@manuscripts/transform 1.0.0 → 1.0.1-LEAN-2105

This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
Files changed (82) hide show
  1. package/dist/cjs/jats/importer/jats-parser-utils.js +2 -2
  2. package/dist/cjs/jats/jats-exporter.js +17 -16
  3. package/dist/cjs/schema/index.js +2 -0
  4. package/dist/cjs/schema/nodes/blockquote_element.js +2 -2
  5. package/dist/{types/transformer/tei-grobid-importer.d.ts → cjs/schema/nodes/comment_list.js} +10 -6
  6. package/dist/cjs/schema/nodes/equation.js +3 -3
  7. package/dist/cjs/schema/nodes/inline_equation.js +3 -3
  8. package/dist/cjs/schema/nodes/list.js +3 -3
  9. package/dist/cjs/schema/nodes/listing.js +3 -3
  10. package/dist/cjs/schema/nodes/manuscript.js +1 -1
  11. package/dist/cjs/schema/nodes/paragraph.js +2 -2
  12. package/dist/cjs/schema/nodes/pullquote_element.js +2 -2
  13. package/dist/cjs/transformer/builders.js +73 -73
  14. package/dist/cjs/transformer/decode.js +67 -37
  15. package/dist/cjs/transformer/document-object-types.js +11 -11
  16. package/dist/cjs/transformer/encode.js +11 -10
  17. package/dist/cjs/transformer/html.js +2 -2
  18. package/dist/cjs/transformer/index.js +0 -1
  19. package/dist/cjs/transformer/labels.js +1 -2
  20. package/dist/cjs/transformer/manuscript-dependencies.js +3 -3
  21. package/dist/cjs/transformer/node-types.js +34 -33
  22. package/dist/cjs/transformer/object-types.js +23 -23
  23. package/dist/cjs/transformer/project-bundle.js +4 -4
  24. package/dist/cjs/transformer/section-category.js +5 -5
  25. package/dist/es/jats/importer/jats-parser-utils.js +1 -1
  26. package/dist/es/jats/jats-exporter.js +2 -1
  27. package/dist/es/schema/index.js +2 -0
  28. package/dist/es/schema/nodes/blockquote_element.js +1 -1
  29. package/dist/es/schema/nodes/comment_list.js +21 -0
  30. package/dist/es/schema/nodes/equation.js +1 -1
  31. package/dist/es/schema/nodes/inline_equation.js +1 -1
  32. package/dist/es/schema/nodes/list.js +1 -1
  33. package/dist/es/schema/nodes/listing.js +1 -1
  34. package/dist/es/schema/nodes/manuscript.js +1 -1
  35. package/dist/es/schema/nodes/paragraph.js +1 -1
  36. package/dist/es/schema/nodes/pullquote_element.js +1 -1
  37. package/dist/es/transformer/builders.js +1 -1
  38. package/dist/es/transformer/decode.js +43 -13
  39. package/dist/es/transformer/document-object-types.js +1 -1
  40. package/dist/es/transformer/encode.js +12 -11
  41. package/dist/es/transformer/html.js +1 -1
  42. package/dist/es/transformer/index.js +0 -1
  43. package/dist/es/transformer/labels.js +1 -2
  44. package/dist/es/transformer/manuscript-dependencies.js +1 -1
  45. package/dist/es/transformer/node-types.js +2 -1
  46. package/dist/es/transformer/object-types.js +1 -1
  47. package/dist/es/transformer/project-bundle.js +1 -1
  48. package/dist/es/transformer/section-category.js +1 -1
  49. package/dist/types/jats/importer/jats-body-transformations.d.ts +1 -1
  50. package/dist/types/jats/importer/jats-comments.d.ts +1 -1
  51. package/dist/types/jats/importer/jats-front-parser.d.ts +6 -6
  52. package/dist/types/jats/importer/jats-parser-utils.d.ts +1 -1
  53. package/dist/types/jats/importer/jats-reference-parser.d.ts +2 -2
  54. package/dist/types/jats/importer/parse-jats-article.d.ts +2 -2
  55. package/dist/types/jats/jats-exporter.d.ts +1 -1
  56. package/dist/types/lib/styled-content.d.ts +1 -1
  57. package/dist/types/schema/nodes/comment_list.d.ts +25 -0
  58. package/dist/types/schema/types.d.ts +1 -1
  59. package/dist/types/transformer/builders.d.ts +1 -1
  60. package/dist/types/transformer/bundles-data.d.ts +1 -1
  61. package/dist/types/transformer/bundles.d.ts +1 -1
  62. package/dist/types/transformer/decode.d.ts +2 -1
  63. package/dist/types/transformer/document-object-types.d.ts +1 -1
  64. package/dist/types/transformer/encode.d.ts +1 -1
  65. package/dist/types/transformer/footnotes-order.d.ts +1 -1
  66. package/dist/types/transformer/highlight-markers.d.ts +1 -1
  67. package/dist/types/transformer/html.d.ts +1 -1
  68. package/dist/types/transformer/id.d.ts +1 -1
  69. package/dist/types/transformer/index.d.ts +0 -1
  70. package/dist/types/transformer/labels.d.ts +1 -1
  71. package/dist/types/transformer/manuscript-dependencies.d.ts +1 -1
  72. package/dist/types/transformer/model-map.d.ts +1 -1
  73. package/dist/types/transformer/models.d.ts +1 -1
  74. package/dist/types/transformer/node-types.d.ts +1 -1
  75. package/dist/types/transformer/object-types.d.ts +1 -1
  76. package/dist/types/transformer/project-bundle.d.ts +1 -1
  77. package/dist/types/transformer/section-category.d.ts +1 -1
  78. package/dist/types/transformer/shared-data.d.ts +1 -1
  79. package/dist/types/transformer/update-identifiers.d.ts +1 -1
  80. package/package.json +2 -2
  81. package/dist/cjs/transformer/tei-grobid-importer.js +0 -121
  82. package/dist/es/transformer/tei-grobid-importer.js +0 -115
@@ -16,7 +16,7 @@
16
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  */
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  Object.defineProperty(exports, "__esModule", { value: true });
18
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  exports.chooseSectionCategoryFromTitle = exports.chooseSectionCategory = exports.chooseSectionCategoryByType = exports.chooseSecType = exports.buildSectionCategory = exports.guessSectionCategory = exports.chooseSectionLableName = exports.chooseSectionNodeType = exports.isAnySectionNode = void 0;
19
