Refactor AGENTS.md from encyclopedia to map; move spec into docs/
Splits the 990-line AGENTS.md into a 184-line map (architecture,
where-to-find index, always-on invariants, capability matrix,
maintenance contract) plus 18 new docs/*.md files holding the deep
content per topic (storage, schema and query languages, indexes,
embeddings, branches/commits, runs, merge, changes, execution, policy,
server, CLI reference, audit, errors, CI, constants, v0.3.1 notes).
Adds scripts/check-agents-md.sh and a check_agents_md CI job that
verifies every docs/ link in AGENTS.md resolves and every doc in the
canonical set is linked. CLAUDE.md remains a symlink to AGENTS.md.
Co-Authored-By: Claude Opus 4.7 <noreply@anthropic.com>
2026-04-28 23:31:08 +02:00
# CLI Reference (`omnigraph`)
A reference for the `omnigraph` binary's command surface and `omnigraph.yaml` schema. For a quick-start guide, see [cli.md ](cli.md ).
2026-04-29 00:09:06 +02:00
17 top-level command families, 40+ subcommands. All commands accept either a positional `URI` , `--uri` , or a `--target <name>` resolved against `omnigraph.yaml` .
Refactor AGENTS.md from encyclopedia to map; move spec into docs/
Splits the 990-line AGENTS.md into a 184-line map (architecture,
where-to-find index, always-on invariants, capability matrix,
maintenance contract) plus 18 new docs/*.md files holding the deep
content per topic (storage, schema and query languages, indexes,
embeddings, branches/commits, runs, merge, changes, execution, policy,
server, CLI reference, audit, errors, CI, constants, v0.3.1 notes).
Adds scripts/check-agents-md.sh and a check_agents_md CI job that
verifies every docs/ link in AGENTS.md resolves and every doc in the
canonical set is linked. CLAUDE.md remains a symlink to AGENTS.md.
Co-Authored-By: Claude Opus 4.7 <noreply@anthropic.com>
2026-04-28 23:31:08 +02:00
## Top-level commands
| Command | Purpose |
|---|---|
2026-05-24 16:46:00 +01:00
| `init` | `--schema <pg>` → initialize a graph (also scaffolds `omnigraph.yaml` if missing) |
Refactor AGENTS.md from encyclopedia to map; move spec into docs/
Splits the 990-line AGENTS.md into a 184-line map (architecture,
where-to-find index, always-on invariants, capability matrix,
maintenance contract) plus 18 new docs/*.md files holding the deep
content per topic (storage, schema and query languages, indexes,
embeddings, branches/commits, runs, merge, changes, execution, policy,
server, CLI reference, audit, errors, CI, constants, v0.3.1 notes).
Adds scripts/check-agents-md.sh and a check_agents_md CI job that
verifies every docs/ link in AGENTS.md resolves and every doc in the
canonical set is linked. CLAUDE.md remains a symlink to AGENTS.md.
Co-Authored-By: Claude Opus 4.7 <noreply@anthropic.com>
2026-04-28 23:31:08 +02:00
| `load` | bulk load a branch (`--mode overwrite\|append\|merge` ) |
| `ingest` | branch-creating transactional load (`--from <base>` ) |
feat: inline query strings in CLI and HTTP server (#110)
* feat(MR-656): inline query strings in CLI and HTTP server
CLI:
- Add -e / --query-string <STRING> to omnigraph read and omnigraph change
- Exactly one of --query, --query-string, --alias is required (3-way XOR)
- Empty --query-string is rejected with a clear error
HTTP:
- New POST /query (read-only, clean field names: query/name/params/branch/snapshot)
- Mutations on /query are rejected with 400 -- use POST /change instead
- ChangeRequest fields polished: query (alias query_source), name (alias query_name)
- POST /read and POST /change remain byte-compatible for existing clients
Tests:
- cli.rs: -e happy-path on read/change, mutex error vs --query, empty -e rejected
- system_local.rs: inline -e read and -e change exercise the local flow
- system_remote.rs: inline -e read/change over HTTP plus direct /query 200/400
- server.rs: /query 200, /query 400 on mutation, /change legacy field alias
- openapi.rs: new /query path, QueryRequest schema, ChangeRequest field-name polish
Docs: cli.md (-e examples), cli-reference.md (read/change rows), server.md (/query)
Co-Authored-By: Ragnor Comerford <ragnor.comerford@gmail.com>
* feat(MR-656): rename read/change to query/mutate with deprecation signals
HTTP server:
- Add POST /mutate as canonical write endpoint (pairs with POST /query).
- Mark POST /read and POST /change as deprecated. Three-channel signal:
* OpenAPI: `deprecated: true` on the operation (every codegen flags
the generated SDK method).
* RFC 9745: response `Deprecation: true` header on every response.
* RFC 8288: response `Link: </successor>; rel="successor-version"`
pointing at /query and /mutate respectively.
- Share business logic across /mutate and /change via run_mutate(); the
/change wrapper is the only place that adds the deprecation headers.
- ChangeRequest field aliases (query_source/query_name) preserved.
- AliasCommand serde now accepts `query`/`mutate` alongside `read`/`change`.
CLI:
- Promote `omnigraph query` / `omnigraph mutate` to top-level canonical
subcommands (clap visible_alias keeps `omnigraph read` / `omnigraph
change` working forever).
- Promote `omnigraph lint` / `omnigraph check` to top-level (was nested
under `omnigraph query lint`, which is now a deprecated argv shim that
rewrites to the canonical form).
- Argv-level preprocessing prints a one-line deprecation warning to
stderr when any legacy spelling is used. Canonical names are silent.
Tests:
- Server: /mutate works, /change emits Deprecation+Link headers, /read
emits Deprecation+Link headers, /query carries no deprecation signal.
- OpenAPI: /read and /change flagged deprecated; /query and /mutate not.
- CLI: canonical `lint` matches deprecated `query lint` / `query check`
output; `read` / `change` print deprecation warnings.
Docs:
- cli.md: new canonical examples; "Deprecated names" migration table.
- cli-reference.md: top-level table updated; aliases.<name>.command
accepts both legacy and canonical spellings.
- server.md: endpoint inventory shows /query and /mutate as canonical
and /read and /change as deprecated; dedicated section explains the
three-channel deprecation signal.
- og-cheet-sheet.md: use new `omnigraph lint` / `omnigraph check`.
