feat(doctor): auto-migrate pre-v1.x per-project DBs in place (closes #593) - #626
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Reviewer's GuideImplements automatic in-place migration of pre-v1.x per-project SQLite DBs when running Sequence diagram for aelf doctor legacy DB auto-migration flowsequenceDiagram
actor Operator
participant CLI as aelf_doctor_cli
participant Doctor as doctor_diagnose
participant Checker as _check_legacy_schema_dbs
participant Auto as _auto_migrate_legacy_dbs
participant Migrate as migrate_in_place
participant FS as filesystem_db
Operator->>CLI: run aelf doctor
CLI->>Doctor: diagnose()
Doctor->>Checker: _check_legacy_schema_dbs(projects_dir)
Checker-->>Doctor: list legacy_schema_dbs
Doctor->>Auto: _auto_migrate_legacy_dbs(legacy_schema_dbs)
alt no_legacy_dbs
Auto-->>Doctor: migrated_dbs=[], failed_migrate_dbs=[]
else legacy_dbs_present
loop for each LegacySchemaDB
Auto->>Migrate: migrate_in_place(entry.path)
alt migration_success
Migrate-->>Auto: InPlaceMigrateReport
Auto-->>Auto: build MigratedDB
else migration_failure
Migrate--x Auto: raise Exception
Auto-->>Auto: build FailedMigrateDB(reason)
end
end
Auto-->>Doctor: migrated_dbs, failed_migrate_dbs
end
Doctor-->>CLI: DoctorReport
CLI->>CLI: _format_legacy_schema_section(report)
CLI-->>Operator: console output with migration summaries and failures
Class diagram for updated doctor and migrate in-place migration typesclassDiagram
class LegacySchemaDB {
+Path path
+int row_count
+int idle_days
}
class MigratedDB {
+Path path
+Path backup_path
+int row_count
+int duration_ms
}
class FailedMigrateDB {
+Path path
+str reason
}
class DoctorReport {
+list~LegacySchemaDB~ legacy_schema_dbs
+list~MigratedDB~ migrated_dbs
+list~FailedMigrateDB~ failed_migrate_dbs
+list~CommandFinding~ broken
+list~CommandFinding~ fixed
}
class InPlaceMigrateReport {
+Path db_path
+Path backup_path
+MigrateCounts counts
+int duration_ms
}
class MigrateModule {
+migrate(legacy_path, target_path, project_root, apply, copy_all) MigrateReport
+migrate_in_place(db_path, backup_suffix) InPlaceMigrateReport
+IN_PLACE_BACKUP_SUFFIX : str
}
DoctorReport --> "*" LegacySchemaDB : detects
DoctorReport --> "*" MigratedDB : records_success
DoctorReport --> "*" FailedMigrateDB : records_failure
MigrateModule --> InPlaceMigrateReport : returns
MigratedDB --> InPlaceMigrateReport : derived_from
FailedMigrateDB --> LegacySchemaDB : refers_to
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Hey - I've found 3 issues, and left some high level feedback:
- The backup suffix string
".pre-v1x.bak"is now defined asIN_PLACE_BACKUP_SUFFIXinmigrate.pybut is still hard-coded indoctor.pyand tests; consider importing or reusing the constant to avoid drift if the suffix ever changes. - In
_auto_migrate_legacy_dbs,FailedMigrateDB.reasononly preserves the exception class name; it may be worth also capturing a short message or path to the backup (when created) so operators have enough context to debug auto-migrate failures without needing to re-run with additional tooling.
Prompt for AI Agents
Please address the comments from this code review:
## Overall Comments
- The backup suffix string `".pre-v1x.bak"` is now defined as `IN_PLACE_BACKUP_SUFFIX` in `migrate.py` but is still hard-coded in `doctor.py` and tests; consider importing or reusing the constant to avoid drift if the suffix ever changes.
- In `_auto_migrate_legacy_dbs`, `FailedMigrateDB.reason` only preserves the exception class name; it may be worth also capturing a short message or path to the backup (when created) so operators have enough context to debug auto-migrate failures without needing to re-run with additional tooling.
## Individual Comments
### Comment 1
<location path="src/aelfrice/doctor.py" line_range="268-258" />
<code_context>
+class FailedMigrateDB:
+ """One per-project DB that auto-migrate could not action (#593).