- const manuscripts_json_schema_1 = require("@manuscripts/manuscripts-json-schema");
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+ const json_schema_1 = require("@manuscripts/json-schema");
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  const schema_1 = require("../schema");
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  const sectionNodeTypes = [
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  schema_1.schema.nodes.bibliography_section,
@@ -58,13 +58,13 @@ const guessSectionCategory = (elements) => {
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  return undefined;
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  }
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  switch (elements[0].objectType) {
61
- case manuscripts_json_schema_1.ObjectTypes.BibliographyElement:
61
+ case json_schema_1.ObjectTypes.BibliographyElement:
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  return 'MPSectionCategory:bibliography';
63
- case manuscripts_json_schema_1.ObjectTypes.FootnotesElement:
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+ case json_schema_1.ObjectTypes.FootnotesElement:
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  return 'MPSectionCategory:endnotes';
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- case manuscripts_json_schema_1.ObjectTypes.KeywordsElement:
65
+ case json_schema_1.ObjectTypes.KeywordsElement:
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  return 'MPSectionCategory:keywords';
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- case manuscripts_json_schema_1.ObjectTypes.TOCElement:
67
+ case json_schema_1.ObjectTypes.TOCElement:
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  return 'MPSectionCategory:toc';
69
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  default:
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  return undefined;
@@ -13,7 +13,7 @@
13
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  * See the License for the specific language governing permissions and
14
14
  * limitations under the License.
15
15
  */
16
- import { ObjectTypes, } from '@manuscripts/manuscripts-json-schema';
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+ import { ObjectTypes, } from '@manuscripts/json-schema';
17
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  import { generateID, hasObjectType, nodeTypesMap } from '../../transformer';
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  const isAuxiliaryObjectReference = hasObjectType(ObjectTypes.AuxiliaryObjectReference);
19
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  export function flatten(arrays) {
@@ -13,7 +13,7 @@
13
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  * See the License for the specific language governing permissions and
14
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  * limitations under the License.
15
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  */
16
- import { ObjectTypes, } from '@manuscripts/manuscripts-json-schema';
16
+ import { ObjectTypes, } from '@manuscripts/json-schema';
17
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  import debug from 'debug';
18
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  import { DOMParser, DOMSerializer } from 'prosemirror-model';
19
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  import serializeToXML from 'w3c-xmlserializer';
@@ -616,6 +616,7 @@ export class JATSExporter {
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  attribution: () => ['attrib', 0],
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  bibliography_element: () => '',
618
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  bibliography_item: () => '',
619
+ comment_list: () => '',
619
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  bibliography_section: (node) => [
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  'ref-list',
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  { id: normalizeID(node.attrs.id) },
@@ -24,6 +24,7 @@ import { caption } from './nodes/caption';
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  import { captionTitle } from './nodes/caption_title';
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  import { citation } from './nodes/citation';
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  import { comment } from './nodes/comment';
27
+ import { commentList } from './nodes/comment_list';
27
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  import { crossReference } from './nodes/cross_reference';
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  import { doc } from './nodes/doc';
29
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  import { equation } from './nodes/equation';
@@ -124,6 +125,7 @@ export const schema = new Schema({
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  },
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  nodes: {
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  comment,
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+ comment_list: commentList,
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  attribution,
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  bibliography_item: bibliographyItem,
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  bibliography_element: bibliographyElement,
@@ -13,7 +13,7 @@
13
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  * See the License for the specific language governing permissions and
14
14
  * limitations under the License.
