@manuscripts/transform 4.5.0 → 4.5.1

package/README.md

@@ -4,7 +4,7 @@ ProseMirror transformer for Manuscripts applications.
 
 It provides a way to import/export [Manuscript JSON Schema](https://gitlab.com/mpapp-public/manuscripts-json-schema) formatted data from and to other formats such as (JATS XML, STS XML, HTML, [ProseMirror Model](https://prosemirror.net/docs/guide/#doc))
 
-# Components
+# Components 
 
 **Decoder**: converts Manuscript JSON Schema to ProseMirror Model. 
 

package/dist/cjs/jats/exporter/jats-exporter.js

@@ -115,6 +115,8 @@ const chooseRefType = (type) => {
         case schema_1.schema.nodes.equation:
         case schema_1.schema.nodes.equation_element:
             return 'disp-formula';
+        case schema_1.schema.nodes.supplement:
+            return 'supplementary-material';
     }
 };
 const sortContributors = (a, b) => Number(a.attrs.priority) - Number(b.attrs.priority);

package/dist/cjs/jats/exporter/labels.js

@@ -26,7 +26,9 @@ const labelledNodeTypes = [
     schema_1.schema.nodes.box_element,
     schema_1.schema.nodes.embed,
     schema_1.schema.nodes.image_element,
+    schema_1.schema.nodes.supplement,
 ];
+const noLabelTypes = new Set([schema_1.schema.nodes.supplement.name]);
 const excludedTypes = [
     schema_1.schema.nodes.graphical_abstract_section,
     schema_1.schema.nodes.trans_graphical_abstract,
@@ -43,6 +45,9 @@ const buildTargets = (iterator) => {
         };
     }
     const buildLabel = (type) => {
+        if (noLabelTypes.has(type.name)) {
+            return '';
+        }
         const counter = counters[type.name];
         counter.index++;
         return `${counter.label} ${counter.index}`;
@@ -64,7 +69,9 @@ const buildTargets = (iterator) => {
                 type: node.type.name,
                 id: node.attrs.id,
                 label,
-                caption: node.textContent?.trim(),
+                caption: node.textBetween(0, node.content.size, ' ').trim(),
+                ...(node.attrs.href && { href: node.attrs.href }),
+                ...(node.attrs.extLink && { href: node.attrs.extLink }),
             });
         }
     });

package/dist/cjs/jats/importer/jats-dom-parser.js

@@ -628,7 +628,7 @@ class JATSDOMParser {
                         if (altText.childNodes.length === 0) {
                             const title = caption?.querySelector(':scope > title');
                             if (title) {
-                                altText.append(...Array.from(title.childNodes).map(n => n.cloneNode(true)));
+                                altText.append(...Array.from(title.childNodes).map((n) => n.cloneNode(true)));
                             }
                         }
                         wrapper.appendChild(altText);
@@ -639,7 +639,7 @@ class JATSDOMParser {
                     return this.parse(wrapper, {
                         topNode: this.schema.nodes.headshot_element.create(),
                     }).content;
-                }
+                },
             },
             {
                 tag: 'graphic[specific-use=MISSING]',

package/dist/cjs/schema/migration/migration-scripts/4.3.35.js

@@ -10,9 +10,7 @@ class Migration4335 {
             node.type === 'blockquote_element') {
             return {
                 ...node,
-                content: (node.content ?? []).map((child) => child.type === 'paragraph'
-                    ? { ...child, type: 'text_block' }
-                    : child),
+                content: (node.content ?? []).map((child) => child.type === 'paragraph' ? { ...child, type: 'text_block' } : child),
             };
         }
         return node;

package/dist/cjs/schema/migration/migration-scripts/4.4.7.js

@@ -0,0 +1,26 @@
+"use strict";
+Object.defineProperty(exports, "__esModule", { value: true });
+const transformer_1 = require("../../../transformer");
+const index_1 = require("../../index");
+class Migration447 {
+    constructor() {
+        this.fromVersion = '4.4.6';
+        this.toVersion = '4.4.7';
+    }
+    migrateNode(node) {
+        if (node.type !== 'cross_reference') {
+            return node;
+        }
+        if (node.attrs?.id) {
+            return node;
+        }
+        return {
+            ...node,
+            attrs: {
+                ...(node.attrs ?? {}),
+                id: (0, transformer_1.generateNodeID)(index_1.schema.nodes.cross_reference),
+            },
+        };
+    }
+}
+exports.default = Migration447;