- openapi.json regenerated.
Migration is purely cosmetic — every deprecated form continues to work
indefinitely; only the spelling changes.
Co-Authored-By: Ragnor Comerford <ragnor.comerford@gmail.com>
* fix(MR-656): address Devin Review findings on /query and /change
Two issues raised by Devin Review on PR #110:
1. `POST /query` mutation-rejection error pointed at the deprecated
`/change` endpoint instead of the canonical `/mutate`. Fixed in
three places: the runtime error message in `server_query`, the
utoipa 400-response description, and the handler doc comment. The
`QueryRequest` schema docstrings in `api.rs` got the same update so
the openapi.json bodies match. Server and openapi tests updated.
2. `execute_change_remote` serialized `ChangeRequest` directly, which
emits the new canonical field names `query` / `name` on the wire.
`#[serde(alias = "query_source")]` only affects deserialization, so
a newer CLI talking to an older server would have its `/change`
POST body fail with "missing field: query_source". Fixed by
extracting a `legacy_change_request_body` helper that hand-rolls
the JSON with the legacy keys (`query_source` / `query_name`), the
same byte-stable contract `execute_read_remote` already uses
against `/read`. Added two unit tests on the helper to lock the
wire shape in.
Co-Authored-By: Ragnor Comerford <ragnor.comerford@gmail.com>
* docs(dev): RFC 001 — inline + stored queries, envelope, MCP
Tracked artifact consolidating the design across MR-656 (this branch),
MR-976 (Phase 1 envelope hardening parent, with MR-977/978/979/980
sub-issues), and MR-969 (stored queries + MCP).
Sections:
* Two paths, one engine — inline `/query` + `/mutate` (this PR) coexist
with stored `/queries/{name}` (MR-969). Same `run_query` / `run_mutate`
backend (the fold-in landed in the previous commit).
* Request envelope ("before") — Idempotency-Key, If-Match, X-Deadline,
X-Trace-Id, expect, dry_run, fields. Phase 1 ships the load-bearing
subset on `/mutate`.
* Response envelope ("after") — audit_id, snapshot_id, commit_id, stats,
warnings. Closes the provenance loop today's `ChangeOutput` leaves
open.
* `.gq` pragmas — `@description`, `@returns`, `@mcp`. Source-of-truth
for the stored-query agent contract; no separate YAML registry.
* Multi-graph MCP — per-graph `/graphs/{id}/mcp/tools` + `/mcp/invoke`.
Token binds to one graph by default; cross-graph agents loop.
* Cedar split — `read`/`change` for inline, `invoke_query` for stored.
Operators deny ad-hoc for agent groups while keeping curated tool
list open.
* Rejected alternatives — per-env override files, compiled bundles,
tool-name prefixing across graphs, body-field graph dispatch.
Index entry added under "Active Implementation Plans" so future agents
land on the RFC before touching queries / mutations / envelope code.
`scripts/check-agents-md.sh` clean (35 links, 34 docs).
* docs(server): clarify why run_query lacks AppState parameter
run_mutate takes state for workload admission; run_query doesn't because
reads aren't admission-gated today. Mark the asymmetry as intentional and
flag the two future events that would grow the signature: Phase 1's
`expect: { max_rows_scanned: N }` budget (MR-976) or per-actor admission
extending to stored-read invocations (MR-969). Prevents the natural
"make these symmetrical" follow-up.
* refactor(server): run_query / run_mutate take &ResolvedActor
Replace `Option<Extension<ResolvedActor>>` in the helpers with
`Option<&ResolvedActor>`. Saves MR-969's stored-query handler from
wrapping a bare actor in axum's `Extension(...)` before calling.
Handler signatures (`server_query`, `server_read`, `server_mutate`,
`server_change`) keep `Option<Extension<ResolvedActor>>` because that
is what axum injects, and unwrap at the call site with
`actor.as_ref().map(|Extension(actor)| actor)`.
Net: -13/+10 LOC, 89/0 server tests pass.
* docs(releases): v0.6.0 — describe inline + canonical-named queries (MR-656)
Extend the v0.6.0 release notes to cover the third piece of work landing
alongside the graph terminology rename and multi-graph server mode:
canonical-named `POST /query` and `POST /mutate` endpoints, the CLI's
new `-e/--query-string` flag, the top-level promotion of `lint` /
`check`, and the three-channel deprecation signal on `/read` and
`/change` (OpenAPI `deprecated: true` + RFC 9745 + RFC 8288).
Additions:
* Top blurb: "Two pieces" -> "Three pieces" with a bullet describing
the rename + inline flow.
* Breaking Changes: new "Query / mutation rename" subsection covering
the `ChangeRequest` field rename (with the back-compat serde aliases
and the CLI's `legacy_change_request_body` byte-stable wire helper)
and the `omnigraph query lint` -> `omnigraph lint` move.
* New: 5 bullets — the two endpoints, the CLI subcommands, the `-e`
flag, the deprecation signal channels, the widened `aliases.<name>.command`
vocabulary.
* User Impact: one bullet making explicit that the rename is cosmetic
on the client side and migration is voluntary.
* Documentation: pointers to the updated `server.md` / `cli.md` /
`cli-reference.md` and the new `docs/dev/rfc-001-queries-envelope-mcp.md`.
+15/-1 lines. `./scripts/check-agents-md.sh` clean.
* refactor(cli): demote `check` from visible_alias to deprecation shim
`omnigraph check` was a clap `visible_alias` on `lint`, advertised in
`--help` as an equivalent canonical name. Per MR-981 §6 (long-form
flags as canonical, short forms as visible aliases), visible aliases
on subcommand names hurt agent CX: agents emit either spelling
depending on training-data drift, and there's no length signal
pointing at the canonical name.
Changes:
* Remove `#[command(visible_alias = "check")]` from the `Lint` variant.
`omnigraph --help` now shows only `lint`.
* Add bare `check` to `rewrite_deprecated_argv` so `omnigraph check
<args>` still works — it rewrites to `omnigraph lint <args>` and
emits a one-line stderr deprecation warning, matching the existing
pattern for `read` / `change` / `query lint` / `query check`.
* Fix the nested `query check` shim to substitute `check` -> `lint` in
the rewritten argv (previously it relied on `check` being a
visible_alias to reach the `Lint` variant).
