@manuscripts/transform 1.5.8 → 2.0.0

package/dist/types/jats/importer/jats-front-parser.d.ts

@@ -13,20 +13,43 @@
  * See the License for the specific language governing permissions and
  * limitations under the License.
  */
-import { Journal } from '@manuscripts/json-schema';
 export declare const jatsFrontParser: {
-    parseCounts(counts: Element | null | undefined): {
+    parseTitles(element: Element | null, createElement: (tagName: string) => HTMLElement): import("../../transformer").Build<import("@manuscripts/json-schema/dist/types").Titles>;
+    parseCounts(counts: Element | null): {
         wordCount: number | undefined;
         figureCount: number | undefined;
         tableCount: number | undefined;
         equationCount: number | undefined;
         referencesCount: number | undefined;
         genericCounts: {
-            count: number;
+            count: number | undefined;
             countType: string;
         }[] | undefined;
     } | undefined;
-    parseJournal(journalMeta: Element | null): Partial<Journal>;
+    parseJournal(element: Element | null): {
+        title: string | undefined;
+        templateID?: string | undefined;
+        ISSNs: {
+            [k: string]: any;
+            ISSN: string;
+            publicationType?: string | undefined;
+        }[];
+        abbreviatedTitles: {
+            [k: string]: any;
+            abbreviatedTitle: string;
+            abbrevType?: string | undefined;
+        }[];
+        journalIdentifiers: {
+            [k: string]: any;
+            journalID: string;
+            journalIDType?: string | undefined;
+        }[];
+        submittable?: boolean | undefined;
+        publisherName: string | undefined;
+        _id: string;
+        objectType: string;
+        contributions?: import("@manuscripts/json-schema/dist/types").Contribution[] | undefined;
+    };
     parseDates(historyNode: Element | null): {
         acceptanceDate?: number | undefined;
         correctionDate?: number | undefined;
@@ -35,18 +58,18 @@ export declare const jatsFrontParser: {
         revisionReceiveDate?: number | undefined;
         receiveDate?: number | undefined;
     } | undefined;
-    parseSupplements(supplementNodes: Element[] | null): import("../../transformer").Build<import("@manuscripts/json-schema").Supplement>[];
-    parseAffiliationNodes(affiliationNodes: Element[]): {
-        affiliations: import("../../transformer").Build<import("@manuscripts/json-schema").Affiliation>[];
+    parseSupplements(elements: Element[] | null): import("../../transformer").Build<import("@manuscripts/json-schema/dist/types").Supplement>[];
+    parseAffiliations(elements: Element[]): {
+        affiliations: import("../../transformer").Build<import("@manuscripts/json-schema/dist/types").Affiliation>[];
         affiliationIDs: Map<string, string>;
     };
-    parseFootnoteNodes(footnoteNodes: Element[]): {
-        footnotes: import("../../transformer").Build<import("@manuscripts/json-schema").Footnote>[];
+    parseAuthorNotes(elements: Element[]): {
+        footnotes: import("../../transformer").Build<import("@manuscripts/json-schema/dist/types").Footnote>[];
         footnoteIDs: Map<string, string>;
     };
-    parseCorrespNodes(correspNodes: Element[]): {
-        correspondingList: import("../../transformer").Build<import("@manuscripts/json-schema").Corresponding>[];
+    parseCorresp(elements: Element[]): {
+        correspondingList: import("../../transformer").Build<import("@manuscripts/json-schema/dist/types").Corresponding>[];
         correspondingIDs: Map<string, string>;
     };
-    parseAuthorNodes(authorNodes: Element[], affiliationIDs: Map<string, string>, footnoteIDs: Map<string, string>, correspondingIDs: Map<string, string>): import("../../transformer").Build<import("@manuscripts/json-schema").Contributor>[];
+    parseContributors(elements: Element[], affiliationIDs: Map<string, string>, footnoteIDs: Map<string, string>, correspondingIDs: Map<string, string>): import("../../transformer").Build<import("@manuscripts/json-schema/dist/types").Contributor>[];
 };