package/dist/cjs/schema/migration/migration-scripts/index.js

@@ -33,6 +33,7 @@ const _4_3_23_1 = __importDefault(require("./4.3.23"));
 const _4_3_34_1 = __importDefault(require("./4.3.34"));
 const _4_3_35_1 = __importDefault(require("./4.3.35"));
 const _4_4_2_1 = __importDefault(require("./4.4.2"));
+const _4_4_7_1 = __importDefault(require("./4.4.7"));
 const migrations = [
     new _1_2_5_1.default(),
     new _2_3_22_1.default(),
@@ -49,5 +50,6 @@ const migrations = [
     new _4_3_34_1.default(),
     new _4_3_35_1.default(),
     new _4_4_2_1.default(),
+    new _4_4_7_1.default(),
 ];
 exports.default = migrations;

package/dist/cjs/schema/nodes/cross_reference.js

@@ -22,6 +22,7 @@ exports.crossReference = {
     draggable: true,
     atom: true,
     attrs: {
+        id: { default: '' },
         rids: { default: [] },
         label: { default: '' },
         dataTracked: { default: null },
@@ -32,6 +33,7 @@ exports.crossReference = {
             getAttrs: (p) => {
                 const dom = p;
                 return {
+                    id: dom.getAttribute('data-id'),
                     rids: dom.getAttribute('data-reference-id')?.split(/\s+/) || [],
                 };
             },
@@ -43,6 +45,7 @@ exports.crossReference = {
             'span',
             {
                 class: 'cross-reference',
+                'data-id': crossReferenceNode.attrs.id,
                 'data-reference-id': crossReferenceNode.attrs.rids.join(' '),
             },
             crossReferenceNode.attrs.label,

package/dist/cjs/version.js

@@ -1,4 +1,4 @@
 "use strict";
 Object.defineProperty(exports, "__esModule", { value: true });
 exports.VERSION = void 0;
-exports.VERSION = "4.5.0";
+exports.VERSION = "4.5.1";

package/dist/es/jats/exporter/jats-exporter.js

@@ -75,6 +75,8 @@ const chooseRefType = (type) => {
         case schema.nodes.equation:
         case schema.nodes.equation_element:
             return 'disp-formula';
+        case schema.nodes.supplement:
+            return 'supplementary-material';
     }
 };
 const sortContributors = (a, b) => Number(a.attrs.priority) - Number(b.attrs.priority);

package/dist/es/jats/exporter/labels.js

@@ -23,7 +23,9 @@ const labelledNodeTypes = [
     schema.nodes.box_element,
     schema.nodes.embed,
     schema.nodes.image_element,
+    schema.nodes.supplement,
 ];
+const noLabelTypes = new Set([schema.nodes.supplement.name]);
 const excludedTypes = [
     schema.nodes.graphical_abstract_section,
     schema.nodes.trans_graphical_abstract,
@@ -40,6 +42,9 @@ export const buildTargets = (iterator) => {
         };
     }
     const buildLabel = (type) => {
+        if (noLabelTypes.has(type.name)) {
+            return '';
+        }
         const counter = counters[type.name];
         counter.index++;
         return `${counter.label} ${counter.index}`;
@@ -61,7 +66,9 @@ export const buildTargets = (iterator) => {
                 type: node.type.name,
                 id: node.attrs.id,
                 label,
-                caption: node.textContent?.trim(),
+                caption: node.textBetween(0, node.content.size, ' ').trim(),
+                ...(node.attrs.href && { href: node.attrs.href }),
+                ...(node.attrs.extLink && { href: node.attrs.extLink }),
             });
         }
     });

package/dist/es/jats/importer/jats-dom-parser.js

@@ -625,7 +625,7 @@ export class JATSDOMParser {
                         if (altText.childNodes.length === 0) {
                             const title = caption?.querySelector(':scope > title');
                             if (title) {
-                                altText.append(...Array.from(title.childNodes).map(n => n.cloneNode(true)));
+                                altText.append(...Array.from(title.childNodes).map((n) => n.cloneNode(true)));
                             }
                         }
                         wrapper.appendChild(altText);
@@ -636,7 +636,7 @@ export class JATSDOMParser {
                     return this.parse(wrapper, {
                         topNode: this.schema.nodes.headshot_element.create(),
                     }).content;
-                }
+                },
             },
             {
                 tag: 'graphic[specific-use=MISSING]',

package/dist/es/schema/migration/migration-scripts/4.3.35.js

@@ -8,9 +8,7 @@ class Migration4335 {
             node.type === 'blockquote_element') {
             return {
                 ...node,
-                content: (node.content ?? []).map((child) => child.type === 'paragraph'
-                    ? { ...child, type: 'text_block' }
-                    : child),
+                content: (node.content ?? []).map((child) => child.type === 'paragraph' ? { ...child, type: 'text_block' } : child),
             };
         }
         return node;

package/dist/es/schema/migration/migration-scripts/4.4.7.js

@@ -0,0 +1,24 @@
+import { generateNodeID } from '../../../transformer';
+import { schema } from '../../index';
+class Migration447 {
+    constructor() {
+        this.fromVersion = '4.4.6';
+        this.toVersion = '4.4.7';
+    }
+    migrateNode(node) {
+        if (node.type !== 'cross_reference') {
+            return node;
+        }
+        if (node.attrs?.id) {
+            return node;
+        }
+        return {
+            ...node,
+            attrs: {
+                ...(node.attrs ?? {}),
+                id: generateNodeID(schema.nodes.cross_reference),
+            },
+        };
+    }
+}
+export default Migration447;