15
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  */
16
- import { ObjectTypes } from '@manuscripts/manuscripts-json-schema';
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+ import { ObjectTypes } from '@manuscripts/json-schema';
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  import { buildElementClass } from '../../lib/attributes';
18
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  export const blockquoteElement = {
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  content: 'paragraph+ attribution',
@@ -0,0 +1,21 @@
1
+ /*!
2
+ * © 2019 Atypon Systems LLC
3
+ *
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+ * Licensed under the Apache License, Version 2.0 (the "License");
5
+ * you may not use this file except in compliance with the License.
6
+ * You may obtain a copy of the License at
7
+ *
8
+ * http://www.apache.org/licenses/LICENSE-2.0
9
+ *
10
+ * Unless required by applicable law or agreed to in writing, software
11
+ * distributed under the License is distributed on an "AS IS" BASIS,
12
+ * WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
13
+ * See the License for the specific language governing permissions and
14
+ * limitations under the License.
15
+ */
16
+ export const commentList = {
17
+ content: 'comment*',
18
+ attrs: {
19
+ id: { default: '' },
20
+ },
21
+ };
@@ -13,7 +13,7 @@
13
13
  * See the License for the specific language governing permissions and
14
14
  * limitations under the License.
15
15
  */
16
- import { ObjectTypes } from '@manuscripts/manuscripts-json-schema';
16
+ import { ObjectTypes } from '@manuscripts/json-schema';
17
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  export const equation = {
18
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  attrs: {
19
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  id: { default: '' },
@@ -13,7 +13,7 @@
13
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  * See the License for the specific language governing permissions and
14
14
  * limitations under the License.
15
15
  */
16
- import { ObjectTypes } from '@manuscripts/manuscripts-json-schema';
16
+ import { ObjectTypes } from '@manuscripts/json-schema';
17
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  export const inlineEquation = {
18
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  attrs: {
19
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  id: { default: '' },
@@ -13,7 +13,7 @@
13
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  * See the License for the specific language governing permissions and
14
14
  * limitations under the License.
15
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  */
16
- import { ObjectTypes } from '@manuscripts/manuscripts-json-schema';
16
+ import { ObjectTypes } from '@manuscripts/json-schema';
17
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  import { buildElementClass } from '../../lib/attributes';
18
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  export const bulletList = {
19
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  content: 'list_item+',
@@ -13,7 +13,7 @@
13
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  * See the License for the specific language governing permissions and
14
14
  * limitations under the License.
15
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  */
16
- import { ObjectTypes } from '@manuscripts/manuscripts-json-schema';
16
+ import { ObjectTypes } from '@manuscripts/json-schema';
17
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  export const listing = {
18
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  attrs: {
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  id: { default: '' },
@@ -14,7 +14,7 @@
14
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  * limitations under the License.
15
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  */
16
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  export const manuscript = {
17
- content: '(section | sections)+',
17
+ content: '(section | sections)+ comment_list*',
18
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  attrs: {
19
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  id: { default: '' },
20
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  },
@@ -13,7 +13,7 @@
13
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  * See the License for the specific language governing permissions and
14
14
  * limitations under the License.
15
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  */
16
- import { ObjectTypes } from '@manuscripts/manuscripts-json-schema';
16
+ import { ObjectTypes } from '@manuscripts/json-schema';
17
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  import { buildElementClass } from '../../lib/attributes';
18
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  export const paragraph = {
19
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  content: 'inline*',
@@ -13,7 +13,7 @@
13
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  * See the License for the specific language governing permissions and
14
14
  * limitations under the License.
15
15
  */
16
- import { ObjectTypes } from '@manuscripts/manuscripts-json-schema';
16
+ import { ObjectTypes } from '@manuscripts/json-schema';
17
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  import { buildElementClass } from '../../lib/attributes';
18
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  export const pullquoteElement = {
19
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  content: 'paragraph+ attribution',
@@ -13,7 +13,7 @@
13
13
  * See the License for the specific language governing permissions and
14
14
  * limitations under the License.
