zarr-metadata 0.1.0

package/dist/validation.js.map

@@ -0,0 +1 @@
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package/package.json

@@ -0,0 +1,51 @@
+{
+  "name": "zarr-metadata",
+  "version": "0.1.0",
+  "description": "Spec-defined metadata types and validators for Zarr v2 and v3.",
+  "license": "MIT",
+  "type": "module",
+  "main": "./dist/index.js",
+  "types": "./dist/index.d.ts",
+  "exports": {
+    ".": {
+      "types": "./dist/index.d.ts",
+      "default": "./dist/index.js"
+    },
+    "./package.json": "./package.json"
+  },
+  "files": [
+    "dist",
+    "src"
+  ],
+  "sideEffects": false,
+  "engines": {
+    "node": ">=20"
+  },
+  "repository": {
+    "type": "git",
+    "url": "git+https://github.com/d-v-b/zarr-metadata-ts.git"
+  },
+  "homepage": "https://github.com/d-v-b/zarr-metadata-ts#readme",
+  "bugs": {
+    "url": "https://github.com/d-v-b/zarr-metadata-ts/issues"
+  },
+  "scripts": {
+    "build": "tsc -p tsconfig.json",
+    "clean": "rm -rf dist",
+    "prepack": "npm run clean && npm run build",
+    "test": "vitest run",
+    "typecheck": "tsc -p tsconfig.json --noEmit && tsc -p tsconfig.test.json"
+  },
+  "keywords": [
+    "zarr",
+    "metadata",
+    "validation"
+  ],
+  "devDependencies": {
+    "@changesets/cli": "^3.0.1",
+    "@standard-schema/spec": "^1.1.0",
+    "@types/node": "^26.4.0",
+    "typescript": "^5.6.0",
+    "vitest": "^3.0.0"
+  }
+}

package/src/common.ts

@@ -0,0 +1,39 @@
+/**
+ * Cross-version primitives for Zarr metadata.
+ *
+ * This package is a TypeScript port of the Python `zarr-metadata` package
+ * (https://pypi.org/project/zarr-metadata/), which is the reference
+ * implementation. The two are kept in lockstep by a shared conformance
+ * corpus; see `conformance/` at the repository root.
+ */
+
+/** A JSON-encodable value. */
+export type JSONValue =
+  | string
+  | number
+  | boolean
+  | null
+  | JSONValue[]
+  | { [key: string]: JSONValue };
+
+/**
+ * Externally-tagged union member for a v3 metadata field.
+ *
+ * The optional `configuration` mapping holds arbitrary JSON-encodable
+ * values. `must_understand` is implicitly true when absent.
+ */
+export type ZarrV3NamedConfigJSON = {
+  name: string;
+  configuration?: { [key: string]: JSONValue };
+  must_understand?: boolean;
+};
+
+/**
+ * The JSON shape of any v3 metadata extension-point entry: either a bare
+ * short-hand name string or a `{name, configuration, must_understand}`
+ * envelope.
+ *
+ * Used for `data_type`, `chunk_grid`, `chunk_key_encoding`, individual
+ * codec entries, and `storage_transformers` in v3 array metadata.
+ */
+export type ZarrV3MetadataFieldJSON = string | ZarrV3NamedConfigJSON;