package/dist/es/schema/migration/migration-scripts/index.js

@@ -28,6 +28,7 @@ import Migration4323 from './4.3.23';
 import Migration4334 from './4.3.34';
 import Migration4335 from './4.3.35';
 import Migration442 from './4.4.2';
+import Migration447 from './4.4.7';
 const migrations = [
     new Migration125(),
     new Migration2322(),
@@ -44,5 +45,6 @@ const migrations = [
     new Migration4334(),
     new Migration4335(),
     new Migration442(),
+    new Migration447(),
 ];
 export default migrations;

package/dist/es/schema/nodes/cross_reference.js

@@ -19,6 +19,7 @@ export const crossReference = {
     draggable: true,
     atom: true,
     attrs: {
+        id: { default: '' },
         rids: { default: [] },
         label: { default: '' },
         dataTracked: { default: null },
@@ -29,6 +30,7 @@ export const crossReference = {
             getAttrs: (p) => {
                 const dom = p;
                 return {
+                    id: dom.getAttribute('data-id'),
                     rids: dom.getAttribute('data-reference-id')?.split(/\s+/) || [],
                 };
             },
@@ -40,6 +42,7 @@ export const crossReference = {
             'span',
             {
                 class: 'cross-reference',
+                'data-id': crossReferenceNode.attrs.id,
                 'data-reference-id': crossReferenceNode.attrs.rids.join(' '),
             },
             crossReferenceNode.attrs.label,

package/dist/es/version.js

@@ -1 +1 @@
-export const VERSION = "4.5.0";
+export const VERSION = "4.5.1";

package/dist/types/jats/exporter/labels.d.ts

@@ -19,6 +19,7 @@ export interface Target {
     id: string;
     label: string;
     caption: string;
+    href?: string;
 }
 type iterator = (node: ManuscriptNode, pos: number, parent: ManuscriptNode | null, index: number) => void | boolean;
 export declare const buildTargets: (iterator: (fn: iterator) => void) => Map<string, Target>;

package/dist/types/schema/migration/migration-scripts/4.4.7.d.ts

@@ -0,0 +1,8 @@
+import { JSONProsemirrorNode } from '../../../types';
+import { MigrationScript } from '../migration-script';
+declare class Migration447 implements MigrationScript {
+    fromVersion: string;
+    toVersion: string;
+    migrateNode(node: JSONProsemirrorNode): JSONProsemirrorNode;
+}
+export default Migration447;

package/dist/types/schema/migration/migration-scripts/index.d.ts

@@ -28,5 +28,6 @@ import Migration4323 from './4.3.23';
 import Migration4334 from './4.3.34';
 import Migration4335 from './4.3.35';
 import Migration442 from './4.4.2';
-declare const migrations: (Migration125 | Migration2322 | Migration3012 | Migration3021 | Migration3030 | Migration3031 | Migration3041 | Migration3055 | Migration3056 | Migration4213 | Migration4215 | Migration4323 | Migration4334 | Migration4335 | Migration442)[];
+import Migration447 from './4.4.7';
+declare const migrations: (Migration125 | Migration2322 | Migration3012 | Migration3021 | Migration3030 | Migration3031 | Migration3041 | Migration3055 | Migration3056 | Migration4213 | Migration4215 | Migration4323 | Migration4334 | Migration4335 | Migration442 | Migration447)[];
 export default migrations;

package/dist/types/schema/nodes/cross_reference.d.ts

@@ -16,6 +16,7 @@
 import { NodeSpec } from 'prosemirror-model';
 import { ManuscriptNode } from '../types';
 interface Attrs {
+    id: string;
     rids: string[];
     label: string;
 }

package/dist/types/version.d.ts

@@ -1 +1 @@
-export declare const VERSION = "4.5.0";
+export declare const VERSION = "4.5.1";

package/package.json

@@ -1,7 +1,7 @@
 {
   "name": "@manuscripts/transform",
   "description": "ProseMirror transformer for Manuscripts applications",
-  "version": "4.5.0",
+  "version": "4.5.1",
   "repository": "github:Atypon-OpenSource/manuscripts-transform",
   "license": "Apache-2.0",
   "main": "dist/cjs",