15
15
  */
16
- import { ObjectTypes, } from '@manuscripts/manuscripts-json-schema';
16
+ import { ObjectTypes, } from '@manuscripts/json-schema';
17
17
  import serializeToXML from 'w3c-xmlserializer';
18
18
  import { schema } from '../schema';
19
19
  import { generateID } from './id';
@@ -24,7 +24,7 @@ var __rest = (this && this.__rest) || function (s, e) {
24
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  }
25
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  return t;
26
26
  };
27
- import { ObjectTypes, } from '@manuscripts/manuscripts-json-schema';
27
+ import { ObjectTypes, } from '@manuscripts/json-schema';
28
28
  import debug from 'debug';
29
29
  import { DOMParser } from 'prosemirror-model';
30
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  import { MissingElement } from '../errors';
@@ -88,6 +88,7 @@ export class Decoder {
88
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  }
89
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  }
90
90
  constructor(modelMap, allowMissingElements = false) {
91
+ this.comments = new Map();
91
92
  this.creators = {
92
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  [ObjectTypes.BibliographyElement]: (data) => {
93
94
  var _a;
@@ -134,12 +135,14 @@ export class Decoder {
134
135
  },
135
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  [ObjectTypes.Figure]: (data) => {
136
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  const model = data;
138
+ const commentNodes = this.createCommentsNode(model);
139
+ commentNodes.forEach((c) => this.comments.set(c.attrs.id, c));
137
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  return schema.nodes.figure.create({
138
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  id: model._id,
139
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  contentType: model.contentType,
140
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  src: model.src,
141
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  position: model.position,
142
- comments: this.createCommentsNode(model),
145
+ comments: commentNodes.map((c) => c.attrs.id),
143
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  });
144
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  },
145
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  [ObjectTypes.FigureElement]: (data) => {
@@ -168,6 +171,8 @@ export class Decoder {
168
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  figures.push(schema.nodes.figure.createAndFill());
169
172
  }
170
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  const figcaption = this.getFigcaption(model);
174
+ const commentNodes = this.createCommentsNode(model);
175
+ commentNodes.forEach((c) => this.comments.set(c.attrs.id, c));
171
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  const content = [...paragraphs, ...figures, figcaption];
172
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  const listing = this.extractListing(model);
173
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  if (listing) {
@@ -188,7 +193,7 @@ export class Decoder {
188
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  suppressTitle: Boolean(model.suppressTitle === undefined ? true : model.suppressTitle),
189
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  attribution: model.attribution,
190
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  alternatives: model.alternatives,
191
- comments: this.createCommentsNode(model),
196
+ comments: commentNodes.map((c) => c.attrs.id),
192
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  }, content);
193
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  },
194
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  [ObjectTypes.Equation]: (data) => {
@@ -229,11 +234,13 @@ export class Decoder {
229
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  const footnotesOfKind = [];
230
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  for (const model of this.modelMap.values()) {
231
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  if (isFootnote(model) && model.kind === collateByKind) {
237
+ const commentNodes = this.createCommentsNode(model);
238
+ commentNodes.forEach((c) => this.comments.set(c.attrs.id, c));
232
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  const footnote = this.parseContents(model.contents || '<div></div>', undefined, this.getComments(model), {
233
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  topNode: schema.nodes.footnote.create({
234
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  id: model._id,
235
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  kind: model.kind,
236
- comments: this.createCommentsNode(model),
243
+ comments: commentNodes.map((c) => c.attrs.id),
237
244
  }),
238
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  });
239
246
  footnotesOfKind.push(footnote);
@@ -247,10 +254,12 @@ export class Decoder {
247
254
  },
248
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  [ObjectTypes.Footnote]: (data) => {
249
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  const model = data;
257
+ const commentNodes = this.createCommentsNode(model);
258
+ commentNodes.forEach((c) => this.comments.set(c.attrs.id, c));
250
259
  return schema.nodes.footnote.create({
251
260
  id: model._id,
252
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  kind: model.kind,
253
- comments: this.createCommentsNode(model),
262
+ comments: commentNodes.map((c) => c.attrs.id),
254
263
  });
255
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  },
256
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  [ObjectTypes.KeywordsElement]: (data) => {
@@ -265,13 +274,15 @@ export class Decoder {
265
274
  },
266
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  [ObjectTypes.ListElement]: (data) => {
267
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  const model = data;
277
+ const commentNodes = this.createCommentsNode(model);
278
+ commentNodes.forEach((c) => this.comments.set(c.attrs.id, c));
268
279
  switch (model.elementType) {
269
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  case 'ol':
270