package/src/errors.ts

@@ -0,0 +1,142 @@
+/**
+ * The error vocabulary: validation produces a tree of issues mirroring the
+ * document's shape, and an empty tree means the document is valid.
+ *
+ * This shape is native to TypeScript validation libraries (compare Zod's
+ * `treeifyError` and `safeParse`) rather than ported from the Python
+ * reference implementation, which returns a flat list of loc-tagged
+ * problems. The two are isomorphic: `flattenTree` produces the flat
+ * path+kind form — the interchange format the cross-language conformance
+ * corpus asserts on, and the form editor tooling needs to place a
+ * diagnostic at a document location — and `treeOf` rebuilds a tree from it.
+ *
+ * Invariant: a subtree exists only on the path to at least one issue, so
+ * `isEmptyTree` never has to search — an empty root IS the success case.
+ */
+
+/**
+ * Machine-readable classification of an issue.
+ *
+ * - `missing_key`: a required key (document key or store key) is absent.
+ * - `invalid_type`: a value has the wrong structural type (e.g. a string
+ *   where a mapping is required).
+ * - `invalid_value`: a value has an acceptable type but invalid content
+ *   (e.g. `zarr_format: 2` in a v3 document, `order: "Q"`).
+ * - `invalid_json`: bytes/text that do not decode as JSON.
+ */
+export type IssueKind = "missing_key" | "invalid_type" | "invalid_value" | "invalid_json";
+
+/** One problem, attached to the tree node whose document location it describes. */
+export interface Issue {
+  readonly kind: IssueKind;
+  readonly message: string;
+}
+
+/**
+ * The path from the document root to a value: object keys and array
+ * indices, e.g. `["codecs", 0, "name"]`. Empty means the document itself.
+ */
+export type IssuePath = ReadonlyArray<string | number>;
+
+/** An issue paired with its full path — the flat view of a tree entry. */
+export interface PathedIssue extends Issue {
+  readonly path: IssuePath;
+}
+
+/**
+ * Every problem found in a document, arranged as a tree mirroring the
+ * document's own shape: `issues` holds the problems at this location, and
+ * `children` (keyed by object key or array index) holds the problems below
+ * it. An empty tree — no issues, no children — means validation succeeded.
+ *
+ * `children` is a `Map` so array indices keep their number identity
+ * instead of collapsing into string keys.
+ */
+export interface ErrorTree {
+  readonly issues: ReadonlyArray<Issue>;
+  readonly children: ReadonlyMap<string | number, ErrorTree>;
+}
+
+/** Whether `tree` holds no issues anywhere — the success verdict. */
+export function isEmptyTree(tree: ErrorTree): boolean {
+  return tree.issues.length === 0 && tree.children.size === 0;
+}
+
+interface MutableTree {
+  issues: Issue[];
+  children: Map<string | number, MutableTree>;
+}
+
+/** Build an `ErrorTree` from flat pathed issues (the inverse of `flattenTree`). */
+export function treeOf(issues: ReadonlyArray<PathedIssue>): ErrorTree {
+  const root: MutableTree = { issues: [], children: new Map() };
+  for (const { path, kind, message } of issues) {
+    let node = root;
+    for (const part of path) {
+      let child = node.children.get(part);
+      if (child === undefined) {
+        child = { issues: [], children: new Map() };
+        node.children.set(part, child);
+      }
+      node = child;
+    }
+    node.issues.push({ kind, message });
+  }
+  return root;
+}
+
+/**
+ * The flat view of `tree`: every issue with its full path, parents before
+ * children. This is the interchange form — what the conformance corpus
+ * asserts on, and what a consumer placing diagnostics in a text document
+ * wants.
+ */
+export function flattenTree(tree: ErrorTree): PathedIssue[] {
+  const out: PathedIssue[] = [];
+  const walk = (node: ErrorTree, path: IssuePath): void => {
+    for (const issue of node.issues) {
+      out.push({ path, kind: issue.kind, message: issue.message });
+    }
+    for (const [part, child] of node.children) {
+      walk(child, [...path, part]);
+    }
+  };
+  walk(tree, []);
+  return out;
+}
+
+function formatPathedIssue(issue: PathedIssue): string {
+  const location = issue.path.length > 0 ? issue.path.join(".") : "<root>";
+  return `${location}: ${issue.message}`;
+}
+
+/** Render `tree` as one human-readable line per issue (`"path.to.value: message"`). */
+export function formatTree(tree: ErrorTree): string {
+  return flattenTree(tree).map(formatPathedIssue).join("\n");
+}
+
+/**
+ * The result of a `safeParse*` function: the narrowed document on success,
+ * the error tree on failure.
+ */
+export type ParseResult<T> =
+  | { readonly success: true; readonly value: T }
+  | { readonly success: false; readonly errors: ErrorTree };
+
+/**
+ * Thrown by `parse*` functions and the store entry points when a value
+ * fails validation. Carries the complete error tree (not just the first
+ * problem) as `.errors`, with `.issues` as its flat view.
+ */
+export class MetadataValidationError extends Error {
+  readonly errors: ErrorTree;
+  readonly issues: ReadonlyArray<PathedIssue>;
+
+  constructor(errors: ErrorTree) {
+    const issues = flattenTree(errors);
+    super(issues.map(formatPathedIssue).join("\n"));
+    this.name = "MetadataValidationError";
+    this.errors = errors;
+    this.issues = issues;
+  }
+}