package/src/jats/__tests__/__snapshots__/jats-importer.test.ts.snap

@@ -5395,6 +5395,7 @@ Object {
                     Object {
                       "attrs": Object {
                         "dataTracked": null,
+                        "id": "MPCrossReference:test",
                         "label": "",
                         "rids": Array [
                           "MPTableElement:test",
@@ -5425,6 +5426,7 @@ Object {
                     Object {
                       "attrs": Object {
                         "dataTracked": null,
+                        "id": "MPCrossReference:test",
                         "label": "",
                         "rids": Array [
                           "MPTableElement:test",
@@ -5439,6 +5441,7 @@ Object {
                     Object {
                       "attrs": Object {
                         "dataTracked": null,
+                        "id": "MPCrossReference:test",
                         "label": "",
                         "rids": Array [
                           "MPTableElement:test",
@@ -17948,6 +17951,7 @@ Object {
                     Object {
                       "attrs": Object {
                         "dataTracked": null,
+                        "id": "MPCrossReference:test",
                         "label": "",
                         "rids": Array [
                           "MPTableElement:test",
@@ -18030,6 +18034,7 @@ Object {
                     Object {
                       "attrs": Object {
                         "dataTracked": null,
+                        "id": "MPCrossReference:test",
                         "label": "",
                         "rids": Array [
                           "MPFigureElement:test",
@@ -18242,6 +18247,7 @@ Object {
                     Object {
                       "attrs": Object {
                         "dataTracked": null,
+                        "id": "MPCrossReference:test",
                         "label": "",
                         "rids": Array [
                           "MPFigureElement:test",
@@ -18434,6 +18440,7 @@ Object {
                     Object {
                       "attrs": Object {
                         "dataTracked": null,
+                        "id": "MPCrossReference:test",
                         "label": "",
                         "rids": Array [
                           "MPTableElement:test",
@@ -18484,6 +18491,7 @@ Object {
                     Object {
                       "attrs": Object {
                         "dataTracked": null,
+                        "id": "MPCrossReference:test",
                         "label": "",
                         "rids": Array [
                           "MPTableElement:test",
@@ -18534,6 +18542,7 @@ Object {
                     Object {
                       "attrs": Object {
                         "dataTracked": null,
+                        "id": "MPCrossReference:test",
                         "label": "",
                         "rids": Array [
                           "MPTableElement:test",
@@ -18548,6 +18557,7 @@ Object {
                     Object {
                       "attrs": Object {
                         "dataTracked": null,
+                        "id": "MPCrossReference:test",
                         "label": "",
                         "rids": Array [
                           "MPTableElement:test",
@@ -18630,6 +18640,7 @@ Object {
                     Object {
                       "attrs": Object {
                         "dataTracked": null,
+                        "id": "MPCrossReference:test",
                         "label": "",
                         "rids": Array [
                           "MPFigureElement:test",
@@ -18644,6 +18655,7 @@ Object {
                     Object {
                       "attrs": Object {
                         "dataTracked": null,
+                        "id": "MPCrossReference:test",
                         "label": "",
                         "rids": Array [
                           "MPFigureElement:test",
@@ -18709,6 +18721,7 @@ Object {
                     Object {
                       "attrs": Object {
                         "dataTracked": null,
+                        "id": "MPCrossReference:test",
                         "label": "",
                         "rids": Array [
                           "MPFigureElement:test",
@@ -18831,6 +18844,7 @@ Object {
                     Object {
                       "attrs": Object {
                         "dataTracked": null,
+                        "id": "MPCrossReference:test",
                         "label": "",
                         "rids": Array [
                           "MPTableElement:test",
@@ -18933,6 +18947,7 @@ Object {
                     Object {
                       "attrs": Object {
                         "dataTracked": null,
+                        "id": "MPCrossReference:test",
                         "label": "",
                         "rids": Array [
                           "MPFigureElement:test",
@@ -23345,6 +23360,7 @@ Object {
                 Object {
                   "attrs": Object {
                     "dataTracked": null,
+                    "id": "MPCrossReference:test",
                     "label": "",
                     "rids": Array [
                       "MPFigureElement:test",
@@ -23359,6 +23375,7 @@ Object {
                 Object {
                   "attrs": Object {
                     "dataTracked": null,
+                    "id": "MPCrossReference:test",
                     "label": "",
                     "rids": Array [
                       "MPTableElement:test",
@@ -27220,6 +27237,7 @@ Object {
                 Object {
                   "attrs": Object {
                     "dataTracked": null,
+                    "id": "MPCrossReference:test",
                     "label": "",
                     "rids": Array [
                       "MPFigureElement:test",
@@ -27375,6 +27393,7 @@ Object {
                     Object {
                       "attrs": Object {
                         "dataTracked": null,
+                        "id": "MPCrossReference:test",
                         "label": "",
                         "rids": Array [
                           "MPFigureElement:test",
@@ -27669,6 +27688,7 @@ Object {
                     Object {
                       "attrs": Object {
                         "dataTracked": null,
+                        "id": "MPCrossReference:test",
                         "label": "",
                         "rids": Array [
                           "MPTableElement:test",
@@ -31338,6 +31358,7 @@ Object {
                                     Object {
                                       "attrs": Object {
                                         "dataTracked": null,
+                                        "id": "MPCrossReference:test",
                                         "label": "",
                                         "rids": Array [
                                           "eq1",
@@ -31352,6 +31373,7 @@ Object {
                                     Object {
                                       "attrs": Object {
