feat(py): validate 0.9.dev1 stores against the bundled schemas

docs/cli.md

@@ -197,9 +197,8 @@ ngff-zarr upgrade src.zarr -o dst.zarr --to 0.5
 
 The target version is selected with `--to` (alias `--version`), one of `0.4`,
 `0.5`, `0.6`, or `0.9.dev1` (default `0.6`). `0.9.dev1` is the development
-version that adopts RFC-3; OME publishes no JSON Schema for it yet, so
-`--validate` cannot check a store at that version. Add `--validate` to validate
-the source metadata against the NGFF schema while reading. For the write-to-new-store mode,
+version that adopts RFC-3. Add `--validate` to validate the source metadata
+against the NGFF schema while reading. For the write-to-new-store mode,
 `--overwrite` (the default) replaces any pre-existing data at the output store,
 while `--no-overwrite` refuses to; both flags are ignored for an in-place
 upgrade, which never overwrites array data.

docs/spec_features.md

@@ -40,9 +40,9 @@ supported by `ngff-zarr`.
   and transformations.
 - **OME-Zarr 0.9.dev1**: Reads and writes the development version that adopts
   RFC-3, which extends support for the number, names, types and order
-  of axes. It is opt-in: pass `version="0.9.dev1"` explicitly. The default
-  target is unchanged, and OME publishes no JSON Schema for it yet, so schema
-  validation is unavailable at that version.
+  of axes. It is opt-in: pass `version="0.9.dev1"` explicitly, the default
+  target is unchanged. The schemas of the `0.9.dev1` release are bundled, so
+  `validate=True` checks a store at that version as it does at any other.
 
 ## High Content Screening (HCS)
 

docs/validation/api.md

@@ -44,9 +44,10 @@ from ngff_zarr import (
 `validate_structural(metadata, options=None, version=None)` runs the
 image/multiscales rules. When `options` is `None` it uses `ValidateOptions()`,
 i.e. `ValidationLevel.STRICT`. `version` is the OME-Zarr version the metadata
-declares; the axis rules are inert for the versions that adopt the RFC-3 axis
-model (see [[parity]]), so omitting it holds every store to the v0.4 axis
-caps. A `ValidationError` carries `.rule` (a `SpecRule`),
+declares; the axis count, type and order rules are inert for the versions that
+adopt the RFC-3 axis model (see [[parity]]), so omitting it holds every store to
+the v0.4 axis caps. `axis-names-unique` is never inert: RFC-3 states it and no
+released schema carries it. A `ValidationError` carries `.rule` (a `SpecRule`),
 `.message` (str), and `.location` (`str | None`); `str(exc)` is
 `Spec rule [<rule>] violated: <message>`.
 

py/ngff_zarr/spec/0.9/schemas/_version.schema

@@ -0,0 +1,10 @@
+{
+  "$schema": "https://json-schema.org/draft/2020-12/schema",
+  "$id": "https://ngff.openmicroscopy.org/0.9.dev1/schemas/_version.schema",
+  "title": "OME-Zarr version",
+  "description": "OME-Zarr version.",
+  "type": "string",
+  "enum": [
+    "0.9.dev1"
+  ]
+}

py/ngff_zarr/spec/0.9/schemas/axes.schema

@@ -0,0 +1,46 @@
+{
+  "$schema": "https://json-schema.org/draft/2020-12/schema",
+  "$id": "https://ngff.openmicroscopy.org/0.9.dev1/schemas/axes.schema",
+  "title": "Axes",
+  "description": "OME-Zarr Axes.",
+  "type": "array",
+  "uniqueItems": true,
+  "minItems": 1,
+  "items": {
+    "$ref": "#/$defs/axis"
+  },
+  "$defs": {
+    "axis": {
+      "type": "object",
+      "properties": {
+        "name": {
+          "type": "string",
+          "minLength": 1,
+          "description": "Name of the axis. Must be unique within the coordinate system."
+        },
+        "longName": {
+          "type": "string",
+          "description": "Longer name or description of the axis."
+        },
+        "type": {
+          "type": "string",
+          "description": "Type of the axis. Can be a predefined type or custom type."
+        },
+        "discrete": {
+          "type": "boolean",
+          "description": "Whether the dimension is discrete"
+        },
+        "unit": {
+          "type": "string",
+          "description": "Unit for the axis"
+        },
+        "orientation": {
+          "$ref": "axis_orientation.schema"
+        }
+      },
+      "required": [
+        "name"
+      ]
+    }
+  }
+}