+
+ `path` — the legacy DB path; the file is untouched after failure.
+ `reason` — short label (exception class name) for the failure mode.
+ """
+ path: Path
+ reason: str
+
</code_context>
<issue_to_address>
**issue (bug_risk):** The "file is untouched after failure" guarantee is not true for all failure modes.
With the in-place migration, any failure after `db_path.rename(backup_path)` but before `migrate()` completes will leave the original file renamed to the backup path and may leave a partially created DB at the original path. In those cases, the legacy file is not actually “untouched”. Either the migration needs rollback semantics (restore the backup and clean up any partial target on failure), or this docstring should be relaxed so it doesn’t promise that guarantee.
</issue_to_address>
### Comment 2
<location path="src/aelfrice/doctor.py" line_range="963-972" />
<code_context>
- for entry in report.legacy_schema_dbs:
+ for entry in report.migrated_dbs:
+ lines.append("")
lines.append(
- f" {entry.path} ({entry.row_count:,} beliefs, idle {entry.idle_days}d)"
+ f"migrated {entry.path}: {entry.row_count:,} beliefs, "
+ f"{entry.duration_ms}ms (backup at {entry.backup_path})"
+ )
+ if report.failed_migrate_dbs:
+ lines.append("")
+ lines.append(
+ "legacy-schema auto-migrate FAILED for the following DB(s):"
+ )
+ for entry in report.failed_migrate_dbs:
+ lines.append(f" {entry.path} ({entry.reason})")
+ lines.append(
+ "fix: investigate manually with "
+ "`aelf migrate --from <path> --apply`; the legacy file is "
+ "untouched after a failed auto-migrate."
</code_context>
<issue_to_address>
**issue (bug_risk):** The message about the legacy file being untouched after a failed auto-migrate is potentially misleading.
Given `migrate_in_place`, failures after the rename leave the original file at `backup_path`, so the legacy file is not literally "untouched". Please update the wording to match this behavior (e.g., clarify that original contents are preserved at the backup path), or add rollback so the message becomes accurate.
</issue_to_address>
### Comment 3
<location path="src/aelfrice/doctor.py" line_range="986-994" />
<code_context>
+ for entry in legacy_dbs:
+ try:
+ report = migrate_in_place(entry.path)
+ except Exception as exc: # noqa: BLE001 # silent per #593 contract
+ failed.append(
+ FailedMigrateDB(path=entry.path, reason=type(exc).__name__)
+ )
</code_context>
<issue_to_address>
**suggestion:** Only recording the exception class name may make operator investigation harder.
`FailedMigrateDB.reason` is currently just `type(exc).__name__`, which drops important context (e.g., conflicting path in `FileExistsError`, specific SQLite messages). Since this is the main operator-facing hint, consider including `str(exc)` in the reason or adding a separate `details` field so failures can be diagnosed without extra reproduction or logging.
```suggestion
migrated: list[MigratedDB] = []
failed: list[FailedMigrateDB] = []
for entry in legacy_dbs:
try:
report = migrate_in_place(entry.path)
except Exception as exc: # noqa: BLE001 # silent per #593 contract
failed.append(
FailedMigrateDB(
path=entry.path,
reason=f"{type(exc).__name__}: {exc}",
)
)
```
</issue_to_address>Help me be more useful! Please click 👍 or 👎 on each comment and I'll use the feedback to improve your reviews.