* New test `deprecated_check_top_level_rewrites_to_lint` covers: bare
`check` produces identical stdout to `lint`, emits the deprecation
warning, and `check` does NOT appear as an alias in `omnigraph
--help`.
* Release notes updated to reflect the deprecation-shim treatment and
cross-reference MR-981 §6 reasoning.
Cargo / Go users typing `check` still work indefinitely; one stderr
nudge per invocation teaches the canonical name. Agents see only
`lint` in `--help --json` so they emit one canonical form.
67/0 omnigraph-cli tests pass; 39 workspace test suites green.
---------
Co-authored-by: Devin AI <158243242+devin-ai-integration[bot]@users.noreply.github.com>
Co-authored-by: Ragnor Comerford <ragnor.comerford@gmail.com>
Co-authored-by: Ragnor Comerford <hello@ragnor.co>
2026-05-29 13:41:54 +02:00
| `query` (alias: `read` ) | run named read query; source via `--query <path>` , `-e` /`--query-string <GQ>` , or `--alias <name>` (exactly one). `read` is the deprecated previous name and prints a one-line warning to stderr |
| `mutate` (alias: `change` ) | run mutation query; same `--query` / `-e` / `--alias` mutual-exclusion as `query` . `change` is the deprecated previous name and prints a one-line warning to stderr |
Refactor AGENTS.md from encyclopedia to map; move spec into docs/
Splits the 990-line AGENTS.md into a 184-line map (architecture,
where-to-find index, always-on invariants, capability matrix,
maintenance contract) plus 18 new docs/*.md files holding the deep
content per topic (storage, schema and query languages, indexes,
embeddings, branches/commits, runs, merge, changes, execution, policy,
server, CLI reference, audit, errors, CI, constants, v0.3.1 notes).
Adds scripts/check-agents-md.sh and a check_agents_md CI job that
verifies every docs/ link in AGENTS.md resolves and every doc in the
canonical set is linked. CLAUDE.md remains a symlink to AGENTS.md.
Co-Authored-By: Claude Opus 4.7 <noreply@anthropic.com>
2026-04-28 23:31:08 +02:00
| `snapshot` | print current snapshot (per-table version + row count) |
| `export` | dump to JSONL on stdout (`--type T` , `--table K` filters) |
| `branch create \| list \| delete \| merge` | branching ops |
| `commit list \| show` | inspect commit graph |
| `run list \| show \| publish \| abort` | transactional run ops |
| `schema plan \| apply \| show (alias: get)` | migrations |
feat: inline query strings in CLI and HTTP server (#110)
* feat(MR-656): inline query strings in CLI and HTTP server
CLI:
- Add -e / --query-string <STRING> to omnigraph read and omnigraph change
- Exactly one of --query, --query-string, --alias is required (3-way XOR)
- Empty --query-string is rejected with a clear error
HTTP:
- New POST /query (read-only, clean field names: query/name/params/branch/snapshot)
- Mutations on /query are rejected with 400 -- use POST /change instead
- ChangeRequest fields polished: query (alias query_source), name (alias query_name)
- POST /read and POST /change remain byte-compatible for existing clients
Tests:
- cli.rs: -e happy-path on read/change, mutex error vs --query, empty -e rejected
- system_local.rs: inline -e read and -e change exercise the local flow
- system_remote.rs: inline -e read/change over HTTP plus direct /query 200/400
- server.rs: /query 200, /query 400 on mutation, /change legacy field alias
- openapi.rs: new /query path, QueryRequest schema, ChangeRequest field-name polish
Docs: cli.md (-e examples), cli-reference.md (read/change rows), server.md (/query)
Co-Authored-By: Ragnor Comerford <ragnor.comerford@gmail.com>
* feat(MR-656): rename read/change to query/mutate with deprecation signals
HTTP server:
- Add POST /mutate as canonical write endpoint (pairs with POST /query).
- Mark POST /read and POST /change as deprecated. Three-channel signal:
* OpenAPI: `deprecated: true` on the operation (every codegen flags
the generated SDK method).
* RFC 9745: response `Deprecation: true` header on every response.
* RFC 8288: response `Link: </successor>; rel="successor-version"`
pointing at /query and /mutate respectively.
- Share business logic across /mutate and /change via run_mutate(); the
/change wrapper is the only place that adds the deprecation headers.
- ChangeRequest field aliases (query_source/query_name) preserved.
- AliasCommand serde now accepts `query`/`mutate` alongside `read`/`change`.
CLI:
- Promote `omnigraph query` / `omnigraph mutate` to top-level canonical
subcommands (clap visible_alias keeps `omnigraph read` / `omnigraph
change` working forever).
- Promote `omnigraph lint` / `omnigraph check` to top-level (was nested
under `omnigraph query lint`, which is now a deprecated argv shim that
rewrites to the canonical form).
- Argv-level preprocessing prints a one-line deprecation warning to
stderr when any legacy spelling is used. Canonical names are silent.
Tests:
- Server: /mutate works, /change emits Deprecation+Link headers, /read
emits Deprecation+Link headers, /query carries no deprecation signal.
- OpenAPI: /read and /change flagged deprecated; /query and /mutate not.
- CLI: canonical `lint` matches deprecated `query lint` / `query check`
output; `read` / `change` print deprecation warnings.
Docs:
- cli.md: new canonical examples; "Deprecated names" migration table.
- cli-reference.md: top-level table updated; aliases.<name>.command
accepts both legacy and canonical spellings.
- server.md: endpoint inventory shows /query and /mutate as canonical
and /read and /change as deprecated; dedicated section explains the
three-channel deprecation signal.
- og-cheet-sheet.md: use new `omnigraph lint` / `omnigraph check`.
- openapi.json regenerated.
Migration is purely cosmetic — every deprecated form continues to work
indefinitely; only the spelling changes.
Co-Authored-By: Ragnor Comerford <ragnor.comerford@gmail.com>
* fix(MR-656): address Devin Review findings on /query and /change
Two issues raised by Devin Review on PR #110:
1. `POST /query` mutation-rejection error pointed at the deprecated
`/change` endpoint instead of the canonical `/mutate`. Fixed in
three places: the runtime error message in `server_query`, the
utoipa 400-response description, and the handler doc comment. The
`QueryRequest` schema docstrings in `api.rs` got the same update so
the openapi.json bodies match. Server and openapi tests updated.
2. `execute_change_remote` serialized `ChangeRequest` directly, which
emits the new canonical field names `query` / `name` on the wire.
