@mantra-ai/core 0.1.0

package/dist/normalization/jats/utils/types.d.ts

@@ -0,0 +1,233 @@
+import type { NormalizedDoc } from "../../normalized-doc-schema";
+export type NormalizedJats = {
+    meta: {
+        ids?: Partial<{
+            pmcid: string;
+            doi: string;
+            publisher_id: string;
+            art_access_id: string;
+        }>;
+        title?: string;
+        journal?: {
+            title?: string;
+            ids?: {
+                type?: string;
+                value: string;
+            }[];
+            issn?: {
+                pub_type?: string;
+                value: string;
+            }[];
+            publisher?: {
+                name?: string;
+                location?: string;
+            };
+        };
+        pub_dates?: {
+            pub_type?: string;
+            day?: string;
+            month?: string;
+            season?: string;
+            year?: string;
+        }[];
+        volume?: string;
+        issue?: string;
+        elocation_id?: string;
+        license?: {
+            type?: string;
+            href?: string;
+            text?: string;
+        };
+        self_uri?: string;
+    };
+    contributors?: Array<{
+        role?: string;
+        given?: string;
+        surname?: string;
+        full?: string;
+        xref_aff?: string[];
+        corresp?: boolean;
+        corresp_id?: string;
+        email?: string;
+    }>;
+    affiliations?: Array<{
+        id?: string;
+        label?: string;
+        text?: string;
+        country?: string;
+    }>;
+    abstracts?: Array<{
+        type?: string;
+        title?: string;
+        blocks?: Array<ParagraphBlock | SectionBlock | FigureBlock | TableBlock>;
+    }>;
+    keywords?: string[];
+    content?: Section[];
+    body?: {
+        sections: Section[];
+    };
+    back?: {
+        refs?: Array<{
+            id?: string;
+            label?: string;
+            raw?: string;
+            text?: string;
+            xml?: string;
+            xml_minimal?: string;
+        }>;
+        supplementary?: Array<{
+            href?: string;
+            content_type?: string;
+        }>;
+        sections?: Section[];
+    };
+};
+export type SectionCategory = "abstract" | "introduction" | "methods" | "results" | "discussion" | "conclusions" | "results-discussion" | "limitations" | "ethics" | "acknowledgements" | "data_availability" | "funding" | "competing_interests" | "author_contributions" | "abbreviations" | "glossary" | "publisher_note" | "provenance" | "trial_registration" | "code_availability" | "materials_availability" | "supplementary" | "appendices" | "notes" | "other";
+export type ParagraphBlock = {
+    kind: "paragraph";
+    text: string;
+    xml?: string;
+    xml_minimal?: string;
+};
+export type SectionBlock = {
+    kind: "section";
+    section: Section;
+};
+export type FigureBlock = {
+    kind: "figure";
+    id?: string;
+    label?: string;
+    title?: string;
+    slug?: string;
+    caption?: {
+        paragraphs?: string[];
+        xml?: string[];
+        xml_minimal?: string[];
+    };
+};
+export type TableBlock = {
+    kind: "table";
+    id?: string;
+    label?: string;
+    title?: string;
+    slug?: string;
+    caption?: {
+        paragraphs?: string[];
+        xml?: string[];
+        xml_minimal?: string[];
+    };
+};
+export type Section = {
+    id?: string;
+    sec_type?: string;
+    title?: string;
+    normalized_title?: string;
+    category?: SectionCategory;
+    blocks?: Array<ParagraphBlock | SectionBlock | FigureBlock | TableBlock>;
+    paragraphs?: string[];
+    paragraphs_xml?: string[];
+    paragraphs_xml_minimal?: string[];
+    sections?: Section[];
+};
+export type RawSourceInfo = {
+    name?: string;
+    url?: string;
+    fetched_at?: string;
+    http_status?: number;
+    license?: string;
+};
+export type RawStorageInfo = {
+    provider?: "s3" | "gcs" | "fs" | string;
+    bucket?: string;
+    key?: string;
+    stored_url?: string;
+    etag?: string;
+};
+export type RawNormalizationInfo = {
+    schema_version: "v1";
+    normalizer_version: string;
+    input_hash: string;
+    created_at: string;
+    warnings: string[];
+};
+export type NormalizedRawEnvelope = {
+    xml: string;
+    size_bytes: number;
+    hash_sha256: string;
+    content_type: string;
+    encoding: string;
+    source?: RawSourceInfo;
+    storage?: RawStorageInfo;
+    normalization: RawNormalizationInfo;
+};
+export type NormalizedDocEnvelope = {
+    data: NormalizedDoc;
+    raw: NormalizedRawEnvelope;
+};
+export type BuildOptions = {
+    contentType?: string;
+    encoding?: BufferEncoding;
+    source?: RawSourceInfo;
+    storage?: RawStorageInfo;
+    normalizerVersion?: string;
+    nowIso?: string;
+};
+export type RichTexts = {
+    text: string[];
+    xml?: string[];
+    xml_minimal?: string[];
+    title?: string;
+};
+export type LicenseCandidate = {
+    type?: string;
+    href?: string;
+    text?: string;
+    score: number;
+};
+export type FlatParagraph = {
+    kind: "paragraph";
+    plain_text: string;
+    raw_xml?: string;
+    minimal_xml?: string;
+} & FlatMeta;
+export type V2FigureBlock = {
+    kind: "figure";
+    id?: string;
+    label?: string;
+    title?: string;
+    caption?: {
+        paragraphs?: string[];
+        xml?: string[];
+        xml_minimal?: string[];
+    };
+    link?: {
+        xml?: string;
+        image_large_jpg?: string;
+    };
+};
+export type V2TableBlock = {
+    kind: "table";
+    id?: string;
+    label?: string;
+    title?: string;
+    caption?: {
+        paragraphs?: string[];
+        xml?: string[];
+        xml_minimal?: string[];
+    };
+    link?: {
+        xml?: string;
+        image_medium_gif?: string;
+    };
+};
+export type FlatFigure = V2FigureBlock & FlatMeta;
+export type FlatTable = V2TableBlock & FlatMeta;
+export type FlatBlock = FlatParagraph | FlatFigure | FlatTable;
+export type FlatMeta = {
+    block_id: string;
+    order?: number;
+    index_in_section?: number;
+    section_id?: string;
+    path_anchor?: string;
+};
+//# sourceMappingURL=types.d.ts.map