package/src/index.ts

@@ -0,0 +1,27 @@
+/**
+ * zarr-metadata: spec-defined metadata types and validators for Zarr v2 and
+ * v3, in TypeScript.
+ *
+ * A port of the Python `zarr-metadata` package (the reference
+ * implementation), kept in lockstep by a shared conformance corpus.
+ */
+
+export type { JSONValue, ZarrV3MetadataFieldJSON, ZarrV3NamedConfigJSON } from "./common.js";
+export {
+  flattenTree,
+  formatTree,
+  isEmptyTree,
+  MetadataValidationError,
+  treeOf,
+  type ErrorTree,
+  type Issue,
+  type IssueKind,
+  type IssuePath,
+  type ParseResult,
+  type PathedIssue,
+} from "./errors.js";
+export * from "./schemas.js";
+export type { StandardSchemaV1 } from "./standard-schema.js";
+export * from "./v2.js";
+export * from "./v3.js";
+export * from "./validation.js";

package/src/keys.ts

@@ -0,0 +1,45 @@
+/**
+ * Compile-time machinery tying the runtime key arrays to the document types.
+ *
+ * The validators need key names at runtime, and TypeScript types are erased,
+ * so the arrays in v2.ts / v3.ts cannot be derived from the types the way
+ * the Python package derives its key sets from `__required_keys__`. What the
+ * type system CAN do is the reverse: prove each array is exactly the set of
+ * required (or optional) keys declared by the document type, so the two can
+ * never drift.
+ */
+
+/**
+ * The declared properties of `T`, with index signatures stripped.
+ *
+ * The v3 document types carry a `[key: string]: ...` index signature for
+ * extension fields; without stripping it, `keyof` collapses to `string` and
+ * the per-key extraction below would be meaningless.
+ */
+type Known<T> = {
+  [K in keyof T as string extends K ? never : number extends K ? never : K]: T[K];
+};
+
+/** The union of `T`'s required declared keys. */
+export type RequiredKeysOf<T> = {
+  [K in keyof Known<T>]-?: {} extends Pick<Known<T>, K> ? never : K;
+}[keyof Known<T>];
+
+/** The union of `T`'s optional declared keys. */
+export type OptionalKeysOf<T> = {
+  [K in keyof Known<T>]-?: {} extends Pick<Known<T>, K> ? K : never;
+}[keyof Known<T>];
+
+/**
+ * Identity for a readonly tuple of keys, statically checked to be EXACTLY
+ * the union `U`: the element constraint rejects keys outside `U`, and the
+ * intersected conditional rejects the tuple when any member of `U` is
+ * missing (surfacing as a "not assignable" error on the argument).
+ *
+ * Usage: `exactKeys<RequiredKeysOf<Doc>>()(["a", "b"])`.
+ */
+export function exactKeys<U extends PropertyKey>() {
+  return <const A extends readonly U[]>(
+    keys: A & ([U] extends [A[number]] ? unknown : never),
+  ): A => keys;
+}