package/dist/types/jats/importer/jats-journal-meta-parser.d.ts

@@ -25,10 +25,10 @@ export type JournalIdentifier = {
     journalID: string;
     journalIDType?: string;
 };
-export declare const parseJournalIdentifiers: (journalMeta: Element) => Array<JournalIdentifier>;
-export declare const parseJournalAbbreviatedTitles: (journalMeta: Element) => Array<AbbreviatedTitle>;
-export declare const parseJournalISSNs: (journalMeta: Element) => Array<ISSN>;
-export declare const parseJournalMeta: (journalMeta: Element) => {
+export declare const parseJournalIdentifiers: (element: Element | null) => JournalIdentifier[];
+export declare const parseJournalAbbreviatedTitles: (element: Element | null) => AbbreviatedTitle[];
+export declare const parseJournalISSNs: (element: Element | null) => ISSN[];
+export declare const parseJournalMeta: (element: Element | null) => {
     abbreviatedTitles: AbbreviatedTitle[];
     journalIdentifiers: JournalIdentifier[];
     ISSNs: ISSN[];

package/dist/types/jats/importer/jats-parser-utils.d.ts

@@ -13,11 +13,6 @@
  * See the License for the specific language governing permissions and
  * limitations under the License.
  */
-import { Model } from '@manuscripts/json-schema';
 import { ManuscriptNode } from '../../schema';
-export declare function flatten<T>(arrays: T[][]): T[];
-export declare const fixBodyPMNode: (output: ManuscriptNode, models: Model[], referenceIdsMap?: Map<string, string>) => {
-    warnings: string[];
-    replacements: Map<string, string>;
-};
+export declare const updateDocumentIDs: (node: ManuscriptNode, replacements: Map<string, string>) => string[];
 export declare const htmlFromJatsNode: (element: Element | undefined | null, createElement: (tagName: string) => HTMLElement) => string | undefined;

package/dist/types/jats/importer/jats-reference-parser.d.ts

@@ -13,11 +13,7 @@
  * See the License for the specific language governing permissions and
  * limitations under the License.
  */
+import { References } from './jats-references';
 export declare const jatsReferenceParser: {
-    parseReferences(referenceNodes: Element[], createElement: (tagName: string) => HTMLElement): {
-        references: import("../../transformer/builders").Build<import("@manuscripts/json-schema").BibliographyItem>[];
-        referenceIDs: Map<string, string>;
-        referenceQueries: Map<string, string[]>;
-    };
-    parseCrossReferences(crossReferenceNodes: Element[], referenceIDs: Map<string, string>): (import("../../transformer/builders").Build<import("@manuscripts/json-schema").AuxiliaryObjectReference> | import("../../transformer/builders").Build<import("@manuscripts/json-schema").Citation>)[];
+    parseReferences(elements: Element[], createElement: (tagName: string) => HTMLElement): References;
 };

package/dist/types/jats/importer/jats-references.d.ts

@@ -0,0 +1,12 @@
+import { BibliographyItem } from '@manuscripts/json-schema';
+import { JATSComment } from './jats-comments';
+export declare class References {
+    items: Map<string, BibliographyItem>;
+    IDs: Map<string, string>;
+    comments: Map<string, JATSComment[]>;
+    constructor();
+    add(item: BibliographyItem, id: string | null, comments: JATSComment[]): void;
+    getBibliographyItems(): BibliographyItem[];
+    getComments(id: string): JATSComment[];
+    private getValue;
+}

