the
window. /api/health is exempt.
- SecurityHeadersMiddleware — stamps X-Content-Type-Options,
X-Frame-Options, Referrer-Policy, Permissions-Policy, and a
strict Content-Security-Policy on every response.
Every 413/429 also writes a tamper-evident api.request_rejected
event into the SP11 audit chain so an operator can correlate
rejections with the SP18 JSON logs.
GET /api/health is rewritten to return a subsystem snapshot:
DB connectivity (SELECT 1), MFT scheduler state, backup scheduler
state, live pubsub subscriber counts, last batch id + timestamp.
Returns status='degraded' if any subsystem is unhappy; per-subsystem
errors surfaced in the respective dict.
Cyclone.pubsub.EventBus.stats() — new method for live subscriber
counts.
13 new tests (test_security.py) + 1 updated (test_api.py health
endpoint). All 883 backend tests pass.
Cyclone previously emitted stdlib default-formatted log lines that
operators couldn't parse with anything beyond grep. SP18 replaces
that with:
- JsonFormatter: newline-delimited JSON, ISO-8601 ms timestamps,
structured "extra" dict, exception tracebacks serialized as a
single string.
- CycloneDevFormatter: tabular format for tail -f in dev.
- PiiScrubber: logging.Filter that redacts NPIs, SSNs, DOBs,
patient names — both inline in the message ("npi 1881068062")
and via PHI-keyed extras ({"dob": "1980-04-12"}).
- setup_logging(): idempotent entry point used by the API lifespan
and CLI main; respects CYCLONE_LOG_LEVEL/FILE/JSON/NO_PII_SCRUB.
- CLI --log-format=json|dev + --log-file=… flags.
- Migrate 9 highest-value log sites in scheduler/backup_scheduler/
backup_service to use extra={...} (input_filename, claims, parser,
backup_id, db_fingerprint, etc.).
34 new tests (test_logging_formatter + test_logging_scrubber +
test_logging_setup). All 867 backend tests pass.
Adds automated encrypted backups of the live SQLite file. Closes the
'no backup automation' gap called out in the completeness review
(docs/reviews/2026-06-20-cyclone-completeness-review.md §3.1 #3) and
gives the SP16 MFT scheduler a recovery path when the MFT pipeline
loses days of inbound 999/277CA work in a single crash.
Architecture
------------
- AES-256-GCM with PBKDF2-HMAC-SHA256 (200,000 iters, 16-byte salt)
- Online backups via SQLite's .backup() API — no app downtime
- Salt + passphrase persisted to macOS Keychain (separate accounts
backup.passphrase + backup.salt) so the key is reproducible across
processes
- Two-step restore (initiate → confirm) with a one-shot 64-char hex
token; the second call disposes + rebuilds the engine only if the
token matches within a 5-minute TTL
- Tamper-evident audit chain (SP11) — db.backup_created,
db.backup_failed, db.backup_pruned, db.backup_restored,
db.backup_passphrase_set
- BackupService + BackupScheduler + module-level singletons
- 8 admin endpoints + 6 CLI subcommands
- Auto-start opt-in via CYCLONE_BACKUP_AUTOSTART=true; default
interval 24h, default retention 30 days
- Fallback posture: if no separate passphrase is set and SQLCipher
is enabled, the key is derived from the SQLCipher DB key with a
fixed salt + WARNING log (degraded but never plaintext)
New modules
-----------
- cyclone.backup — PBKDF2, AES-GCM, sidecar format
- cyclone.backup_service — create_now / list / verify / restore / prune / status
- cyclone.backup_scheduler — async tick loop with audit hooks
New surface
-----------
- 8 admin endpoints under /api/admin/backup/*
- 6 CLI subcommands under cyclone backup (init-passphrase, create,
list, verify, restore, prune, status)
- Migration 0012_backups.sql + DbBackup ORM
- store.add_backup_pending()
Tests
-----
- 14 unit tests in test_backup_crypto.py (key derivation, encrypt/
decrypt round-trip, tampered ciphertext, wrong passphrase, sidecar
round-trip, filename format)
- 19 tests in test_backup_service.py (create/list/verify/restore/
prune/status, error handling, fallback key, module singleton)
- 14 API tests in test_api_backup.py (all 8 endpoints + scheduler
endpoints, two-step restore, error responses)
- 10 tests in test_backup_scheduler.py (tick / start / stop /
audit / coalescing / module singleton)
- 5 CLI tests in test_cli_backup.py (create / list / verify /
restore confirm prompt / prune confirm prompt /
init-passphrase minimum-length check)
Total new tests: 62. All pass. Full backend suite: 833 passed,
9 skipped (gitignored prodfiles), 1 warning.
Design doc: docs/superpowers/specs/2026-06-21-cyclone-encrypted-backup-design.md
README: new 'Encrypted Backups (SP17)' section, SP17 entry in
Roadmap, retention default documented in §Project layout.
Adds an asyncio-based background scheduler that polls the Gainwell
MFT inbound path, downloads new files, and routes them through the
appropriate parser (999 / 835 / 277CA / TA1). Idempotent (re-ticks
and restarts skip already-processed files via the new
processed_inbound_files table). Crash-safe (per-file try/except so
one bad file doesn't stop the loop).