`#[serde(alias = "query_source")]` only affects deserialization, so
a newer CLI talking to an older server would have its `/change`
POST body fail with "missing field: query_source". Fixed by
extracting a `legacy_change_request_body` helper that hand-rolls
the JSON with the legacy keys (`query_source` / `query_name`), the
same byte-stable contract `execute_read_remote` already uses
against `/read`. Added two unit tests on the helper to lock the
wire shape in.
Co-Authored-By: Ragnor Comerford <ragnor.comerford@gmail.com>
* docs(dev): RFC 001 — inline + stored queries, envelope, MCP
Tracked artifact consolidating the design across MR-656 (this branch),
MR-976 (Phase 1 envelope hardening parent, with MR-977/978/979/980
sub-issues), and MR-969 (stored queries + MCP).
Sections:
* Two paths, one engine — inline `/query` + `/mutate` (this PR) coexist
with stored `/queries/{name}` (MR-969). Same `run_query` / `run_mutate`
backend (the fold-in landed in the previous commit).
* Request envelope ("before") — Idempotency-Key, If-Match, X-Deadline,
X-Trace-Id, expect, dry_run, fields. Phase 1 ships the load-bearing
subset on `/mutate`.
* Response envelope ("after") — audit_id, snapshot_id, commit_id, stats,
warnings. Closes the provenance loop today's `ChangeOutput` leaves
open.
* `.gq` pragmas — `@description`, `@returns`, `@mcp`. Source-of-truth
for the stored-query agent contract; no separate YAML registry.
* Multi-graph MCP — per-graph `/graphs/{id}/mcp/tools` + `/mcp/invoke`.
Token binds to one graph by default; cross-graph agents loop.
* Cedar split — `read`/`change` for inline, `invoke_query` for stored.
Operators deny ad-hoc for agent groups while keeping curated tool
list open.
* Rejected alternatives — per-env override files, compiled bundles,
tool-name prefixing across graphs, body-field graph dispatch.
Index entry added under "Active Implementation Plans" so future agents
land on the RFC before touching queries / mutations / envelope code.
`scripts/check-agents-md.sh` clean (35 links, 34 docs).
* docs(server): clarify why run_query lacks AppState parameter
run_mutate takes state for workload admission; run_query doesn't because
reads aren't admission-gated today. Mark the asymmetry as intentional and
flag the two future events that would grow the signature: Phase 1's
`expect: { max_rows_scanned: N }` budget (MR-976) or per-actor admission
extending to stored-read invocations (MR-969). Prevents the natural
"make these symmetrical" follow-up.
* refactor(server): run_query / run_mutate take &ResolvedActor
Replace `Option<Extension<ResolvedActor>>` in the helpers with
`Option<&ResolvedActor>`. Saves MR-969's stored-query handler from
wrapping a bare actor in axum's `Extension(...)` before calling.
Handler signatures (`server_query`, `server_read`, `server_mutate`,
`server_change`) keep `Option<Extension<ResolvedActor>>` because that
is what axum injects, and unwrap at the call site with
`actor.as_ref().map(|Extension(actor)| actor)`.
Net: -13/+10 LOC, 89/0 server tests pass.
* docs(releases): v0.6.0 — describe inline + canonical-named queries (MR-656)
Extend the v0.6.0 release notes to cover the third piece of work landing
alongside the graph terminology rename and multi-graph server mode:
canonical-named `POST /query` and `POST /mutate` endpoints, the CLI's
new `-e/--query-string` flag, the top-level promotion of `lint` /
`check`, and the three-channel deprecation signal on `/read` and
`/change` (OpenAPI `deprecated: true` + RFC 9745 + RFC 8288).
Additions:
* Top blurb: "Two pieces" -> "Three pieces" with a bullet describing
the rename + inline flow.
* Breaking Changes: new "Query / mutation rename" subsection covering
the `ChangeRequest` field rename (with the back-compat serde aliases
and the CLI's `legacy_change_request_body` byte-stable wire helper)
and the `omnigraph query lint` -> `omnigraph lint` move.
* New: 5 bullets — the two endpoints, the CLI subcommands, the `-e`
flag, the deprecation signal channels, the widened `aliases.<name>.command`
vocabulary.
* User Impact: one bullet making explicit that the rename is cosmetic
on the client side and migration is voluntary.
* Documentation: pointers to the updated `server.md` / `cli.md` /
`cli-reference.md` and the new `docs/dev/rfc-001-queries-envelope-mcp.md`.
+15/-1 lines. `./scripts/check-agents-md.sh` clean.
* refactor(cli): demote `check` from visible_alias to deprecation shim
`omnigraph check` was a clap `visible_alias` on `lint`, advertised in
`--help` as an equivalent canonical name. Per MR-981 §6 (long-form
flags as canonical, short forms as visible aliases), visible aliases
on subcommand names hurt agent CX: agents emit either spelling
depending on training-data drift, and there's no length signal
pointing at the canonical name.
Changes:
* Remove `#[command(visible_alias = "check")]` from the `Lint` variant.
`omnigraph --help` now shows only `lint`.
* Add bare `check` to `rewrite_deprecated_argv` so `omnigraph check
<args>` still works — it rewrites to `omnigraph lint <args>` and
emits a one-line stderr deprecation warning, matching the existing
pattern for `read` / `change` / `query lint` / `query check`.
* Fix the nested `query check` shim to substitute `check` -> `lint` in
the rewritten argv (previously it relied on `check` being a
visible_alias to reach the `Lint` variant).
* New test `deprecated_check_top_level_rewrites_to_lint` covers: bare
`check` produces identical stdout to `lint`, emits the deprecation
warning, and `check` does NOT appear as an alias in `omnigraph
--help`.
* Release notes updated to reflect the deprecation-shim treatment and
cross-reference MR-981 §6 reasoning.
Cargo / Go users typing `check` still work indefinitely; one stderr
nudge per invocation teaches the canonical name. Agents see only
`lint` in `--help --json` so they emit one canonical form.
67/0 omnigraph-cli tests pass; 39 workspace test suites green.