package/dist/types/jats/importer/parse-jats-article.d.ts

@@ -13,20 +13,8 @@
  * See the License for the specific language governing permissions and
  * limitations under the License.
  */
-import { Affiliation, BibliographyItem, Contributor, ElementsOrder, FootnotesOrder, Model } from '@manuscripts/json-schema';
-import { ManuscriptNode } from '../../schema';
-import { Build } from '../../transformer/builders';
-export declare const parseJATSFront: (front: Element) => Promise<{
-    models: Model[];
-    authors: Build<Contributor>[];
-    affiliations: Build<Affiliation>[];
-}>;
-export declare const parseJATSReferences: (back: Element | null, body: Element | null, createElement: (tagName: string) => HTMLElement) => {
-    references: Model[];
-    crossReferences: Model[];
-    referenceQueriesMap: Map<string, string[]> | undefined;
-    referenceIdsMap: Map<string, string> | undefined;
-};
-export declare const parseJATSBody: (document: Document, body: Element, bibliographyItems: BibliographyItem[] | null, authors: Build<Contributor>[], affiliations: Build<Affiliation>[], refModels: Model[], referenceIdsMap: Map<string, string> | undefined, footnotesOrder?: FootnotesOrder) => ManuscriptNode;
-export declare const parseJATSArticle: (doc: Document) => Promise<Model[]>;
-export declare const getElementsOrder: (node: ManuscriptNode) => ElementsOrder[];
+import { Model } from '@manuscripts/json-schema';
+import { References } from './jats-references';
+export declare const parseJATSFront: (doc: Document, front: Element) => Model[];
+export declare const parseJATSBody: (doc: Document, body: Element, references?: References) => IterableIterator<Model>;
+export declare const parseJATSArticle: (doc: Document) => Model[];

package/dist/types/jats/index.d.ts

@@ -13,6 +13,6 @@
  * See the License for the specific language governing permissions and
  * limitations under the License.
  */
-export { parseJATSFront, parseJATSReferences, parseJATSBody, parseJATSArticle, getElementsOrder, } from './importer';
+export { parseJATSFront, parseJATSBody, parseJATSArticle } from './importer';
 export * from './jats-exporter';
 export * from './jats-versions';

package/dist/types/lib/section-group-type.d.ts

@@ -0,0 +1,23 @@
+/*!
+ * © 2023 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.
+ */
+export type SectionGroupTypeID = 'abstracts' | 'body' | 'backmatter';
+export type SectionGroupType = {
+    _id: SectionGroupTypeID;
+    title: string;
+};
+export declare const abstractsType: SectionGroupType;
+export declare const bodyType: SectionGroupType;
+export declare const backmatterType: SectionGroupType;

package/dist/types/lib/utils.d.ts

@@ -13,19 +13,16 @@
  * See the License for the specific language governing permissions and
  * limitations under the License.
  */
-import { Model } from '@manuscripts/json-schema';
 import { Node as ProsemirrorNode, ResolvedPos } from 'prosemirror-model';
 import { ManuscriptEditorState, ManuscriptNode } from '../schema';
 export declare function iterateChildren(node: ManuscriptNode, recurse?: boolean): Iterable<ManuscriptNode>;
 export declare const findNodePositions: (state: ManuscriptEditorState, predicate: (node: ManuscriptNode) => boolean) => number[];
 export declare const isInGraphicalAbstractSection: ($pos: ResolvedPos) => boolean;
 export declare const isInBibliographySection: ($pos: ResolvedPos) => boolean;
-export declare const isInAbstractsSection: ($pos: ResolvedPos) => boolean;
 export declare const findParentNodeClosestToPos: ($pos: ResolvedPos, predicate: (node: ProsemirrorNode) => boolean) => {
     pos: number;
     start: number;
     depth: number;
     node: ProsemirrorNode;
 } | undefined;
-export declare const getTrimmedTextContent: (node: Element | Document, querySelector: string) => string | null | undefined;
-export declare function modelsEqual(model: Model, model2: Model): boolean;
+export declare const getTrimmedTextContent: (node: Element | Document | null, querySelector: string) => string | null | undefined;