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  return this.parseContents(model.contents || '<ol></ol>', undefined, this.getComments(model), {
271
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  topNode: schema.nodes.ordered_list.create({
272
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  id: model._id,
273
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  paragraphStyle: model.paragraphStyle,
274
- comments: this.createCommentsNode(model),
285
+ comments: commentNodes.map((c) => c.attrs.id),
275
286
  }),
276
287
  });
277
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  case 'ul':
@@ -287,12 +298,14 @@ export class Decoder {
287
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  },
288
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  [ObjectTypes.Listing]: (data) => {
289
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  const model = data;
301
+ const commentNodes = this.createCommentsNode(model);
302
+ commentNodes.forEach((c) => this.comments.set(c.attrs.id, c));
290
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  return schema.nodes.listing.createChecked({
291
304
  id: model._id,
292
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  contents: model.contents,
293
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  language: model.language,
294
307
  languageKey: model.languageKey,
295
- comments: this.createCommentsNode(model),
308
+ comments: commentNodes.map((c) => c.attrs.id),
296
309
  });
297
310
  },
298
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  [ObjectTypes.ListingElement]: (data) => {
@@ -312,11 +325,13 @@ export class Decoder {
312
325
  throw new MissingElement(model.containedObjectID);
313
326
  }
314
327
  const figcaption = this.getFigcaption(model);
328
+ const commentNodes = this.createCommentsNode(model);
329
+ commentNodes.forEach((c) => this.comments.set(c.attrs.id, c));
315
330
  return schema.nodes.listing_element.createChecked({
316
331
  id: model._id,
317
332
  suppressCaption: model.suppressCaption,
318
333
  suppressTitle: Boolean(model.suppressTitle === undefined ? true : model.suppressTitle),
319
- comments: this.createCommentsNode(model),
334
+ comments: commentNodes.map((c) => c.attrs.id),
320
335
  }, [listing, figcaption]);
321
336
  },
322
337
  [ObjectTypes.MissingFigure]: (data) => {
@@ -328,12 +343,14 @@ export class Decoder {
328
343
  },
329
344
  [ObjectTypes.ParagraphElement]: (data) => {
330
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  const model = data;
346
+ const commentNodes = this.createCommentsNode(model);
347
+ commentNodes.forEach((c) => this.comments.set(c.attrs.id, c));
331
348
  return this.parseContents(model.contents || '<p></p>', undefined, this.getComments(model), {
332
349
  topNode: schema.nodes.paragraph.create({
333
350
  id: model._id,
334
351
  paragraphStyle: model.paragraphStyle,
335
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  placeholder: model.placeholderInnerHTML,
336
- comments: this.createCommentsNode(model),
353
+ comments: commentNodes.map((c) => c.attrs.id),
337
354
  }),
338
355
  });
339
356
  },
@@ -408,6 +425,8 @@ export class Decoder {
408
425
  .map(this.creators[ObjectTypes.Section]);
409
426
  const sectionCategory = model.category || guessSectionCategory(elements);
410
427
  const sectionNodeType = chooseSectionNodeType(sectionCategory);
428
+ const commentNodes = this.createCommentsNode(model);
429
+ commentNodes.forEach((c) => this.comments.set(c.attrs.id, c));
411
430
  const content = (sectionLabelNode
412
431
  ? [sectionLabelNode, sectionTitleNode]
413
432
  : [sectionTitleNode])
@@ -419,7 +438,7 @@ export class Decoder {
419
438
  titleSuppressed: model.titleSuppressed,
420
439
  pageBreakStyle: model.pageBreakStyle,
421
440
  generatedLabel: model.generatedLabel,
422
- comments: this.createCommentsNode(model),
441
+ comments: commentNodes.map((c) => c.attrs.id),
423
442
  }, content);
424
443
  if (!sectionNode) {
425
444
  console.error(model);
@@ -429,10 +448,12 @@ export class Decoder {
429
448
  },
430
449
  [ObjectTypes.Table]: (data) => {
431
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  const model = data;
451
+ const commentNodes = this.createCommentsNode(model);
452
+ commentNodes.forEach((c) => this.comments.set(c.attrs.id, c));
432
453
  return this.parseContents(model.contents, undefined, this.getComments(model), {
433
454
  topNode: schema.nodes.table.create({
434
455
  id: model._id,
435
- comments: this.createCommentsNode(model),
456
+ comments: commentNodes.map((c) => c.attrs.id),
436
457
  }),
437
458
  });
438
459
  },
@@ -453,6 +474,8 @@ export class Decoder {
453
474
  throw new MissingElement(model.containedObjectID);
454
475
  }
455
476
  const figcaption = this.getFigcaption(model);
477
+ const commentNodes = this.createCommentsNode(model);
478
+ commentNodes.forEach((c) => this.comments.set(c.attrs.id, c));
456
479
  const content = [table, figcaption];
457
480
  if (model.listingID) {
458
481
  const listingModel = this.getModel(model.listingID);
@@ -484,7 +507,7 @@ export class Decoder {
484
507
  suppressHeader: model.suppressHeader,
485
508
  tableStyle: model.tableStyle,
486
509
  paragraphStyle: model.paragraphStyle,
487
- comments: this.createCommentsNode(model),
510
+ comments: commentNodes.map((c) => c.attrs.id),
488
511
  }, content);
489
512
  },
490
513
  [ObjectTypes.TOCElement]: (data) => {
@@ -526,9 +549,16 @@ export class Decoder {
526
549
  id: generateNodeID(schema.nodes.section),
527
550
  }));
528
551
  }
552
+ const contents = rootSectionNodes;
553
+ if (this.comments.size) {
554
+ const comments = schema.nodes.comment_list.createAndFill({
555
+ id: generateNodeID(schema.nodes.comment_list),
556
+ }, [...this.comments.values()]);
557
+ contents.push(comments);
558
+ }
529
559
  return schema.nodes.manuscript.create({
530
560
  id: manuscriptID || this.getManuscriptID(),
531
- }, rootSectionNodes);
561
+ }, contents);
532
562
  };
533
563
  this.addGeneratedLabels = (sections) => {
534
564
  const nextLableCount = { Appendix: 1 };
@@ -13,7 +13,7 @@
13
13
  * See the License for the specific language governing permissions and
14
14
  * limitations under the License.