---------
Co-authored-by: Devin AI <158243242+devin-ai-integration[bot]@users.noreply.github.com>
Co-authored-by: Ragnor Comerford <ragnor.comerford@gmail.com>
Co-authored-by: Ragnor Comerford <hello@ragnor.co>
2026-05-29 13:41:54 +02:00
| `lint` (alias: `check` ) | offline / graph-backed query validation. Replaces `query lint` / `query check` , which are kept as deprecated argv-level shims that print a one-line warning and rewrite to `omnigraph lint` |
Refactor AGENTS.md from encyclopedia to map; move spec into docs/
Splits the 990-line AGENTS.md into a 184-line map (architecture,
where-to-find index, always-on invariants, capability matrix,
maintenance contract) plus 18 new docs/*.md files holding the deep
content per topic (storage, schema and query languages, indexes,
embeddings, branches/commits, runs, merge, changes, execution, policy,
server, CLI reference, audit, errors, CI, constants, v0.3.1 notes).
Adds scripts/check-agents-md.sh and a check_agents_md CI job that
verifies every docs/ link in AGENTS.md resolves and every doc in the
canonical set is linked. CLAUDE.md remains a symlink to AGENTS.md.
Co-Authored-By: Claude Opus 4.7 <noreply@anthropic.com>
2026-04-28 23:31:08 +02:00
| `optimize` | non-destructive Lance compaction |
| `cleanup --keep N --older-than 7d --confirm` | destructive version GC |
| `embed` | offline JSONL embedding pipeline |
| `policy validate \| test \| explain` | Cedar tooling |
| `version` / `-v` | print `omnigraph 0.3.x` |
## `omnigraph.yaml` schema
```yaml
project: { name }
graphs:
< name > :
uri: < local | s3: / / | http ( s ) : / / >
bearer_token_env: < ENV_NAME >
server:
graph: < name >
bind: < ip:port >
cli:
graph: < name >
branch: < name >
output_format: json|jsonl|csv|kv|table
table_max_column_width: 80
table_cell_layout: truncate|wrap
query:
roots: [< dir > , …] # search path for .gq files
auth:
env_file: ./.env.omni
aliases:
< alias > :
feat: inline query strings in CLI and HTTP server (#110)
* feat(MR-656): inline query strings in CLI and HTTP server
CLI:
- Add -e / --query-string <STRING> to omnigraph read and omnigraph change
- Exactly one of --query, --query-string, --alias is required (3-way XOR)
- Empty --query-string is rejected with a clear error
HTTP:
- New POST /query (read-only, clean field names: query/name/params/branch/snapshot)
- Mutations on /query are rejected with 400 -- use POST /change instead
- ChangeRequest fields polished: query (alias query_source), name (alias query_name)
- POST /read and POST /change remain byte-compatible for existing clients
Tests:
- cli.rs: -e happy-path on read/change, mutex error vs --query, empty -e rejected
- system_local.rs: inline -e read and -e change exercise the local flow
- system_remote.rs: inline -e read/change over HTTP plus direct /query 200/400
- server.rs: /query 200, /query 400 on mutation, /change legacy field alias
- openapi.rs: new /query path, QueryRequest schema, ChangeRequest field-name polish
Docs: cli.md (-e examples), cli-reference.md (read/change rows), server.md (/query)
Co-Authored-By: Ragnor Comerford <ragnor.comerford@gmail.com>
* feat(MR-656): rename read/change to query/mutate with deprecation signals
HTTP server:
- Add POST /mutate as canonical write endpoint (pairs with POST /query).
- Mark POST /read and POST /change as deprecated. Three-channel signal:
* OpenAPI: `deprecated: true` on the operation (every codegen flags
the generated SDK method).
* RFC 9745: response `Deprecation: true` header on every response.
* RFC 8288: response `Link: </successor>; rel="successor-version"`
pointing at /query and /mutate respectively.
- Share business logic across /mutate and /change via run_mutate(); the
/change wrapper is the only place that adds the deprecation headers.
- ChangeRequest field aliases (query_source/query_name) preserved.
- AliasCommand serde now accepts `query`/`mutate` alongside `read`/`change`.
CLI:
- Promote `omnigraph query` / `omnigraph mutate` to top-level canonical
subcommands (clap visible_alias keeps `omnigraph read` / `omnigraph
change` working forever).
- Promote `omnigraph lint` / `omnigraph check` to top-level (was nested
under `omnigraph query lint`, which is now a deprecated argv shim that
rewrites to the canonical form).
- Argv-level preprocessing prints a one-line deprecation warning to
stderr when any legacy spelling is used. Canonical names are silent.
Tests:
- Server: /mutate works, /change emits Deprecation+Link headers, /read
emits Deprecation+Link headers, /query carries no deprecation signal.
- OpenAPI: /read and /change flagged deprecated; /query and /mutate not.
- CLI: canonical `lint` matches deprecated `query lint` / `query check`
output; `read` / `change` print deprecation warnings.
Docs:
- cli.md: new canonical examples; "Deprecated names" migration table.
- cli-reference.md: top-level table updated; aliases.<name>.command
accepts both legacy and canonical spellings.
- server.md: endpoint inventory shows /query and /mutate as canonical
and /read and /change as deprecated; dedicated section explains the
three-channel deprecation signal.
- og-cheet-sheet.md: use new `omnigraph lint` / `omnigraph check`.
- openapi.json regenerated.
Migration is purely cosmetic — every deprecated form continues to work
indefinitely; only the spelling changes.
Co-Authored-By: Ragnor Comerford <ragnor.comerford@gmail.com>
* fix(MR-656): address Devin Review findings on /query and /change
Two issues raised by Devin Review on PR #110:
1. `POST /query` mutation-rejection error pointed at the deprecated
`/change` endpoint instead of the canonical `/mutate`. Fixed in
three places: the runtime error message in `server_query`, the
utoipa 400-response description, and the handler doc comment. The
`QueryRequest` schema docstrings in `api.rs` got the same update so
the openapi.json bodies match. Server and openapi tests updated.
2. `execute_change_remote` serialized `ChangeRequest` directly, which
emits the new canonical field names `query` / `name` on the wire.
`#[serde(alias = "query_source")]` only affects deserialization, so
a newer CLI talking to an older server would have its `/change`
POST body fail with "missing field: query_source". Fixed by
extracting a `legacy_change_request_body` helper that hand-rolls
the JSON with the legacy keys (`query_source` / `query_name`), the
same byte-stable contract `execute_read_remote` already uses
against `/read`. Added two unit tests on the helper to lock the
wire shape in.