package/dist/types/schema/index.d.ts

@@ -18,7 +18,7 @@ import { Marks, Nodes } from './types';
 export * from './groups';
 export * from './types';
 export * from './nodes/comment';
-export * from './nodes/comment_list';
+export * from './nodes/comments';
 export * from './nodes/attribution';
 export * from './nodes/bibliography_item';
 export * from './nodes/bibliography_element';
@@ -44,7 +44,7 @@ export * from './nodes/inline_equation';
 export * from './nodes/inline_footnote';
 export * from './nodes/keyword';
 export * from './nodes/keywords_element';
-export * from './nodes/keywords_section';
+export * from './nodes/keywords';
 export * from './nodes/link';
 export * from './nodes/list';
 export * from './nodes/listing';
@@ -65,10 +65,9 @@ export * from './nodes/text';
 export * from './nodes/toc_element';
 export * from './nodes/toc_section';
 export * from './nodes/affiliation';
-export * from './nodes/meta_section';
 export * from './nodes/contributor';
 export * from './nodes/table_element_footer';
 export * from './nodes/title';
-export * from './nodes/affiliations_section';
-export * from './nodes/contributors_section';
+export * from './nodes/affiliations';
+export * from './nodes/contributors';
 export declare const schema: Schema<Nodes, Marks>;

package/dist/types/schema/nodes/{meta_section.d.ts → abstracts.d.ts}

@@ -14,12 +14,4 @@
  * limitations under the License.
  */
 import { NodeSpec } from 'prosemirror-model';
-import { ManuscriptNode } from '../types';
-interface Attrs {
-    id: string;
-}
-export interface MetaSectionNode extends ManuscriptNode {
-    attrs: Attrs;
-}
-export declare const metaSection: NodeSpec;
-export {};
+export declare const abstracts: NodeSpec;

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

@@ -0,0 +1,17 @@
+/*!
+ * © 2023 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 { NodeSpec } from 'prosemirror-model';
+export declare const affiliations: NodeSpec;

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

@@ -0,0 +1,17 @@
+/*!
+ * © 2019 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 { NodeSpec } from 'prosemirror-model';
+export declare const backmatter: NodeSpec;

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

@@ -0,0 +1,17 @@
+/*!
+ * © 2019 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 { NodeSpec } from 'prosemirror-model';
+export declare const body: NodeSpec;

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

@@ -16,12 +16,10 @@
 import { NodeSpec } from 'prosemirror-model';
 import { ManuscriptNode } from '../types';
 interface Attrs {
-    rid: string;
+    id: string;
+    rids: string[];
     contents: string;
-    embeddedCitationItems: {
-        id: string;
-        bibliographyItem: string;
-    }[];
+    selectedText: string;
 }
 export interface CitationNode extends ManuscriptNode {
     attrs: Attrs;

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

@@ -0,0 +1,17 @@
+/*!
+ * © 2019 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 { NodeSpec } from 'prosemirror-model';
+export declare const comments: NodeSpec;

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

@@ -0,0 +1,17 @@
+/*!
+ * © 2023 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 { NodeSpec } from 'prosemirror-model';
+export declare const contributors: NodeSpec;

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

@@ -0,0 +1,17 @@
+/*!
+ * © 2019 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 { NodeSpec } from 'prosemirror-model';
+export declare const coreSection: NodeSpec;

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

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

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

@@ -16,7 +16,7 @@
 import { NodeSpec } from 'prosemirror-model';
 import { ManuscriptNode } from '../types';
 interface Attrs {
-    rid: string;
+    rids: string[];
     contents: string;
 }
 export interface InlineFootnoteNode extends ManuscriptNode {