15
15
  */
16
- import { ObjectTypes } from '@manuscripts/manuscripts-json-schema';
16
+ import { ObjectTypes } from '@manuscripts/json-schema';
17
17
  export const documentObjectTypes = [
18
18
  ObjectTypes.BibliographyElement,
19
19
  ObjectTypes.EquationElement,
@@ -17,7 +17,7 @@ import { DOMSerializer } from 'prosemirror-model';
17
17
  import serializeToXML from 'w3c-xmlserializer';
18
18
  import { iterateChildren } from '../lib/utils';
19
19
  import { isHighlightMarkerNode, isSectionNode, schema, } from '../schema';
20
- import { buildAttribution, buildComment } from './builders';
20
+ import { buildAttribution } from './builders';
21
21
  import { extractHighlightMarkers, isHighlightableModel, } from './highlight-markers';
22
22
  import { nodeTypesMap } from './node-types';
23
23
  import { buildSectionCategory } from './section-category';
@@ -493,16 +493,6 @@ export const modelFromNode = (node, parent, path, priority) => {
493
493
  const model = data;
494
494
  if (isHighlightableModel(model)) {
495
495
  extractHighlightMarkers(model, commentAnnotationsMap);
496
- if (node.attrs.comments) {
497
- const commentNodes = node.attrs.comments;
498
- commentNodes
499
- .filter((commentNode) => !commentNode.attrs.selector)
500
- .forEach((c) => {
501
- const commentAnnotation = buildComment(model._id, c.attrs.contents, c.attrs.selector);
502
- commentAnnotation._id = c.attrs.id;
503
- commentAnnotationsMap.set(commentAnnotation._id, commentAnnotation);
504
- });
505
- }
506
496
  }
507
497
  return { model, commentAnnotationsMap };
508
498
  };
@@ -519,6 +509,9 @@ export const encode = (node) => {
519
509
  if (isHighlightMarkerNode(child)) {
520
510
  return;
521
511
  }
512
+ if (child.type === schema.nodes.comment_list) {
513
+ return;
514
+ }
522
515
  if (placeholders.includes(child.type.name)) {
523
516
  return;
524
517
  }
@@ -530,6 +523,14 @@ export const encode = (node) => {
530
523
  commentAnnotationsMap.forEach((val, key) => models.set(key, val));
531
524
  child.forEach(addModel(path.concat(child.attrs.id), child));
532
525
  };
526
+ node.forEach((cNode) => {
527
+ if (cNode.type === schema.nodes.comment_list) {
528
+ cNode.forEach((child) => {
529
+ const { model } = modelFromNode(child, cNode, [], priority);
530
+ models.set(model._id, model);
531
+ });
532
+ }
533
+ });
533
534
  node.forEach(addModel([], node));
534
535
  return models;
535
536
  };
@@ -13,7 +13,7 @@
13
13
  * See the License for the specific language governing permissions and
14
14
  * limitations under the License.