Lifespan auto-configures from the seeded dzinesco clearhouse's SFTP
block; auto-start is opt-in via CYCLONE_SCHEDULER_AUTOSTART.
Five admin endpoints added:
GET /api/admin/scheduler/status
POST /api/admin/scheduler/start
POST /api/admin/scheduler/stop
POST /api/admin/scheduler/tick
GET /api/admin/scheduler/processed-files?status=&limit=
20 new tests (15 unit + 5 API).
Adds in-place key rotation for the encrypted DB at rest (HIPAA
sec.164.308(a)(4) - periodic key rotation).
- db_crypto.rotate_db_key(): opens with old key, issues PRAGMA rekey,
reopens with new key, verifies schema survived (table-count sanity).
- db_crypto.generate_db_key(): fresh 256-bit CSPRNG hex key.
- db_crypto.fingerprint(): SHA-256[:8] of a key, for the operator to
compare across rotations.
- db.dispose_engine() + db.reinit_engine(): SP15 plumbing. The
rotation endpoint disposes the pooled connections (SQLCipher
refuses to rekey while another connection holds the file), runs
the rekey, then rebuilds the engine with the new key from the
Keychain.
- API: POST /api/admin/db/rotate-key with module-level threading.Lock
to serialize rotations. 400 when encryption not enabled, 409 when
a rotation is already in flight, 503 on rekey or Keychain failure
with a reason that tells the operator what to do next.
- Engine uses NullPool when SQLCipher is enabled: the default
QueuePool returns connections to a shared queue that any thread
can pull from, which breaks SQLCipher's thread affinity. NullPool
trades connection reuse for thread safety, the only correct
behavior under FastAPI's per-request threadpool.
- Audit event db.key_rotated with old/new fingerprints and
table_count, written after the engine is rebuilt so the new key
proves it can take new writes.
- previous key is stashed to a second Keychain account so the
operator can roll back if the new key turns out to be broken.
Tests:
- test_db_crypto.py: 12 new tests for generate/fingerprint/rekey
mechanics (5 require SQLCipher at runtime; skipped otherwise).
- test_api_rotate_key.py: 6 new tests for endpoint wiring
(encryption-required, Keychain update, audit event, rekey-failure
rollback, Keychain-write-failure 503, concurrent-rotation 409).
Closes the gap between the SP10 backend (5 lanes) and the SP6
frontend (4 lanes). The Payer-Rejected lane (277CA STC A4/A6/A7)
is now rendered alongside Rejected/Candidates/Unmatched/Done,
with an Acknowledge bulk action that drops claims from the
working surface without erasing the original 277CA rejection
event (audit log stays intact, SP11).
Backend:
* Migration 0010: add payer_rejected_acknowledged_at +
payer_rejected_acknowledged_actor columns + partial index.
* db.py: surface the two new columns on the Claim model.
* inbox_lanes.py: filter acknowledged claims out of the
payer_rejected lane; expose the new fields on the row payload
for forward-compat (e.g. a future 'Recently acknowledged' view).
* api.py:
- POST /api/inbox/payer-rejected/acknowledge
Bulk-acknowledge. Idempotent. Returns transitioned /
already_acked / not_found / not_rejected counts so the UI
can show '3 of 5 were already acknowledged' on a noop bulk.
Writes a 'claim.payer_rejected_acknowledged' event to the
SP11 hash-chained audit log.
- GET /api/inbox/export.csv: accept 'payer_rejected' lane.
* test_acks.py: bump user_version assertion to 10.
* test_lane_filter_acknowledged.py: 4 tests for the lane filter
and forward-compat row payload.
* test_payer_rejected_acknowledge.py: 6 tests for the endpoint
(happy path, idempotency, no-op on non-rejected, missing
ids, 400 on empty, audit-log wiring + chain integrity).
Frontend:
* lib/inbox-api.ts: add payer_rejected to InboxLanes, add
acknowledgePayerRejected(), update exportInboxCsvUrl union.
* hooks/useInboxLanes.ts: add payer_rejected to initial state.
* hooks/useInboxLanes.test.ts: add payer_rejected to mocks.
* components/inbox/BulkBar.tsx: add 'payer_rejected' lane with
Acknowledge action (no Resubmit, no Dismiss — payer-rejected
is not eligible for either).
* components/inbox/BulkBar.test.tsx: add payer_rejected test.
* pages/Inbox.tsx: render the 5th lane, hook up onAcknowledge,
include payer_rejected in the needEyes count.
* pages/Inbox.test.tsx: 3 new tests (5-lane render, need-eyes
count, acknowledge action hits the right endpoint).
* components/inbox/InboxHeader.tsx: doc comment now explains
why payer_rejected rolls up into need-eyes.
Pre-existing typecheck warnings in BulkBar.test.tsx / InboxRow
.test.tsx / Lane.tsx / download.test.ts are unchanged from
main — not touched here.
Test counts: backend 724 -> 734 (+10). Frontend 350 -> 354 (+4).
Nora
tyler
tyler
Cyclone
Tyler
sp15-bot