                                         "dataTracked": null,
+                                        "id": "MPCrossReference:test",
                                         "label": "",
                                         "rids": Array [
                                           "MPFigureElement:test",
@@ -31687,6 +31709,7 @@ Object {
                 Object {
                   "attrs": Object {
                     "dataTracked": null,
+                    "id": "MPCrossReference:test",
                     "label": "",
                     "rids": Array [
                       "MPBoxElement:test",
@@ -31701,6 +31724,7 @@ Object {
                 Object {
                   "attrs": Object {
                     "dataTracked": null,
+                    "id": "MPCrossReference:test",
                     "label": "",
                     "rids": Array [
                       "appA",
@@ -31835,6 +31859,7 @@ Object {
                 Object {
                   "attrs": Object {
                     "dataTracked": null,
+                    "id": "MPCrossReference:test",
                     "label": "",
                     "rids": Array [
                       "tbl1",
@@ -35119,6 +35144,7 @@ Object {
                 Object {
                   "attrs": Object {
                     "dataTracked": null,
+                    "id": "MPCrossReference:test",
                     "label": "",
                     "rids": Array [
                       "MPFigureElement:test",
@@ -35133,6 +35159,7 @@ Object {
                 Object {
                   "attrs": Object {
                     "dataTracked": null,
+                    "id": "MPCrossReference:test",
                     "label": "",
                     "rids": Array [
                       "MPTableElement:test",
@@ -39018,6 +39045,7 @@ Object {
                 Object {
                   "attrs": Object {
                     "dataTracked": null,
+                    "id": "MPCrossReference:test",
                     "label": "",
                     "rids": Array [
                       "MPFigureElement:test",
@@ -39173,6 +39201,7 @@ Object {
                     Object {
                       "attrs": Object {
                         "dataTracked": null,
+                        "id": "MPCrossReference:test",
                         "label": "",
                         "rids": Array [
                           "MPFigureElement:test",
@@ -39467,6 +39496,7 @@ Object {
                     Object {
                       "attrs": Object {
                         "dataTracked": null,
+                        "id": "MPCrossReference:test",
                         "label": "",
                         "rids": Array [
                           "MPTableElement:test",
@@ -45212,6 +45242,7 @@ Object {
                 Object {
                   "attrs": Object {
                     "dataTracked": null,
+                    "id": "MPCrossReference:test",
                     "label": "",
                     "rids": Array [
                       "MPFigureElement:test",
@@ -46995,6 +47026,7 @@ Object {
                     Object {
                       "attrs": Object {
                         "dataTracked": null,
+                        "id": "MPCrossReference:test",
                         "label": "",
                         "rids": Array [
                           "MPTableElement:test",
@@ -51381,6 +51413,7 @@ Object {
                     Object {
                       "attrs": Object {
                         "dataTracked": null,
+                        "id": "MPCrossReference:test",
                         "label": "",
                         "rids": Array [
                           "MPTableElement:test",
@@ -51552,6 +51585,7 @@ Object {
                 Object {
                   "attrs": Object {
                     "dataTracked": null,
+                    "id": "MPCrossReference:test",
                     "label": "",
                     "rids": Array [
                       "MPEquationElement:test",
@@ -51820,6 +51854,7 @@ Object {
                     Object {
                       "attrs": Object {
                         "dataTracked": null,
+                        "id": "MPCrossReference:test",
                         "label": "",
                         "rids": Array [
                           "MPEquationElement:test",
@@ -51834,6 +51869,7 @@ Object {
                     Object {
                       "attrs": Object {
                         "dataTracked": null,
+                        "id": "MPCrossReference:test",
                         "label": "",
                         "rids": Array [
                           "MPEquationElement:test",
@@ -51848,6 +51884,7 @@ Object {
                     Object {
                       "attrs": Object {
                         "dataTracked": null,
+                        "id": "MPCrossReference:test",
                         "label": "",
                         "rids": Array [
                           "MPFigureElement:test",
@@ -52104,6 +52141,7 @@ Object {
                             Object {
                               "attrs": Object {
                                 "dataTracked": null,
+                                "id": "MPCrossReference:test",
                                 "label": "",
                                 "rids": Array [
                                   "MPTableElement:test",
@@ -52274,6 +52312,7 @@ Object {
                     Object {
                       "attrs": Object {
                         "dataTracked": null,
+                        "id": "MPCrossReference:test",
                         "label": "",
                         "rids": Array [
                           "MPFigureElement:test",
@@ -52288,6 +52327,7 @@ Object {
                     Object {
                       "attrs": Object {
                         "dataTracked": null,
+                        "id": "MPCrossReference:test",
                         "label": "",
                         "rids": Array [
                           "MPFigureElement:test",
@@ -52316,6 +52356,7 @@ Object {
                     Object {
                       "attrs": Object {
                         "dataTracked": null,
+                        "id": "MPCrossReference:test",
                         "label": "",
                         "rids": Array [
                           "MPEquationElement:test",
@@ -52330,6 +52371,7 @@ Object {
                     Object {
                       "attrs": Object {
                         "dataTracked": null,
+                        "id": "MPCrossReference:test",
                         "label": "",
                         "rids": Array [
                           "MPEquationElement:test",
@@ -52359,6 +52401,7 @@ Object {
                     Object {
                       "attrs": Object {
                         "dataTracked": null,
+                        "id": "MPCrossReference:test",
                         "label": "",
                         "rids": Array [
                           "MPFigureElement:test",
@@ -52630,6 +52673,7 @@ Object {
                             Object {