15
15
  */
16
- import { ObjectTypes, } from '@manuscripts/manuscripts-json-schema';
16
+ import { ObjectTypes, } from '@manuscripts/json-schema';
17
17
  import { DOMSerializer } from 'prosemirror-model';
18
18
  import serializeToXML from 'w3c-xmlserializer';
19
19
  import { createCounter } from '../jats/jats-exporter';
@@ -33,6 +33,5 @@ export * from './project-bundle';
33
33
  export * from './section-category';
34
34
  export * from './serializer';
35
35
  export * from './shared-data';
36
- export * from './tei-grobid-importer';
37
36
  export * from './timestamp';
38
37
  export * from './update-identifiers';
@@ -46,8 +46,7 @@ export const buildTargets = (fragment, manuscript) => {
46
46
  };
47
47
  }
48
48
  const buildLabel = (type) => {
49
- const viewLabel = type;
50
- const counter = counters[viewLabel.name];
49
+ const counter = counters[type.name];
51
50
  counter.index++;
52
51
  return `${counter.label} ${counter.index}`;
53
52
  };
@@ -9,7 +9,7 @@ var __rest = (this && this.__rest) || function (s, e) {
9
9
  }
10
10
  return t;
11
11
  };
12
- import { ObjectTypes, } from '@manuscripts/manuscripts-json-schema';
12
+ import { ObjectTypes, } from '@manuscripts/json-schema';
13
13
  import { generateID } from './id';
14
14
  import { hasObjectType } from './object-types';
15
15
  import { loadSharedData } from './shared-data';
@@ -13,7 +13,7 @@
13
13
  * See the License for the specific language governing permissions and
14
14
  * limitations under the License.
15
15
  */
16
- import { ObjectTypes } from '@manuscripts/manuscripts-json-schema';
16
+ import { ObjectTypes } from '@manuscripts/json-schema';
17
17
  import { GROUP_ELEMENT, GROUP_EXECUTABLE, GROUP_SECTION, hasGroup, schema, } from '../schema';
18
18
  export const nodeTypesMap = new Map([
19
19
  [schema.nodes.comment, ObjectTypes.CommentAnnotation],
@@ -48,6 +48,7 @@ export const nodeTypesMap = new Map([
48
48
  [schema.nodes.table_element, ObjectTypes.TableElement],
49
49
  [schema.nodes.toc_element, ObjectTypes.TOCElement],
50
50
  [schema.nodes.toc_section, ObjectTypes.Section],
51
+ [schema.nodes.comment_list, ObjectTypes.MetaSection],
51
52
  ]);
52
53
  export const isExecutableNodeType = (type) => hasGroup(type, GROUP_EXECUTABLE);
53
54
  export const isElementNodeType = (type) => hasGroup(type, GROUP_ELEMENT);
@@ -13,7 +13,7 @@
13
13
  * See the License for the specific language governing permissions and
14
14
  * limitations under the License.
15
15
  */
16
- import { manuscriptIDTypes, ObjectTypes, } from '@manuscripts/manuscripts-json-schema';
16
+ import { manuscriptIDTypes, ObjectTypes, } from '@manuscripts/json-schema';
17
17
  export var ExtraObjectTypes;
18
18
  (function (ExtraObjectTypes) {
19
19
  ExtraObjectTypes["PlaceholderElement"] = "MPPlaceholderElement";
@@ -13,7 +13,7 @@
13
13
  * See the License for the specific language governing permissions and
14
14
  * limitations under the License.
15
15
  */
16
- import { ObjectTypes, } from '@manuscripts/manuscripts-json-schema';
16
+ import { ObjectTypes, } from '@manuscripts/json-schema';
17
17
  import { Decoder } from './decode';
18
18
  import { hasObjectType } from './object-types';
19
19
  export const parseProjectBundle = (projectBundle, manuscriptID) => {
@@ -13,7 +13,7 @@
13
13
  * See the License for the specific language governing permissions and
14
14
  * limitations under the License.
15
15
  */
16
- import { ObjectTypes } from '@manuscripts/manuscripts-json-schema';
16
+ import { ObjectTypes } from '@manuscripts/json-schema';
17
17
  import { schema } from '../schema';
18
18
  const sectionNodeTypes = [
19
19
  schema.nodes.bibliography_section,
@@ -13,7 +13,7 @@
13
13
  * See the License for the specific language governing permissions and
14
14
  * limitations under the License.
15
15
  */
16
- import { BibliographyItem } from '@manuscripts/manuscripts-json-schema';
16
+ import { BibliographyItem } from '@manuscripts/json-schema';
17
17
  export declare const jatsBodyTransformations: {
18
18
  ensureSection(body: Element, createElement: (tagName: string) => HTMLElement): void;
19
19
  createAbstract(abstractNode: Element, createElement: (tagName: string) => HTMLElement): HTMLElement;
@@ -13,7 +13,7 @@
13
13
  * See the License for the specific language governing permissions and
14
14
  * limitations under the License.
15
15
  */
16
- import { BibliographyItem, CommentAnnotation, Model } from '@manuscripts/manuscripts-json-schema';
16
+ import { BibliographyItem, CommentAnnotation, Model } from '@manuscripts/json-schema';
17
17
  import { Build } from '../../transformer';
18
18
  type ProcessingInstruction = {
19
19
  id: string;
@@ -13,7 +13,7 @@
13
13
  * See the License for the specific language governing permissions and
14
14
  * limitations under the License.