Co-Authored-By: Ragnor Comerford <ragnor.comerford@gmail.com>
* docs(dev): RFC 001 — inline + stored queries, envelope, MCP
Tracked artifact consolidating the design across MR-656 (this branch),
MR-976 (Phase 1 envelope hardening parent, with MR-977/978/979/980
sub-issues), and MR-969 (stored queries + MCP).
Sections:
* Two paths, one engine — inline `/query` + `/mutate` (this PR) coexist
with stored `/queries/{name}` (MR-969). Same `run_query` / `run_mutate`
backend (the fold-in landed in the previous commit).
* Request envelope ("before") — Idempotency-Key, If-Match, X-Deadline,
X-Trace-Id, expect, dry_run, fields. Phase 1 ships the load-bearing
subset on `/mutate`.
* Response envelope ("after") — audit_id, snapshot_id, commit_id, stats,
warnings. Closes the provenance loop today's `ChangeOutput` leaves
open.
* `.gq` pragmas — `@description`, `@returns`, `@mcp`. Source-of-truth
for the stored-query agent contract; no separate YAML registry.
* Multi-graph MCP — per-graph `/graphs/{id}/mcp/tools` + `/mcp/invoke`.
Token binds to one graph by default; cross-graph agents loop.
* Cedar split — `read`/`change` for inline, `invoke_query` for stored.
Operators deny ad-hoc for agent groups while keeping curated tool
list open.
* Rejected alternatives — per-env override files, compiled bundles,
tool-name prefixing across graphs, body-field graph dispatch.
Index entry added under "Active Implementation Plans" so future agents
land on the RFC before touching queries / mutations / envelope code.
`scripts/check-agents-md.sh` clean (35 links, 34 docs).
* docs(server): clarify why run_query lacks AppState parameter
run_mutate takes state for workload admission; run_query doesn't because
reads aren't admission-gated today. Mark the asymmetry as intentional and
flag the two future events that would grow the signature: Phase 1's
`expect: { max_rows_scanned: N }` budget (MR-976) or per-actor admission
extending to stored-read invocations (MR-969). Prevents the natural
"make these symmetrical" follow-up.
* refactor(server): run_query / run_mutate take &ResolvedActor
Replace `Option<Extension<ResolvedActor>>` in the helpers with
`Option<&ResolvedActor>`. Saves MR-969's stored-query handler from
wrapping a bare actor in axum's `Extension(...)` before calling.
Handler signatures (`server_query`, `server_read`, `server_mutate`,
`server_change`) keep `Option<Extension<ResolvedActor>>` because that
is what axum injects, and unwrap at the call site with
`actor.as_ref().map(|Extension(actor)| actor)`.
Net: -13/+10 LOC, 89/0 server tests pass.
* docs(releases): v0.6.0 — describe inline + canonical-named queries (MR-656)
Extend the v0.6.0 release notes to cover the third piece of work landing
alongside the graph terminology rename and multi-graph server mode:
canonical-named `POST /query` and `POST /mutate` endpoints, the CLI's
new `-e/--query-string` flag, the top-level promotion of `lint` /
`check`, and the three-channel deprecation signal on `/read` and
`/change` (OpenAPI `deprecated: true` + RFC 9745 + RFC 8288).
Additions:
* Top blurb: "Two pieces" -> "Three pieces" with a bullet describing
the rename + inline flow.
* Breaking Changes: new "Query / mutation rename" subsection covering
the `ChangeRequest` field rename (with the back-compat serde aliases
and the CLI's `legacy_change_request_body` byte-stable wire helper)
and the `omnigraph query lint` -> `omnigraph lint` move.
* New: 5 bullets — the two endpoints, the CLI subcommands, the `-e`
flag, the deprecation signal channels, the widened `aliases.<name>.command`
vocabulary.
* User Impact: one bullet making explicit that the rename is cosmetic
on the client side and migration is voluntary.
* Documentation: pointers to the updated `server.md` / `cli.md` /
`cli-reference.md` and the new `docs/dev/rfc-001-queries-envelope-mcp.md`.
+15/-1 lines. `./scripts/check-agents-md.sh` clean.
* refactor(cli): demote `check` from visible_alias to deprecation shim
`omnigraph check` was a clap `visible_alias` on `lint`, advertised in
`--help` as an equivalent canonical name. Per MR-981 §6 (long-form
flags as canonical, short forms as visible aliases), visible aliases
on subcommand names hurt agent CX: agents emit either spelling
depending on training-data drift, and there's no length signal
pointing at the canonical name.
Changes:
* Remove `#[command(visible_alias = "check")]` from the `Lint` variant.
`omnigraph --help` now shows only `lint`.
* Add bare `check` to `rewrite_deprecated_argv` so `omnigraph check
<args>` still works — it rewrites to `omnigraph lint <args>` and
emits a one-line stderr deprecation warning, matching the existing
pattern for `read` / `change` / `query lint` / `query check`.
* Fix the nested `query check` shim to substitute `check` -> `lint` in
the rewritten argv (previously it relied on `check` being a
visible_alias to reach the `Lint` variant).
* New test `deprecated_check_top_level_rewrites_to_lint` covers: bare
`check` produces identical stdout to `lint`, emits the deprecation
warning, and `check` does NOT appear as an alias in `omnigraph
--help`.
* Release notes updated to reflect the deprecation-shim treatment and
cross-reference MR-981 §6 reasoning.
Cargo / Go users typing `check` still work indefinitely; one stderr
nudge per invocation teaches the canonical name. Agents see only
`lint` in `--help --json` so they emit one canonical form.
67/0 omnigraph-cli tests pass; 39 workspace test suites green.
---------
Co-authored-by: Devin AI <158243242+devin-ai-integration[bot]@users.noreply.github.com>
Co-authored-by: Ragnor Comerford <ragnor.comerford@gmail.com>
Co-authored-by: Ragnor Comerford <hello@ragnor.co>
2026-05-29 13:41:54 +02:00
# accepted values: `read` / `query` (read alias), `change` / `mutate`
# (write alias). `query` and `mutate` are recommended; `read` and
# `change` remain accepted forever for back-compat.
command: read|change|query|mutate
Refactor AGENTS.md from encyclopedia to map; move spec into docs/
Splits the 990-line AGENTS.md into a 184-line map (architecture,
where-to-find index, always-on invariants, capability matrix,
maintenance contract) plus 18 new docs/*.md files holding the deep
content per topic (storage, schema and query languages, indexes,
embeddings, branches/commits, runs, merge, changes, execution, policy,
server, CLI reference, audit, errors, CI, constants, v0.3.1 notes).