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

@@ -18,7 +18,6 @@ import { ManuscriptNode } from '../types';
 import { CommentNode } from './comment';
 interface Attrs {
     id: string;
-    contents: string;
     comments?: CommentNode[];
 }
 export interface KeywordNode extends ManuscriptNode {

package/dist/types/schema/nodes/{contributors_element.d.ts → keyword_group.d.ts}

@@ -16,12 +16,11 @@
 import { NodeSpec } from 'prosemirror-model';
 import { ManuscriptNode } from '../types';
 interface Attrs {
-    contents: string;
     id: string;
-    paragraphStyle?: string;
 }
-export interface ContributorsElementNode extends ManuscriptNode {
+export interface KeywordGroupNode extends ManuscriptNode {
     attrs: Attrs;
 }
-export declare const contributorsElement: NodeSpec;
+export declare const keywordGroup: NodeSpec;
+export declare const isKeywordGroupNode: (node: ManuscriptNode) => node is KeywordGroupNode;
 export {};

package/dist/types/schema/nodes/{comment_list.d.ts → keywords.d.ts}

@@ -18,8 +18,9 @@ import { ManuscriptNode } from '../types';
 interface Attrs {
     id: string;
 }
-export interface CommentListNode extends ManuscriptNode {
+export interface KeywordsNode extends ManuscriptNode {
     attrs: Attrs;
 }
-export declare const commentList: NodeSpec;
+export declare const keywords: NodeSpec;
+export declare const isKeywordsNode: (node: ManuscriptNode) => node is KeywordsNode;
 export {};

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

@@ -21,3 +21,4 @@ export interface ActualManuscriptNode extends ManuscriptNode {
     };
 }
 export declare const manuscript: NodeSpec;
+export declare const isManuscriptNode: (node: ManuscriptNode) => node is import("prosemirror-model").Node;

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

@@ -17,7 +17,7 @@ import { Fragment, Mark as ProsemirrorMark, MarkType, Node as ProsemirrorNode, N
 import { EditorState, NodeSelection, Plugin, TextSelection, Transaction } from 'prosemirror-state';
 import { EditorView, NodeView } from 'prosemirror-view';
 export type Marks = 'bold' | 'code' | 'italic' | 'smallcaps' | 'strikethrough' | 'styled' | 'subscript' | 'superscript' | 'underline' | 'tracked_insert' | 'tracked_delete';
-export type Nodes = 'attribution' | 'bibliography_item' | 'bibliography_element' | 'bibliography_section' | 'blockquote_element' | 'bullet_list' | 'caption' | 'caption_title' | 'comment' | 'comment_list' | 'citation' | 'cross_reference' | 'doc' | 'equation' | 'equation_element' | 'figcaption' | 'figure' | 'graphical_abstract_section' | 'figure_element' | 'footnote' | 'footnotes_element' | 'footnotes_section' | 'hard_break' | 'highlight_marker' | 'inline_equation' | 'inline_footnote' | 'keyword' | 'keywords_element' | 'keywords_group' | 'keywords_section' | 'link' | 'list_item' | 'listing' | 'listing_element' | 'manuscript' | 'missing_figure' | 'ordered_list' | 'paragraph' | 'placeholder' | 'placeholder_element' | 'pullquote_element' | 'section' | 'section_label' | 'section_title' | 'section_title_plain' | 'table' | 'table_body' | 'table_cell' | 'table_element' | 'table_row' | 'table_colgroup' | 'table_col' | 'text' | 'toc_element' | 'toc_section' | 'affiliation' | 'meta_section' | 'contributor' | 'table_element_footer' | 'title' | 'affiliations_section' | 'contributors_section';
+export type Nodes = 'attribution' | 'bibliography_item' | 'bibliography_element' | 'bibliography_section' | 'blockquote_element' | 'bullet_list' | 'caption' | 'caption_title' | 'comment' | 'comments' | 'citation' | 'cross_reference' | 'doc' | 'equation' | 'equation_element' | 'figcaption' | 'figure' | 'graphical_abstract_section' | 'figure_element' | 'footnote' | 'footnotes_element' | 'footnotes_section' | 'hard_break' | 'highlight_marker' | 'inline_equation' | 'inline_footnote' | 'keyword' | 'keywords_element' | 'keyword_group' | 'keywords' | 'link' | 'list_item' | 'listing' | 'listing_element' | 'manuscript' | 'abstracts' | 'body' | 'backmatter' | 'missing_figure' | 'ordered_list' | 'paragraph' | 'placeholder' | 'placeholder_element' | 'pullquote_element' | 'section' | 'section_label' | 'section_title' | 'section_title_plain' | 'table' | 'table_body' | 'table_cell' | 'table_element' | 'table_row' | 'table_colgroup' | 'table_col' | 'text' | 'toc_element' | 'toc_section' | 'affiliation' | 'contributor' | 'table_element_footer' | 'title' | 'affiliations' | 'contributors';
 export type ManuscriptSchema = Schema<Nodes, Marks>;
 export type ManuscriptEditorState = EditorState;
 export type ManuscriptEditorView = EditorView;