15
15
  */
16
- import { Bundle, Journal, Keyword, KeywordGroup } from '@manuscripts/manuscripts-json-schema';
16
+ import { Bundle, Journal, Keyword, KeywordGroup } from '@manuscripts/json-schema';
17
17
  import { Build } from '../../transformer/builders';
18
18
  import { ISSN } from './jats-journal-meta-parser';
19
19
  export declare const jatsFrontParser: {
@@ -45,18 +45,18 @@ export declare const jatsFrontParser: {
45
45
  revisionReceiveDate?: number | undefined;
46
46
  receiveDate?: number | undefined;
47
47
  } | undefined;
48
- parseSupplements(supplementNodes: Element[] | null): Build<import("@manuscripts/manuscripts-json-schema").Supplement>[];
48
+ parseSupplements(supplementNodes: Element[] | null): Build<import("@manuscripts/json-schema").Supplement>[];
49
49
  parseAffiliationNodes(affiliationNodes: Element[]): {
50
- affiliations: Build<import("@manuscripts/manuscripts-json-schema").Affiliation>[];
50
+ affiliations: Build<import("@manuscripts/json-schema").Affiliation>[];
51
51
  affiliationIDs: Map<string, string>;
52
52
  };
53
53
  parseFootnoteNodes(footnoteNodes: Element[]): {
54
- footnotes: Build<import("@manuscripts/manuscripts-json-schema").Footnote>[];
54
+ footnotes: Build<import("@manuscripts/json-schema").Footnote>[];
55
55
  footnoteIDs: Map<string, string>;
56
56
  };
57
57
  parseCorrespNodes(correspNodes: Element[]): {
58
- correspondingList: Build<import("@manuscripts/manuscripts-json-schema").Corresponding>[];
58
+ correspondingList: Build<import("@manuscripts/json-schema").Corresponding>[];
59
59
  correspondingIDs: Map<string, string>;
60
60
  };
61
- parseAuthorNodes(authorNodes: Element[], affiliationIDs: Map<string, string>, footnoteIDs: Map<string, string>, correspondingIDs: Map<string, string>): Build<import("@manuscripts/manuscripts-json-schema").Contributor>[];
61
+ parseAuthorNodes(authorNodes: Element[], affiliationIDs: Map<string, string>, footnoteIDs: Map<string, string>, correspondingIDs: Map<string, string>): Build<import("@manuscripts/json-schema").Contributor>[];
62
62
  };
@@ -13,7 +13,7 @@
13
13
  * See the License for the specific language governing permissions and
14
14
  * limitations under the License.
15
15
  */
16
- import { Model } from '@manuscripts/manuscripts-json-schema';
16
+ import { Model } from '@manuscripts/json-schema';
17
17
  import { ManuscriptNode } from '../../schema';
18
18
  export declare function flatten<T>(arrays: T[][]): T[];
19
19
  export declare const fixBodyPMNode: (output: ManuscriptNode, models: Model[], referenceIdsMap?: Map<string, string>) => {
@@ -15,9 +15,9 @@
15
15
  */
16
16
  export declare const jatsReferenceParser: {
17
17
  parseReferences(referenceNodes: Element[], createElement: (tagName: string) => HTMLElement): {
18
- references: import("../../transformer/builders").Build<import("@manuscripts/manuscripts-json-schema").BibliographyItem>[];
18
+ references: import("../../transformer/builders").Build<import("@manuscripts/json-schema").BibliographyItem>[];
19
19
  referenceIDs: Map<string, string>;
20
20
  referenceQueries: Map<string, string[]>;
21
21
  };
22
- parseCrossReferences(crossReferenceNodes: Element[], referenceIDs: Map<string, string>): (import("../../transformer/builders").Build<import("@manuscripts/manuscripts-json-schema").AuxiliaryObjectReference> | import("../../transformer/builders").Build<import("@manuscripts/manuscripts-json-schema").Citation>)[];
22
+ 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>)[];
23
23
  };
@@ -13,11 +13,11 @@
13
13
  * See the License for the specific language governing permissions and
14
14
  * limitations under the License.
15
15
  */
16
- import { BibliographyItem, ElementsOrder, FootnotesOrder, Model } from '@manuscripts/manuscripts-json-schema';
16
+ import { BibliographyItem, ElementsOrder, FootnotesOrder, Model } from '@manuscripts/json-schema';
17
17
  import { ManuscriptNode } from '../../schema';
18
18
  export declare const parseJATSFront: (front: Element) => Promise<{
19
19
  models: Model[];
20
- bundles: import("@manuscripts/manuscripts-json-schema").Bundle[];
20
+ bundles: import("@manuscripts/json-schema").Bundle[];
21
21
  }>;
22
22
  export declare const parseJATSReferences: (back: Element | null, body: Element | null, createElement: (tagName: string) => HTMLElement) => {
23
23
  references: Model[];