                               "attrs": Object {
                                 "dataTracked": null,
+                                "id": "MPCrossReference:test",
                                 "label": "",
                                 "rids": Array [
                                   "MPTableElement:test",
@@ -52815,6 +52859,7 @@ Object {
                     Object {
                       "attrs": Object {
                         "dataTracked": null,
+                        "id": "MPCrossReference:test",
                         "label": "",
                         "rids": Array [
                           "MPFigureElement:test",
@@ -52829,6 +52874,7 @@ Object {
                     Object {
                       "attrs": Object {
                         "dataTracked": null,
+                        "id": "MPCrossReference:test",
                         "label": "",
                         "rids": Array [
                           "MPFigureElement:test",
@@ -52887,6 +52933,7 @@ Object {
                     Object {
                       "attrs": Object {
                         "dataTracked": null,
+                        "id": "MPCrossReference:test",
                         "label": "",
                         "rids": Array [
                           "MPEquationElement:test",
@@ -52901,6 +52948,7 @@ Object {
                     Object {
                       "attrs": Object {
                         "dataTracked": null,
+                        "id": "MPCrossReference:test",
                         "label": "",
                         "rids": Array [
                           "MPEquationElement:test",
@@ -52915,6 +52963,7 @@ Object {
                     Object {
                       "attrs": Object {
                         "dataTracked": null,
+                        "id": "MPCrossReference:test",
                         "label": "",
                         "rids": Array [
                           "MPFigureElement:test",
@@ -53205,6 +53254,7 @@ Object {
                             Object {
                               "attrs": Object {
                                 "dataTracked": null,
+                                "id": "MPCrossReference:test",
                                 "label": "",
                                 "rids": Array [
                                   "MPTableElement:test",
@@ -53431,6 +53481,7 @@ Object {
                     Object {
                       "attrs": Object {
                         "dataTracked": null,
+                        "id": "MPCrossReference:test",
                         "label": "",
                         "rids": Array [
                           "MPFigureElement:test",
@@ -53459,6 +53510,7 @@ Object {
                     Object {
                       "attrs": Object {
                         "dataTracked": null,
+                        "id": "MPCrossReference:test",
                         "label": "",
                         "rids": Array [
                           "MPFigureElement:test",
@@ -53473,6 +53525,7 @@ Object {
                     Object {
                       "attrs": Object {
                         "dataTracked": null,
+                        "id": "MPCrossReference:test",
                         "label": "",
                         "rids": Array [
                           "MPFigureElement:test",
@@ -53551,6 +53604,7 @@ Object {
                     Object {
                       "attrs": Object {
                         "dataTracked": null,
+                        "id": "MPCrossReference:test",
                         "label": "",
                         "rids": Array [
                           "MPEquationElement:test",
@@ -53565,6 +53619,7 @@ Object {
                     Object {
                       "attrs": Object {
                         "dataTracked": null,
+                        "id": "MPCrossReference:test",
                         "label": "",
                         "rids": Array [
                           "MPFigureElement:test",
@@ -53788,6 +53843,7 @@ Object {
                             Object {
                               "attrs": Object {
                                 "dataTracked": null,
+                                "id": "MPCrossReference:test",
                                 "label": "",
                                 "rids": Array [
                                   "MPTableElement:test",
@@ -53958,6 +54014,7 @@ Object {
                     Object {
                       "attrs": Object {
                         "dataTracked": null,
+                        "id": "MPCrossReference:test",
                         "label": "",
                         "rids": Array [
                           "MPEquationElement:test",
@@ -53972,6 +54029,7 @@ Object {
                     Object {
                       "attrs": Object {
                         "dataTracked": null,
+                        "id": "MPCrossReference:test",
                         "label": "",
                         "rids": Array [
                           "MPFigureElement:test",
@@ -54195,6 +54253,7 @@ Object {
                             Object {
                               "attrs": Object {
                                 "dataTracked": null,
+                                "id": "MPCrossReference:test",
                                 "label": "",
                                 "rids": Array [
                                   "MPTableElement:test",
@@ -54459,6 +54518,7 @@ Object {
                     Object {
                       "attrs": Object {
                         "dataTracked": null,
+                        "id": "MPCrossReference:test",
                         "label": "",
                         "rids": Array [
                           "MPEquationElement:test",
@@ -54473,6 +54533,7 @@ Object {
                     Object {
                       "attrs": Object {
                         "dataTracked": null,
+                        "id": "MPCrossReference:test",
                         "label": "",
                         "rids": Array [
                           "MPFigureElement:test",
@@ -54696,6 +54757,7 @@ Object {
                             Object {
                               "attrs": Object {
                                 "dataTracked": null,
+                                "id": "MPCrossReference:test",
                                 "label": "",
                                 "rids": Array [
                                   "MPTableElement:test",
@@ -54917,6 +54979,7 @@ Object {
                 Object {
                   "attrs": Object {
                     "dataTracked": null,
+                    "id": "MPCrossReference:test",
                     "label": "",
                     "rids": Array [
                       "MPFigureElement:test",
@@ -55140,6 +55203,7 @@ Object {
                         Object {
                           "attrs": Object {
                             "dataTracked": null,
+                            "id": "MPCrossReference:test",
                             "label": "",
                             "rids": Array [
                               "MPTableElement:test",