package/src/schemas.ts

@@ -0,0 +1,96 @@
+/**
+ * Standard Schema (https://standardschema.dev) objects for every document
+ * kind, so the validators plug into anything that accepts standard schemas
+ * (tRPC, form libraries, ...).
+ *
+ * Each schema wraps the corresponding `safeParse*` function: validation is
+ * synchronous, success carries the narrowed document, and failure carries
+ * the flattened error tree as standard issues. Every issue additionally
+ * keeps its machine-readable `kind` (an extension the standard permits);
+ * consumers wanting the full `ErrorTree` should use `validate*` directly.
+ */
+
+import { flattenTree, type IssueKind, type ParseResult, type PathedIssue } from "./errors.js";
+import type { JSONValue, ZarrV3MetadataFieldJSON } from "./common.js";
+import type { StandardSchemaV1 } from "./standard-schema.js";
+import {
+  safeParseArrayMetadataV2,
+  safeParseArrayMetadataV3,
+  safeParseConsolidatedMetadataV2,
+  safeParseConsolidatedMetadataV3,
+  safeParseGroupMetadataV2,
+  safeParseGroupMetadataV3,
+  safeParseJson,
+  safeParseMetadataFieldV3,
+  safeParseMetadataV3,
+} from "./validation.js";
+import type {
+  ZarrV2ArrayMetadataJSON,
+  ZarrV2ConsolidatedMetadataJSON,
+  ZarrV2GroupMetadataJSON,
+} from "./v2.js";
+import type {
+  ZarrV3ArrayMetadataJSON,
+  ZarrV3ConsolidatedMetadataJSON,
+  ZarrV3GroupMetadataJSON,
+  ZarrV3MetadataJSON,
+} from "./v3.js";
+
+/** A standard issue that also keeps zarr-metadata's machine-readable kind. */
+export interface StandardIssue extends StandardSchemaV1.Issue {
+  readonly kind: IssueKind;
+}
+
+function toStandardIssue(issue: PathedIssue): StandardIssue {
+  return issue.path.length === 0
+    ? { message: issue.message, kind: issue.kind }
+    : { message: issue.message, path: [...issue.path], kind: issue.kind };
+}
+
+function schemaOf<T>(
+  safeParse: (value: unknown) => ParseResult<T>,
+): StandardSchemaV1<unknown, T> {
+  return {
+    "~standard": {
+      version: 1,
+      vendor: "zarr-metadata",
+      validate: (value) => {
+        const result = safeParse(value);
+        return result.success
+          ? { value: result.value }
+          : { issues: flattenTree(result.errors).map(toStandardIssue) };
+      },
+    },
+  };
+}
+
+export const jsonValueSchema: StandardSchemaV1<unknown, JSONValue> = schemaOf(safeParseJson);
+
+export const metadataFieldV3Schema: StandardSchemaV1<unknown, ZarrV3MetadataFieldJSON> =
+  schemaOf(safeParseMetadataFieldV3);
+
+export const arrayMetadataV3Schema: StandardSchemaV1<unknown, ZarrV3ArrayMetadataJSON> =
+  schemaOf(safeParseArrayMetadataV3);
+
+export const groupMetadataV3Schema: StandardSchemaV1<unknown, ZarrV3GroupMetadataJSON> =
+  schemaOf(safeParseGroupMetadataV3);
+
+export const consolidatedMetadataV3Schema: StandardSchemaV1<
+  unknown,
+  ZarrV3ConsolidatedMetadataJSON
+> = schemaOf(safeParseConsolidatedMetadataV3);
+
+/** The complete `zarr.json` grammar, dispatching on `node_type`. */
+export const metadataV3Schema: StandardSchemaV1<unknown, ZarrV3MetadataJSON> =
+  schemaOf(safeParseMetadataV3);
+
+export const arrayMetadataV2Schema: StandardSchemaV1<unknown, ZarrV2ArrayMetadataJSON> =
+  schemaOf(safeParseArrayMetadataV2);
+
+export const groupMetadataV2Schema: StandardSchemaV1<unknown, ZarrV2GroupMetadataJSON> =
+  schemaOf(safeParseGroupMetadataV2);
+
+export const consolidatedMetadataV2Schema: StandardSchemaV1<
+  unknown,
+  ZarrV2ConsolidatedMetadataJSON
+> = schemaOf(safeParseConsolidatedMetadataV2);