package/dist/types/transformer/builders.d.ts

@@ -13,11 +13,9 @@
  * See the License for the specific language governing permissions and
  * limitations under the License.
  */
-import { Affiliation, Attribution, AuxiliaryObjectReference, BibliographicDate, BibliographicName, BibliographyItem, Citation, CitationItem, Color, CommentAnnotation, Contribution, Contributor, ContributorRole, Corresponding, ElementsOrder, EmbeddedModel, Figure, Footnote, FootnotesOrder, Highlight, HighlightMarker, InlineMathFragment, InlineStyle, Journal, Keyword, KeywordGroup, LibraryCollection, Manuscript, ManuscriptKeyword, ManuscriptNote, ObjectTypes, ParagraphElement, Project, RequirementsValidation, RequirementsValidationData, Section, StatusLabel, Supplement, Titles, UserProfileAffiliation } from '@manuscripts/json-schema';
+import { Affiliation, Attribution, BibliographicDate, BibliographicName, BibliographyElement, BibliographyItem, Color, CommentAnnotation, Contribution, Contributor, ContributorRole, Corresponding, ElementsOrder, EmbeddedModel, Figure, Footnote, FootnotesOrder, InlineMathFragment, Journal, Keyword, KeywordGroup, Manuscript, ManuscriptNote, ObjectTypes, ParagraphElement, Project, Section, Supplement, Titles } from '@manuscripts/json-schema';
 import { FootnotesOrderIndexList } from './footnotes-order';
 import { CommentSelector, ManuscriptModel, ModelAttachment } from './models';
-export declare const DEFAULT_BUNDLE = "MPBundle:www-zotero-org-styles-nature";
-export declare const DEFAULT_PAGE_LAYOUT = "MPPageLayout:defaultA4";
 export type Build<T> = Pick<T, Exclude<keyof T, keyof ManuscriptModel>> & {
     _id: string;
     objectType: string;
@@ -34,24 +32,18 @@ export declare const buildContributor: (bibliographicName: BibliographicName, ro
 export declare const buildBibliographyItem: (data: Partial<Build<BibliographyItem>>) => Build<BibliographyItem>;
 export declare const buildBibliographicName: (data: Partial<BibliographicName>) => BuildEmbedded<BibliographicName, ObjectTypes.BibliographicName>;
 export declare const buildBibliographicDate: (data: Partial<BibliographicDate>) => BuildEmbedded<BibliographicDate, ObjectTypes.BibliographicDate>;
-export declare const buildAuxiliaryObjectReference: (containingObject: string, rids: string[]) => Build<AuxiliaryObjectReference>;
-export declare const buildEmbeddedCitationItem: (bibliographyItem: string) => CitationItem;
-export declare const buildCitation: (containingObject: string, embeddedCitationItems: string[]) => Build<Citation>;
+export declare const buildBibliographyElement: (bibliographyItems: BibliographyItem[]) => Build<BibliographyElement>;
 export declare const buildKeyword: (name: string) => Build<Keyword>;
 export declare const buildKeywordGroup: (attributes: {
     type?: string;
     title?: string;
     label?: string;
 }) => Build<KeywordGroup>;
-export declare const buildManuscriptKeyword: (name: string) => Build<ManuscriptKeyword>;
-export declare const buildLibraryCollection: (owner: string, name: string) => Build<LibraryCollection>;
 export declare const buildFigure: (blob: Blob) => Build<Figure & ModelAttachment>;
 export declare const buildAffiliation: (institution: string, priority?: number) => Build<Affiliation>;
 export declare const buildSupplementaryMaterial: (title: string, href: string) => Build<Supplement>;
-export declare const buildUserProfileAffiliation: (institution: string, priority?: number) => Build<UserProfileAffiliation>;
 export declare const buildComment: (target: string, contents?: string, selector?: CommentSelector, contributions?: Contribution[], annotationColor?: string) => Build<CommentAnnotation>;