Adds scripts/check-agents-md.sh and a check_agents_md CI job that
verifies every docs/ link in AGENTS.md resolves and every doc in the
canonical set is linked. CLAUDE.md remains a symlink to AGENTS.md.
Co-Authored-By: Claude Opus 4.7 <noreply@anthropic.com>
2026-04-28 23:31:08 +02:00
query: < path-to-.gq >
name: < query-name >
args: [< positional-name > , …]
graph: < name >
branch: < name >
format: < output-format >
policy:
file: ./policy.yaml
```
feat: inline query strings in CLI and HTTP server (#110)
* feat(MR-656): inline query strings in CLI and HTTP server
CLI:
- Add -e / --query-string <STRING> to omnigraph read and omnigraph change
- Exactly one of --query, --query-string, --alias is required (3-way XOR)
- Empty --query-string is rejected with a clear error
HTTP:
- New POST /query (read-only, clean field names: query/name/params/branch/snapshot)
- Mutations on /query are rejected with 400 -- use POST /change instead
- ChangeRequest fields polished: query (alias query_source), name (alias query_name)
- POST /read and POST /change remain byte-compatible for existing clients
Tests:
- cli.rs: -e happy-path on read/change, mutex error vs --query, empty -e rejected
- system_local.rs: inline -e read and -e change exercise the local flow
- system_remote.rs: inline -e read/change over HTTP plus direct /query 200/400
- server.rs: /query 200, /query 400 on mutation, /change legacy field alias
- openapi.rs: new /query path, QueryRequest schema, ChangeRequest field-name polish
Docs: cli.md (-e examples), cli-reference.md (read/change rows), server.md (/query)
Co-Authored-By: Ragnor Comerford <ragnor.comerford@gmail.com>
* feat(MR-656): rename read/change to query/mutate with deprecation signals
HTTP server:
- Add POST /mutate as canonical write endpoint (pairs with POST /query).
- Mark POST /read and POST /change as deprecated. Three-channel signal:
* OpenAPI: `deprecated: true` on the operation (every codegen flags
the generated SDK method).
* RFC 9745: response `Deprecation: true` header on every response.
* RFC 8288: response `Link: </successor>; rel="successor-version"`
pointing at /query and /mutate respectively.
- Share business logic across /mutate and /change via run_mutate(); the
/change wrapper is the only place that adds the deprecation headers.
- ChangeRequest field aliases (query_source/query_name) preserved.
- AliasCommand serde now accepts `query`/`mutate` alongside `read`/`change`.
CLI:
- Promote `omnigraph query` / `omnigraph mutate` to top-level canonical
subcommands (clap visible_alias keeps `omnigraph read` / `omnigraph
change` working forever).
- Promote `omnigraph lint` / `omnigraph check` to top-level (was nested
under `omnigraph query lint`, which is now a deprecated argv shim that
rewrites to the canonical form).
- Argv-level preprocessing prints a one-line deprecation warning to
stderr when any legacy spelling is used. Canonical names are silent.
Tests:
- Server: /mutate works, /change emits Deprecation+Link headers, /read
emits Deprecation+Link headers, /query carries no deprecation signal.
- OpenAPI: /read and /change flagged deprecated; /query and /mutate not.
- CLI: canonical `lint` matches deprecated `query lint` / `query check`
output; `read` / `change` print deprecation warnings.
Docs:
- cli.md: new canonical examples; "Deprecated names" migration table.
- cli-reference.md: top-level table updated; aliases.<name>.command
accepts both legacy and canonical spellings.
- server.md: endpoint inventory shows /query and /mutate as canonical
and /read and /change as deprecated; dedicated section explains the
three-channel deprecation signal.
- og-cheet-sheet.md: use new `omnigraph lint` / `omnigraph check`.
- openapi.json regenerated.
Migration is purely cosmetic — every deprecated form continues to work
indefinitely; only the spelling changes.
Co-Authored-By: Ragnor Comerford <ragnor.comerford@gmail.com>
* fix(MR-656): address Devin Review findings on /query and /change
Two issues raised by Devin Review on PR #110:
1. `POST /query` mutation-rejection error pointed at the deprecated
`/change` endpoint instead of the canonical `/mutate`. Fixed in
three places: the runtime error message in `server_query`, the
utoipa 400-response description, and the handler doc comment. The
`QueryRequest` schema docstrings in `api.rs` got the same update so
the openapi.json bodies match. Server and openapi tests updated.
2. `execute_change_remote` serialized `ChangeRequest` directly, which
emits the new canonical field names `query` / `name` on the wire.
`#[serde(alias = "query_source")]` only affects deserialization, so
a newer CLI talking to an older server would have its `/change`
POST body fail with "missing field: query_source". Fixed by
extracting a `legacy_change_request_body` helper that hand-rolls
the JSON with the legacy keys (`query_source` / `query_name`), the
same byte-stable contract `execute_read_remote` already uses
against `/read`. Added two unit tests on the helper to lock the
wire shape in.
Co-Authored-By: Ragnor Comerford <ragnor.comerford@gmail.com>
* docs(dev): RFC 001 — inline + stored queries, envelope, MCP
Tracked artifact consolidating the design across MR-656 (this branch),
MR-976 (Phase 1 envelope hardening parent, with MR-977/978/979/980
sub-issues), and MR-969 (stored queries + MCP).
Sections:
* Two paths, one engine — inline `/query` + `/mutate` (this PR) coexist
with stored `/queries/{name}` (MR-969). Same `run_query` / `run_mutate`
backend (the fold-in landed in the previous commit).
* Request envelope ("before") — Idempotency-Key, If-Match, X-Deadline,
X-Trace-Id, expect, dry_run, fields. Phase 1 ships the load-bearing
subset on `/mutate`.
* Response envelope ("after") — audit_id, snapshot_id, commit_id, stats,
warnings. Closes the provenance loop today's `ChangeOutput` leaves
open.
* `.gq` pragmas — `@description`, `@returns`, `@mcp`. Source-of-truth
for the stored-query agent contract; no separate YAML registry.
* Multi-graph MCP — per-graph `/graphs/{id}/mcp/tools` + `/mcp/invoke`.
Token binds to one graph by default; cross-graph agents loop.
* Cedar split — `read`/`change` for inline, `invoke_query` for stored.