package/src/standard-schema.ts

@@ -0,0 +1,78 @@
+/**
+ * The Standard Schema V1 interface (https://standardschema.dev), vendored.
+ *
+ * Standard Schema is the interoperability contract implemented by Zod,
+ * Valibot, ArkType, and consumed by tRPC, form libraries, and others. The
+ * spec is designed to be copied into implementing libraries so they stay
+ * dependency-free; the test suite checks this copy against the official
+ * `@standard-schema/spec` types (a devDependency) so it cannot drift.
+ */
+
+/** The Standard Schema interface. */
+export interface StandardSchemaV1<Input = unknown, Output = Input> {
+  /** The Standard Schema properties. */
+  readonly "~standard": StandardSchemaV1.Props<Input, Output>;
+}
+
+export declare namespace StandardSchemaV1 {
+  /** The Standard Schema properties interface. */
+  export interface Props<Input = unknown, Output = Input> {
+    /** The version number of the standard. */
+    readonly version: 1;
+    /** The vendor name of the schema library. */
+    readonly vendor: string;
+    /** Validates unknown input values. */
+    readonly validate: (value: unknown) => Result<Output> | Promise<Result<Output>>;
+    /** Inferred types associated with the schema. */
+    readonly types?: Types<Input, Output> | undefined;
+  }
+
+  /** The result interface of the validate function. */
+  export type Result<Output> = SuccessResult<Output> | FailureResult;
+
+  /** The result interface if validation succeeds. */
+  export interface SuccessResult<Output> {
+    /** The typed output value. */
+    readonly value: Output;
+    /** The non-existent issues. */
+    readonly issues?: undefined;
+  }
+
+  /** The result interface if validation fails. */
+  export interface FailureResult {
+    /** The issues of failed validation. */
+    readonly issues: ReadonlyArray<Issue>;
+  }
+
+  /** The issue interface of the failure output. */
+  export interface Issue {
+    /** The error message of the issue. */
+    readonly message: string;
+    /** The path of the issue, if any. */
+    readonly path?: ReadonlyArray<PropertyKey | PathSegment> | undefined;
+  }
+
+  /** The path segment interface of the issue. */
+  export interface PathSegment {
+    /** The key representing a path segment. */
+    readonly key: PropertyKey;
+  }
+
+  /** The Standard Schema types interface. */
+  export interface Types<Input = unknown, Output = Input> {
+    /** The input type of the schema. */
+    readonly input: Input;
+    /** The output type of the schema. */
+    readonly output: Output;
+  }
+
+  /** Infers the input type of a Standard Schema. */
+  export type InferInput<Schema extends StandardSchemaV1> = NonNullable<
+    Schema["~standard"]["types"]
+  >["input"];
+
+  /** Infers the output type of a Standard Schema. */
+  export type InferOutput<Schema extends StandardSchemaV1> = NonNullable<
+    Schema["~standard"]["types"]
+  >["output"];
+}