 export declare const buildNote: (target: string, source: 'EMAIL' | 'EDITOR' | 'DASHBOARD', contents?: string) => Build<ManuscriptNote>;
-export declare const buildValidation: (results: RequirementsValidationData[]) => Build<RequirementsValidation>;
 export declare const buildInlineMathFragment: (containingObject: string, TeXRepresentation: string) => Build<InlineMathFragment>;
 export declare const buildFootnote: (containingObject: string, contents: string, kind?: 'footnote' | 'endnote') => Build<Footnote>;
 export declare const buildFootnotesOrder: (footnotesList: FootnotesOrderIndexList) => Build<FootnotesOrder>;
@@ -59,14 +51,10 @@ export declare const buildCorresp: (contents: string) => Build<Corresponding>;
 export declare const buildSection: (priority?: number, path?: string[]) => Build<Section>;
 export declare const buildParagraph: (placeholderInnerHTML: string) => Build<ParagraphElement>;
 export declare const buildColor: (value: string, priority: number) => Build<Color>;
-export declare const buildHighlight: () => Build<Highlight>;
-export declare const buildHighlightMarker: (highlightID: string, start: boolean, offset: number, field: 'caption' | 'contents' | 'title') => Build<HighlightMarker>;
 export declare const buildContribution: (profileID: string) => Contribution;
 export declare const buildContributorRole: (name: string) => Build<ContributorRole>;
-export declare const buildInlineStyle: (priority: number, title?: string) => Build<InlineStyle>;
 export declare const buildAttribution: () => Build<Attribution>;
 export declare const buildJournal: () => Build<Journal>;
-export declare const buildStatusLabel: (name: string) => Build<StatusLabel>;
 export type AuxiliaryObjects = 'MPFigureElement' | 'MPTableElement' | 'MPListingElement' | 'MPEquationElement';
 export declare const auxiliaryObjectTypes: Set<import("prosemirror-model").NodeType>;
 export declare const buildElementsOrder: (elementType: AuxiliaryObjects) => Build<ElementsOrder>;

package/dist/types/transformer/decode.d.ts

@@ -19,20 +19,18 @@ import { ManuscriptNode } from '../schema';
 export declare const getModelData: <T extends Model>(model: Model) => T;
 export declare const getModelsByType: <T extends Model>(modelMap: Map<string, Model>, objectType: string) => T[];
 export declare const sortSectionsByPriority: (a: Section, b: Section) => number;
-export declare const isManuscriptNode: (model: ManuscriptNode | null) => model is import("prosemirror-model").Node;
 export declare class Decoder {
     private readonly modelMap;
     private readonly allowMissingElements;
     private comments;
     private creators;
-    private createMetaSectionNode;
-    private createCommentListNode;
-    private handleMissingRootSectionNodes;
-    private createAffiliationSectionNode;
-    private createContributorSectionNode;
     private createTitleNode;
-    private createRootSectionNodes;
+    private createAffiliationsNode;
+    private createContributorsNode;
+    private createKeywordsNode;
     private createCommentsNode;
+    private createContentSections;
+    private createCommentNodes;
     private getComments;
     private extractListing;
     constructor(modelMap: Map<string, Model>, allowMissingElements?: boolean);
@@ -41,11 +39,9 @@ export declare class Decoder {
     createArticleNode: (manuscriptID?: string) => ManuscriptNode;
     addGeneratedLabels: (sections: Section[]) => Section[];
     parseContents: (contents: string, wrapper?: string, commentAnnotations?: CommentAnnotation[], options?: ParseOptions) => ManuscriptNode;
-    private getKeywords;
     private getManuscriptID;
     private getFigcaption;
     private createTable;
     private createTableElementFooter;
     private createListing;
-    private getKeywordGroups;
 }