package/dist/normalization/jats/utils/types.d.ts.map

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package/dist/normalization/jats/utils/types.js

@@ -0,0 +1,2 @@
+export {};
+//# sourceMappingURL=types.js.map

package/dist/normalization/jats/utils/types.js.map

@@ -0,0 +1 @@
+{"version":3,"file":"types.js","sourceRoot":"","sources":["../../../../src/normalization/jats/utils/types.ts"],"names":[],"mappings":""}

package/dist/normalization/jats/utils/xml.d.ts

@@ -0,0 +1,5 @@
+export declare function getText(node: any): string | undefined;
+export declare function nsArray(obj: any, local: string): any[];
+export declare function getBodyNode(article: any): any;
+export declare function pickNs(obj: any, local: string): any | undefined;
+//# sourceMappingURL=xml.d.ts.map

package/dist/normalization/jats/utils/xml.d.ts.map

@@ -0,0 +1 @@
+{"version":3,"file":"xml.d.ts","sourceRoot":"","sources":["../../../../src/normalization/jats/utils/xml.ts"],"names":[],"mappings":"AAEA,wBAAgB,OAAO,CAAC,IAAI,EAAE,GAAG,GAAG,MAAM,GAAG,SAAS,CA6BrD;AAGD,wBAAgB,OAAO,CAAC,GAAG,EAAE,GAAG,EAAE,KAAK,EAAE,MAAM,GAAG,GAAG,EAAE,CAWtD;AAED,wBAAgB,WAAW,CAAC,OAAO,EAAE,GAAG,GAAG,GAAG,CAM7C;AAGD,wBAAgB,MAAM,CAAC,GAAG,EAAE,GAAG,EAAE,KAAK,EAAE,MAAM,GAAG,GAAG,GAAG,SAAS,CAM/D"}

package/dist/normalization/jats/utils/xml.js

@@ -0,0 +1,69 @@
+import { decodeEntities } from "./strings";
+export function getText(node) {
+    // Collect text deeply from mixed-content nodes, preserving natural order as best as possible
+    // in object-mode (non-preserveOrder). We avoid forcing "#text" ahead of other keys, because
+    // that can flip inline content ordering (e.g., moving trailing text to the front).
+    const parts = [];
+    const visit = (n) => {
+        if (n == null)
+            return;
+        if (typeof n === "string" || typeof n === "number") {
+            const s = String(n);
+            if (s.trim().length > 0)
+                parts.push(s.trim());
+            return;
+        }
+        if (Array.isArray(n)) {
+            for (const it of n)
+                visit(it);
+            return;
+        }
+        if (typeof n === "object") {
+            // Iterate keys in insertion order, skipping attribute keys
+            for (const k of Object.keys(n)) {
+                if (k.startsWith("@_"))
+                    continue;
+                visit(n[k]);
+            }
+            return;
+        }
+    };
+    visit(node);
+    if (parts.length === 0)
+        return undefined;
+    const joined = parts.join(" ").replace(/\s+/g, " ").trim();
+    return decodeEntities(joined);
+}
+// Collects values from object properties that match a local-name (exact or namespaced key like "jats:sec").
+export function nsArray(obj, local) {
+    if (!obj || typeof obj !== "object")
+        return [];
+    const out = [];
+    for (const k of Object.keys(obj)) {
+        if (k === local || k.toLowerCase().endsWith(`:${local}`)) {
+            const v = obj[k];
+            if (Array.isArray(v))
+                out.push(...v);
+            else
+                out.push(v);
+        }
+    }
+    return out;
+}
+export function getBodyNode(article) {
+    if (!article || typeof article !== "object")
+        return {};
+    const direct = (k) => article?.[k];
+    let b = direct("body") || direct("article-body") || pickNs(article, "body");
+    if (Array.isArray(b))
+        b = b[0];
+    return b || {};
+}
+// Find a property whose key ends with ":<local>" (e.g., "jats:body")
+export function pickNs(obj, local) {
+    if (!obj || typeof obj !== "object")
+        return undefined;
+    const key = Object.keys(obj).find((k) => k === local || k.toLowerCase().endsWith(`:${local}`));
+    return key ? obj[key] : undefined;
+}
+//# sourceMappingURL=xml.js.map

package/dist/normalization/jats/utils/xml.js.map

@@ -0,0 +1 @@
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