package/src/v2.ts

@@ -0,0 +1,126 @@
+/**
+ * Zarr v2 metadata document types.
+ *
+ * See https://zarr-specs.readthedocs.io/en/latest/v2/v2.0.html
+ */
+
+import type { JSONValue } from "./common.js";
+import { exactKeys, type OptionalKeysOf, type RequiredKeysOf } from "./keys.js";
+
+/**
+ * The v2 dtype representation.
+ *
+ * Either a numpy-style dtype string (e.g. `"<f8"`, `"|S10"`) or an array of
+ * field records describing a structured dtype. Each field record is either a
+ * 2-tuple `[name, datatype]` or a 3-tuple `[name, datatype, shape]` (the
+ * 3-tuple form indicates a subarray field). A field datatype may itself be
+ * another structured dtype.
+ *
+ * See https://zarr-specs.readthedocs.io/en/latest/v2/v2.0.html#data-type-encoding
+ */
+export type ZarrV2DataTypeMetadata =
+  | string
+  | Array<[string, ZarrV2DataTypeMetadata] | [string, ZarrV2DataTypeMetadata, number[]]>;
+
+/** `"C"` (row-major) or `"F"` (column-major) — the in-chunk byte layout. */
+export const ZARR_V2_ARRAY_ORDER = ["C", "F"] as const;
+export type ZarrV2ArrayOrder = (typeof ZARR_V2_ARRAY_ORDER)[number];
+
+/** `"."` (legacy default) or `"/"` (nested directories). */
+export const ZARR_V2_ARRAY_DIMENSION_SEPARATOR = [".", "/"] as const;
+export type ZarrV2ArrayDimensionSeparator = (typeof ZARR_V2_ARRAY_DIMENSION_SEPARATOR)[number];
+
+/**
+ * A numcodecs configuration object, used as a v2 compressor or filter.
+ *
+ * The required `id` field names the codec; codec-specific parameters
+ * (e.g. `cname`, `clevel` for blosc) appear as extra fields.
+ */
+export type ZarrV2CodecMetadata = { id: string } & { [key: string]: JSONValue };
+
+/**
+ * On-disk `.zarray` file content.
+ *
+ * User attributes live in a sibling `.zattrs` file and are NOT part of this
+ * type; see `ZarrV2ZAttrsJSON`.
+ */
+export type ZarrV2ZArrayJSON = {
+  zarr_format: 2;
+  shape: number[];
+  chunks: number[];
+  dtype: ZarrV2DataTypeMetadata;
+  compressor: ZarrV2CodecMetadata | null;
+  fill_value: JSONValue;
+  order: ZarrV2ArrayOrder;
+  filters: ZarrV2CodecMetadata[] | null;
+  dimension_separator?: ZarrV2ArrayDimensionSeparator;
+};
+
+/**
+ * Zarr v2 array metadata document, in-memory merged form: the `.zarray`
+ * fields plus the sibling `.zattrs` attributes folded in as `attributes`.
+ */
+export type ZarrV2ArrayMetadataJSON = ZarrV2ZArrayJSON & {
+  attributes?: { [key: string]: JSONValue };
+};
+
+/** On-disk `.zgroup` file content. The spec defines exactly one field. */
+export type ZarrV2ZGroupJSON = {
+  zarr_format: 2;
+};
+
+/**
+ * Zarr v2 group metadata document, in-memory merged form: the `.zgroup`
+ * field plus the sibling `.zattrs` attributes folded in as `attributes`.
+ */
+export type ZarrV2GroupMetadataJSON = ZarrV2ZGroupJSON & {
+  attributes?: { [key: string]: JSONValue };
+};
+
+/** On-disk `.zattrs` file content: a JSON object of user attributes. */
+export type ZarrV2ZAttrsJSON = { [key: string]: JSONValue };
+
+/**
+ * `.zmetadata` file contents (v2 consolidated metadata).
+ *
+ * NOT a spec artifact: a reference-implementation convention. The `metadata`
+ * map uses flat path keys (`"foo/bar/.zarray"`, `"foo/.zattrs"`, ...)
+ * pointing to the JSON contents of the file at that path.
+ */
+export type ZarrV2ConsolidatedMetadataJSON = {
+  zarr_consolidated_format: 1;
+  metadata: { [key: string]: JSONValue };
+};
+
+export const ZARR_V2_ARRAY_METADATA_STORE_KEY = ".zarray";
+export const ZARR_V2_GROUP_METADATA_STORE_KEY = ".zgroup";
+export const ZARR_V2_ATTRIBUTES_STORE_KEY = ".zattrs";
+export const ZARR_V2_CONSOLIDATED_METADATA_STORE_KEY = ".zmetadata";
+
+/** The standard top-level keys of a merged v2 array metadata document. */
+export const ARRAY_METADATA_REQUIRED_KEYS_V2 = exactKeys<RequiredKeysOf<ZarrV2ArrayMetadataJSON>>()([
+  "zarr_format",
+  "shape",
+  "chunks",
+  "dtype",
+  "compressor",
+  "fill_value",
+  "order",
+  "filters",
+]);
+export const ARRAY_METADATA_OPTIONAL_KEYS_V2 = exactKeys<OptionalKeysOf<ZarrV2ArrayMetadataJSON>>()([
+  "dimension_separator",
+  "attributes",
+]);
+export const ARRAY_METADATA_STANDARD_KEYS_V2 = [
+  ...ARRAY_METADATA_REQUIRED_KEYS_V2,
+  ...ARRAY_METADATA_OPTIONAL_KEYS_V2,
+] as const;
+
+/** The standard top-level keys of a merged v2 group metadata document. */
+export const GROUP_METADATA_REQUIRED_KEYS_V2 = exactKeys<RequiredKeysOf<ZarrV2GroupMetadataJSON>>()(["zarr_format"]);
+export const GROUP_METADATA_OPTIONAL_KEYS_V2 = exactKeys<OptionalKeysOf<ZarrV2GroupMetadataJSON>>()(["attributes"]);
+export const GROUP_METADATA_STANDARD_KEYS_V2 = [
+  ...GROUP_METADATA_REQUIRED_KEYS_V2,
+  ...GROUP_METADATA_OPTIONAL_KEYS_V2,
+] as const;