py/ngff_zarr/spec/0.9/schemas/axis_orientation.schema

@@ -0,0 +1,41 @@
+{
+  "$schema": "https://json-schema.org/draft/2020-12/schema",
+  "$id": "https://ngff.openmicroscopy.org/0.9.dev1/schemas/axis_orientation.schema",
+  "title": "Axis Orientation",
+  "description": "Controlled vocabulary for orientation of each spatial axis according to subject or subject-global reference.",
+  "type": "object",
+      "properties": {
+        "type": {
+          "enum": ["anatomical"]
+        },
+        "value": {
+          "enum": [
+            "left-to-right",
+            "right-to-left",
+            "anterior-to-posterior",
+            "posterior-to-anterior",
+            "inferior-to-superior",
+            "superior-to-inferior",
+            "dorsal-to-ventral",
+            "ventral-to-dorsal",
+            "dorsal-to-palmar",
+            "palmar-to-dorsal",
+            "dorsal-to-plantar",
+            "plantar-to-dorsal",
+            "rostral-to-caudal",
+            "caudal-to-rostral",
+            "cranial-to-caudal",
+            "caudal-to-cranial",
+            "proximal-to-distal",
+            "distal-to-proximal",
+            "superficial-to-deep",
+            "deep-to-superficial",
+            "apical-to-basal",
+            "basal-to-apical",
+            "apex-to-base",
+            "base-to-apex"
+          ]
+        }
+      },
+      "required": ["type", "value"]
+}

py/ngff_zarr/spec/0.9/schemas/bf2raw.schema

@@ -0,0 +1,32 @@
+{
+  "$schema": "https://json-schema.org/draft/2020-12/schema",
+  "$id": "https://ngff.openmicroscopy.org/0.9.dev1/schemas/bf2raw.schema",
+  "title": "bioformats2raw",
+  "description": "OME-Zarr bioformats2raw metadata.",
+  "type": "object",
+  "properties": {
+    "ome": {
+      "description": "The versioned OME-Zarr Metadata namespace",
+      "type": "object",
+      "properties": {
+        "bioformats2raw.layout": {
+          "description": "The top-level identifier metadata added by bioformats2raw",
+          "type": "number",
+          "enum": [
+            3
+          ]
+        },
+        "version": {
+          "$ref": "https://ngff.openmicroscopy.org/0.9.dev1/schemas/_version.schema"
+        }
+      },
+      "required": [
+        "bioformats2raw.layout",
+        "version"
+      ]
+    }
+  },
+  "required": [
+    "ome"
+  ]
+}

py/ngff_zarr/spec/0.9/schemas/coordinate_systems.schema

@@ -0,0 +1,31 @@
+{
+  "$schema": "https://json-schema.org/draft/2020-12/schema",
+  "$id": "https://ngff.openmicroscopy.org/0.9.dev1/schemas/coordinate_systems.schema",
+  "title": "Coordinate systems",
+  "description": "OME-Zarr coordinate system.",
+  "type": "array",
+  "uniqueItems": true,
+  "items": {
+    "$ref": "#/$defs/coordinateSystem"
+  },
+  "$defs": {
+    "coordinateSystem": {
+      "description": "Coordinate Systems for OME-NGFF",
+      "type": "object",
+      "properties": {
+        "name": {
+          "type": "string",
+          "minLength": 1,
+          "description": "Name of coordinate system. Must be unique among all coordinate systems."
+        },
+        "axes": {
+          "$ref": "axes.schema"
+        }
+      },
+      "required": [
+        "name",
+        "axes"
+      ]
+    }
+  }
+}