package/src/jats/exporter/jats-exporter.ts

@@ -134,6 +134,9 @@ const chooseRefType = (type: ManuscriptNodeType): string | undefined => {
     case schema.nodes.equation:
     case schema.nodes.equation_element:
       return 'disp-formula'
+
+    case schema.nodes.supplement:
+      return 'supplementary-material'
   }
 }
 
@@ -711,7 +714,7 @@ export class JATSExporter {
         return ['trans-abstract', attrs, 0]
       },
       hero_image: () => '',
-      headshot_grid: () => ['p', { 'content-type': 'headshots'}, 0],
+      headshot_grid: () => ['p', { 'content-type': 'headshots' }, 0],
       headshot_element: (node) => createImage(node),
       headshot_image: () => '',
       alt_text: (node) => {

package/src/jats/exporter/labels.ts

@@ -22,6 +22,7 @@ export interface Target {
   id: string
   label: string
   caption: string
+  href?: string
 }
 
 interface Counter {
@@ -41,8 +42,11 @@ const labelledNodeTypes: ManuscriptNodeType[] = [
   schema.nodes.box_element,
   schema.nodes.embed,
   schema.nodes.image_element,
+  schema.nodes.supplement,
 ]
 
+const noLabelTypes = new Set([schema.nodes.supplement.name])
+
 const excludedTypes = [
   schema.nodes.graphical_abstract_section,
   schema.nodes.trans_graphical_abstract,
@@ -72,6 +76,9 @@ export const buildTargets = (
   }
 
   const buildLabel = (type: ManuscriptNodeType) => {
+    if (noLabelTypes.has(type.name)) {
+      return ''
+    }
     const counter = counters[type.name]
     counter.index++
     return `${counter.label} ${counter.index}`
@@ -91,12 +98,13 @@ export const buildTargets = (
         }
       }
       const label = buildLabel(node.type)
-
       targets.set(node.attrs.id, {
         type: node.type.name,
         id: node.attrs.id,
         label,
-        caption: node.textContent?.trim(), // TODO: HTML?
+        caption: node.textBetween(0, node.content.size, ' ').trim(),
+        ...(node.attrs.href && { href: node.attrs.href }),
+        ...(node.attrs.extLink && { href: node.attrs.extLink }),
       })
     }
   })

package/src/jats/importer/jats-dom-parser.ts

@@ -816,7 +816,9 @@ export class JATSDOMParser {
             // fill empty alt-text with `caption > title` content
             const title = caption?.querySelector(':scope > title')
             if (title) {
-              altText.append(...Array.from(title.childNodes).map(n => n.cloneNode(true)))
+              altText.append(
+                ...Array.from(title.childNodes).map((n) => n.cloneNode(true))
+              )
             }
           }
           wrapper.appendChild(altText)
@@ -828,7 +830,7 @@ export class JATSDOMParser {
         return this.parse(wrapper, {
           topNode: this.schema.nodes.headshot_element.create(),
         }).content
-      }
+      },
     },
     {
       tag: 'graphic[specific-use=MISSING]',

package/src/schema/index.ts

@@ -292,4 +292,3 @@ export const schema = new Schema<Nodes, Marks>({
     subtitles: subtitles,
   },
 })
-