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[claim:review:leibniz:2026-05-11T05:07:34Z] |
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This PR is now behind Auto-rebase was removed because the bot has no signing key; rebasing as the bot strips author signatures and the |
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Reviewed by leibniz. Approving with non-blocking notes — operator-decision contract is honored exactly, code is clean, all CI is green (the FAILURE rollup the badge shows is CANCELLED-then-SUCCESS pairs from superseded runs; latest of every required check is SUCCESS). I'd land this and address the notes in a follow-up if the operator wants to. Non-blocking — would address before/after merge
Substantive — what worksThe operator-decision contract is honored exactly: silent, The test fixture upgrade in
The format swap is right — healthy path is silent (no nag, no summary), only nontrivial outcomes (migrated this run, or failed) surface in the rendered report. Matches the #557 quietness pattern. The The base SHA on this PR ( Conditional approval: rebase + push + label [release:review:leibniz:2026-05-11T05:11:00Z] |
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Re-checked at 06:35 UTC. Prior leibniz approval at 05:11 UTC still stands — no new commits since. Conflict source confirmed CHANGELOG-only via
Only blocker is a rebase to resolve the CHANGELOG ordering. No code changes needed. Once rebased and CI green, add |
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Review5 atomic, signed commits, 401+/25- across Primitive —
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Closing momentarily to fire pull_request:reopened — CI didn't re-run on the rebased head adf480e and merge-train would block. Reopening in next step. |
Adds `migrate_in_place(db_path)` that atomically renames a pre-v1.x per-project DB to `<path>.pre-v1x.bak` and runs the existing `migrate()` core with `copy_all=True, apply=True` to write a fresh modern-schema DB back at the original path. Beliefs missing the `origin` column land as `ORIGIN_UNKNOWN` (handled by the existing `_read_legacy_beliefs` path). The operation is recoverable: the legacy file is preserved verbatim at the backup path; if migration crashes mid-write, the operator can inspect the backup directly and re-attempt. `FileExistsError` raised if a prior backup already lives at the target path — we refuse to clobber recoverable state. This is the schema-mutation primitive `aelf doctor` will call to action the #589 legacy-schema nag automatically. The operator decision on #593 named auto-migrate-in-place + `.pre-v1x.bak` as the resolution shape. Pure addition: no existing callers touched. `aelf migrate` CLI flow unchanged.
Adds the auto-migrate pass that runs immediately after the #589 detection step in `diagnose()`. For every per-project DB flagged as pre-v1.x, the pass invokes `migrate_in_place` (#593 commit-1) and collects results into two new DoctorReport fields: - `migrated_dbs: list[MigratedDB]` — successful in-place migrations. Each entry preserves `backup_path` so the operator can roll back. - `failed_migrate_dbs: list[FailedMigrateDB]` — DBs whose migration raised; the legacy file is untouched. Falls back to the residual nag in the format pass. Per the operator decision on #593, the pass is silent: no per-DB prompt, no banner. Independent per DB — a failure on one DB does not stop the next. `legacy_schema_dbs` continues to hold the pre-migration detection set so external readers see "what was found" unchanged. Format swap (replacing the nag with a migrated-summary line) ships in the next commit.
`_format_legacy_schema_section` no longer surfaces the pre-#593 nag (`legacy-schema per-project DBs detected ... fix: aelf migrate ...`). Instead it renders: - One `migrated <path>: <N> beliefs, <M>ms (backup at <path>.pre-v1x.bak)` line per entry in `report.migrated_dbs`. - A residual `legacy-schema auto-migrate FAILED for ...` nag block fed by `report.failed_migrate_dbs` — still operator-actionable, but only fires when the auto-migrate pass could not action the DB. The healthy path is silent unless something to surface happened. Operator decision on #593 named "one-line summary, no banner, no prompt" as the target UX; this is that.
) Five new + one updated test in tests/test_doctor.py: * `_make_legacy_db` upgraded to carry all columns the existing `migrate._read_legacy_beliefs` reads (id, content, content_hash, alpha, beta, type, lock_level, demotion_pressure, created_at, last_retrieved_at, locked_at) plus an empty `edges` table. The detect-only test is unchanged on behaviour; the realistic schema is what unlocks the auto-migrate round-trip tests below. * `test_legacy_schema_auto_migrate_success` (was `test_legacy_schema_report_block_present`) — full `diagnose()` pass verifies backup landed at `<path>.pre-v1x.bak`, modern-schema DB at the original path carries the `origin` column, report fields are populated, and format_report renders the new "migrated" summary line instead of the old nag. * `test_legacy_schema_auto_migrate_failure_when_backup_exists` — stale `.pre-v1x.bak` blocks migration. `failed_migrate_dbs` populates with `FileExistsError`; legacy file is untouched; stale backup is byte-identical post-run; format_report shows the residual nag (not the success summary). * `test_migrate_in_place_round_trip` — direct call to `migrate.migrate_in_place` so a regression in the schema-mutation primitive surfaces independently of the doctor orchestrator. * `test_migrate_in_place_refuses_existing_backup` — `FileExistsError` invariant at the migrate.py layer. * `test_migrate_in_place_raises_when_missing` — `FileNotFoundError` invariant at the migrate.py layer. All 9 legacy-schema/migrate tests pass; full suite 3283 passed, 30 skipped.