package/dist/types/transformer/encode.d.ts

@@ -13,17 +13,17 @@
  * See the License for the specific language governing permissions and
  * limitations under the License.
  */
-import { CommentAnnotation, Model } from '@manuscripts/json-schema';
+import { Model } from '@manuscripts/json-schema';
 import { ManuscriptNode } from '../schema';
-import { Build } from './builders';
+import { CommentMarker } from './highlight-markers';
 export declare const inlineContents: (node: ManuscriptNode) => string;
 export declare const inlineText: (node: ManuscriptNode) => string;
 export declare const modelFromNode: (node: ManuscriptNode, parent: ManuscriptNode, path: string[], priority: PrioritizedValue) => {
     model: Model;
-    comments: Build<CommentAnnotation>[];
+    markers: CommentMarker[];
 };
 interface PrioritizedValue {
     value: number;
 }
-export declare const encode: (node: ManuscriptNode, preserveWithRepeatedID?: boolean) => Map<string, Model>;
+export declare const encode: (node: ManuscriptNode) => Map<string, Model>;
 export {};

package/dist/types/transformer/highlight-markers.d.ts

@@ -14,13 +14,18 @@
  * limitations under the License.
  */
 import { CommentAnnotation, Model } from '@manuscripts/json-schema';
-import { Build } from './builders';
 export type HighlightableField = 'title' | 'caption' | 'contents';
+export declare const highlightableFields: HighlightableField[];
 export declare const isHighlightableModel: (model: Model) => model is HighlightableModel;
 export interface HighlightableModel extends Model {
     contents?: string;
     title?: string;
     caption?: string;
 }
-export declare const extractHighlightMarkers: (model: HighlightableModel, commentAnnotationsMap: Map<string, Build<CommentAnnotation>>) => void;
+export type CommentMarker = {
+    _id: string;
+    from: number;
+    to: number;
+};
+export declare const extractCommentMarkers: (model: Model) => CommentMarker[];
 export declare const insertHighlightMarkers: (contents: string, commentAnnotations: CommentAnnotation[]) => string;

package/dist/types/transformer/object-types.d.ts

@@ -14,7 +14,7 @@
  * limitations under the License.
  */
 import { CommentAnnotation, Figure, Keyword, Manuscript, Model, ObjectTypes, Table } from '@manuscripts/json-schema';
-import { ManuscriptModel, UserProfileWithAvatar } from './models';
+import { ManuscriptModel } from './models';
 export declare enum ExtraObjectTypes {
     PlaceholderElement = "MPPlaceholderElement"
 }
@@ -25,6 +25,5 @@ export declare const hasObjectType: <T extends Model>(objectType: string) => (mo
 export declare const isFigure: (model: Model) => model is Figure;
 export declare const isManuscript: (model: Model) => model is Manuscript;
 export declare const isTable: (model: Model) => model is Table;
-export declare const isUserProfile: (model: Model) => model is UserProfileWithAvatar;
 export declare const isCommentAnnotation: (model: Model) => model is CommentAnnotation;
 export declare const isKeyword: (model: Model) => model is Keyword;