package/src/schema/migration/migration-scripts/4.3.34.ts

@@ -83,7 +83,8 @@ class Migration4334 implements MigrationScript {
       (n) => n.type === 'caption_title'
     )
     const captionNodes = (figCaption?.content || []).filter(
-      (node) => node.type === 'caption')
+      (node) => node.type === 'caption'
+    )
     const foundCaption = getCaptionNode(
       captionNodes,
       config.caption === 'required'

package/src/schema/migration/migration-scripts/4.3.35.ts

@@ -28,9 +28,7 @@ class Migration4335 implements MigrationScript {
       return {
         ...node,
         content: (node.content ?? []).map((child) =>
-          child.type === 'paragraph'
-            ? { ...child, type: 'text_block' }
-            : child
+          child.type === 'paragraph' ? { ...child, type: 'text_block' } : child
         ),
       }
     }
@@ -38,4 +36,4 @@ class Migration4335 implements MigrationScript {
   }
 }
 
-export default Migration4335
+export default Migration4335

package/src/schema/migration/migration-scripts/4.4.7.ts

@@ -0,0 +1,44 @@
+/*!
+ * © 2026 Atypon Systems LLC
+ *
+ * Licensed under the Apache License, Version 2.0 (the "License");
+ * you may not use this file except in compliance with the License.
+ * You may obtain a copy of the License at
+ *
+ *    http://www.apache.org/licenses/LICENSE-2.0
+ *
+ * Unless required by applicable law or agreed to in writing, software
+ * distributed under the License is distributed on an "AS IS" BASIS,
+ * WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
+ * See the License for the specific language governing permissions and
+ * limitations under the License.
+ */
+import { generateNodeID } from '../../../transformer'
+import { JSONProsemirrorNode } from '../../../types'
+import { schema } from '../../index'
+import { MigrationScript } from '../migration-script'
+
+class Migration447 implements MigrationScript {
+  fromVersion = '4.4.6'
+  toVersion = '4.4.7'
+
+  migrateNode(node: JSONProsemirrorNode): JSONProsemirrorNode {
+    if (node.type !== 'cross_reference') {
+      return node
+    }
+
+    if (node.attrs?.id) {
+      return node
+    }
+
+    return {
+      ...node,
+      attrs: {
+        ...(node.attrs ?? {}),
+        id: generateNodeID(schema.nodes.cross_reference),
+      },
+    }
+  }
+}
+
+export default Migration447

package/src/schema/migration/migration-scripts/index.ts

@@ -29,6 +29,7 @@ import Migration4323 from './4.3.23'
 import Migration4334 from './4.3.34'
 import Migration4335 from './4.3.35'
 import Migration442 from './4.4.2'
+import Migration447 from './4.4.7'
 
 const migrations = [
   new Migration125(),
@@ -46,6 +47,7 @@ const migrations = [
   new Migration4334(),
   new Migration4335(),
   new Migration442(),
+  new Migration447(),
 ]
 
 export default migrations

package/src/schema/nodes/cross_reference.ts

@@ -19,6 +19,7 @@ import { NodeSpec } from 'prosemirror-model'
 import { ManuscriptNode } from '../types'
 
 interface Attrs {
+  id: string
   rids: string[]
   label: string
 }
@@ -33,6 +34,7 @@ export const crossReference: NodeSpec = {
   draggable: true,
   atom: true,
   attrs: {
+    id: { default: '' },
     rids: { default: [] },
     label: { default: '' },
     dataTracked: { default: null },
@@ -44,6 +46,7 @@ export const crossReference: NodeSpec = {
         const dom = p as HTMLSpanElement
 
         return {
+          id: dom.getAttribute('data-id'),
           rids: dom.getAttribute('data-reference-id')?.split(/\s+/) || [],
         }
       },
@@ -56,6 +59,7 @@ export const crossReference: NodeSpec = {
       'span',
       {
         class: 'cross-reference',
+        'data-id': crossReferenceNode.attrs.id,
         'data-reference-id': crossReferenceNode.attrs.rids.join(' '),
       },
       crossReferenceNode.attrs.label,

package/src/schema/nodes/headshot_element.ts

@@ -44,5 +44,7 @@ export const headshotElement: NodeSpec = {
   },
 }
 
-export const isHeadshotElementNode = (node: ManuscriptNode): node is HeadshotElementNode =>
+export const isHeadshotElementNode = (
+  node: ManuscriptNode
+): node is HeadshotElementNode =>
   node.type === node.type.schema.nodes.headshot_element

package/src/schema/nodes/headshot_grid.ts

@@ -42,5 +42,7 @@ export const headshotGrid: NodeSpec = {
   },
 }
 
-export const isHeadshotGridNode = (node: ManuscriptNode): node is HeadshotGridNode =>
+export const isHeadshotGridNode = (
+  node: ManuscriptNode
+): node is HeadshotGridNode =>
   node.type === node.type.schema.nodes.headshot_grid

package/src/version.ts

@@ -1 +1 @@
-export const VERSION = "4.5.0";
+export const VERSION = "4.5.1";