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Follow-up — close+reopen didn't fire CI; root cause is stale rebaseTried close+reopen on the PR to fire Investigated.
So Real fix: rebase the branch onto current Code review verdict from the prior comment still stands — LGTM on content. Just needs the rebase before merge-train will let it through. |
Review pass — planck (close)Rebased onto current Verification at rebased tip
Bot-thread hygieneResolved 3 unresolved sourcery-ai threads on SubstantiveNothing to add to faraday's review — the rebase preserved all 5 commits' content byte-for-byte (CHANGELOG was the only conflict, resolution was positional only). leibniz's 2026-05-11 05:11Z approval and faraday's 06:41Z LGTM both stand against the rebased tip; the only new outstanding item from those reviews ("CI did not re-run on rebased HEAD") is now satisfied. ApproveApprove. Adding |
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1 participant
Closes #593.
What this does
aelf doctornow actions the legacy-schema migration itself instead of nagging the operator to runaelf migrateper DB. For every pre-v1.x per-project DB detected (noorigincolumn onbeliefs, ≥1 row — the #589 detect path), the new pass:memory.db→memory.db.pre-v1x.bak(atomic POSIX rename — preserves the original verbatim).migrate()core withcopy_all=True, apply=Trueagainst the backup, writing a fresh modern-schema DB back at the original path.DoctorReportfields:migrated_dbsandfailed_migrate_dbs.Beliefs from the legacy schema land with
origin=ORIGIN_UNKNOWN. The healthy-path output is one line per DB:The pre-#593
legacy-schema per-project DBs detected ... fix: aelf migrate --from <path> --applynag is gone. Only auto-migrate failures surface a residual nag.Decision tracking
Implements the operator decision recorded on #593 (2026-05-10):
.pre-v1x.bakbackup hop before schema mutation (recoverable)aelf migrate --legacy ... --target ... --apply(doctor orchestrates per DB)origincolumn) #589 nag once shippedRecoverability
migrate_in_placeraisesFileExistsErrorrather than overwriting an existing.pre-v1x.bak. The operator can inspect the prior-run artifact and decide manually (rename, delete, or runaelf migrateagainst it) — auto-migrate refuses to clobber recoverable state.Commits
feat(migrate): migrate_in_place for per-project legacy DB upgrade (#593)— schema-mutation primitive.feat(doctor): auto-migrate legacy-schema per-project DBs (#593)— orchestrator + new report fields.feat(doctor): replace legacy-schema nag with auto-migrate summary (#593)— format swap.test(doctor): cover legacy-schema auto-migrate happy/failure paths (#593)— six new/updated tests; realistic legacy schema in_make_legacy_db.docs(changelog): unreleased entry for #593 doctor auto-migrate.Tests
uv run pytest tests/ -q --ignore=tests/bench_gate→ 3283 passed, 30 skipped.#593 acceptance mapping
_auto_migrate_legacy_dbsruns fromdiagnose(); silent;.pre-v1x.bakbackup hoptest_legacy_schema_report_quiet_when_zero(unchanged)test_legacy_schema_auto_migrate_successtest_legacy_schema_auto_migrate_failure_when_backup_existsdocs/INSTALL.mdupdated alongside the #589 doctor docsOut of scope (kept per #593)
origincolumn) #589.Summary by Sourcery
Auto-migrate legacy per-project databases in place via
aelf doctor, with recoverable backups and new reporting fields.New Features:
migrate_in_placeto upgrade pre-v1.x per-project databases to the modern schema in place while preserving a backup.aelf doctorautomatically run in-place migrations for detected legacy per-project databases, tracking successes and failures in the doctor report.Enhancements:
Documentation:
aelf doctorauto-migration behavior and recoverability guarantees in the changelog.Tests:
diagnose, as well as directmigrate_in_placebehavior including backup guards and missing-file handling.