Operators deny ad-hoc for agent groups while keeping curated tool
list open.
* Rejected alternatives — per-env override files, compiled bundles,
tool-name prefixing across graphs, body-field graph dispatch.
Index entry added under "Active Implementation Plans" so future agents
land on the RFC before touching queries / mutations / envelope code.
`scripts/check-agents-md.sh` clean (35 links, 34 docs).
* docs(server): clarify why run_query lacks AppState parameter
run_mutate takes state for workload admission; run_query doesn't because
reads aren't admission-gated today. Mark the asymmetry as intentional and
flag the two future events that would grow the signature: Phase 1's
`expect: { max_rows_scanned: N }` budget (MR-976) or per-actor admission
extending to stored-read invocations (MR-969). Prevents the natural
"make these symmetrical" follow-up.
* refactor(server): run_query / run_mutate take &ResolvedActor
Replace `Option<Extension<ResolvedActor>>` in the helpers with
`Option<&ResolvedActor>`. Saves MR-969's stored-query handler from
wrapping a bare actor in axum's `Extension(...)` before calling.
Handler signatures (`server_query`, `server_read`, `server_mutate`,
`server_change`) keep `Option<Extension<ResolvedActor>>` because that
is what axum injects, and unwrap at the call site with
`actor.as_ref().map(|Extension(actor)| actor)`.
Net: -13/+10 LOC, 89/0 server tests pass.
* docs(releases): v0.6.0 — describe inline + canonical-named queries (MR-656)
Extend the v0.6.0 release notes to cover the third piece of work landing
alongside the graph terminology rename and multi-graph server mode:
canonical-named `POST /query` and `POST /mutate` endpoints, the CLI's
new `-e/--query-string` flag, the top-level promotion of `lint` /
`check`, and the three-channel deprecation signal on `/read` and
`/change` (OpenAPI `deprecated: true` + RFC 9745 + RFC 8288).
Additions:
* Top blurb: "Two pieces" -> "Three pieces" with a bullet describing
the rename + inline flow.
* Breaking Changes: new "Query / mutation rename" subsection covering
the `ChangeRequest` field rename (with the back-compat serde aliases
and the CLI's `legacy_change_request_body` byte-stable wire helper)
and the `omnigraph query lint` -> `omnigraph lint` move.
* New: 5 bullets — the two endpoints, the CLI subcommands, the `-e`
flag, the deprecation signal channels, the widened `aliases.<name>.command`
vocabulary.
* User Impact: one bullet making explicit that the rename is cosmetic
on the client side and migration is voluntary.
* Documentation: pointers to the updated `server.md` / `cli.md` /
`cli-reference.md` and the new `docs/dev/rfc-001-queries-envelope-mcp.md`.
+15/-1 lines. `./scripts/check-agents-md.sh` clean.
* refactor(cli): demote `check` from visible_alias to deprecation shim
`omnigraph check` was a clap `visible_alias` on `lint`, advertised in
`--help` as an equivalent canonical name. Per MR-981 §6 (long-form
flags as canonical, short forms as visible aliases), visible aliases
on subcommand names hurt agent CX: agents emit either spelling
depending on training-data drift, and there's no length signal
pointing at the canonical name.
Changes:
* Remove `#[command(visible_alias = "check")]` from the `Lint` variant.
`omnigraph --help` now shows only `lint`.
* Add bare `check` to `rewrite_deprecated_argv` so `omnigraph check
<args>` still works — it rewrites to `omnigraph lint <args>` and
emits a one-line stderr deprecation warning, matching the existing
pattern for `read` / `change` / `query lint` / `query check`.
* Fix the nested `query check` shim to substitute `check` -> `lint` in
the rewritten argv (previously it relied on `check` being a
visible_alias to reach the `Lint` variant).
* New test `deprecated_check_top_level_rewrites_to_lint` covers: bare
`check` produces identical stdout to `lint`, emits the deprecation
warning, and `check` does NOT appear as an alias in `omnigraph
--help`.
* Release notes updated to reflect the deprecation-shim treatment and
cross-reference MR-981 §6 reasoning.
Cargo / Go users typing `check` still work indefinitely; one stderr
nudge per invocation teaches the canonical name. Agents see only
`lint` in `--help --json` so they emit one canonical form.
67/0 omnigraph-cli tests pass; 39 workspace test suites green.
---------
Co-authored-by: Devin AI <158243242+devin-ai-integration[bot]@users.noreply.github.com>
Co-authored-by: Ragnor Comerford <ragnor.comerford@gmail.com>
Co-authored-by: Ragnor Comerford <hello@ragnor.co>
2026-05-29 13:41:54 +02:00
## Output formats (`query` command, alias: `read`)
Refactor AGENTS.md from encyclopedia to map; move spec into docs/
Splits the 990-line AGENTS.md into a 184-line map (architecture,
where-to-find index, always-on invariants, capability matrix,
maintenance contract) plus 18 new docs/*.md files holding the deep
content per topic (storage, schema and query languages, indexes,
embeddings, branches/commits, runs, merge, changes, execution, policy,
server, CLI reference, audit, errors, CI, constants, v0.3.1 notes).
Adds scripts/check-agents-md.sh and a check_agents_md CI job that
verifies every docs/ link in AGENTS.md resolves and every doc in the
canonical set is linked. CLAUDE.md remains a symlink to AGENTS.md.
Co-Authored-By: Claude Opus 4.7 <noreply@anthropic.com>
2026-04-28 23:31:08 +02:00
- `json` — pretty-printed object with metadata + rows
- `jsonl` — one metadata line then one JSON object per row
- `csv` — RFC 4180-ish quoting
- `table` — fitted text table, honors `table_max_column_width` + `table_cell_layout`
- `kv` — grouped per-row key/value blocks
## Param resolution
Precedence (high to low): explicit `--params` / `--params-file` , alias positional args, `omnigraph.yaml` defaults. JS-safe-integer handling is built in (`is_js_safe_integer_i64` , `JS_MAX_SAFE_INTEGER_U64` ) so 64-bit ids round-trip safely through JSON clients.
## Bearer token resolution (CLI)
1. `graphs.<name>.bearer_token_env`
2. `OMNIGRAPH_BEARER_TOKEN` global env
3. `auth.env_file` referenced `.env`
## Duration parsing (cleanup)
`s | m | h | d | w` units, e.g. `--older-than 7d` .
