@manuscripts/transform 4.3.53 → 4.4.0

package/src/jats/__tests__/__fixtures__/math-fragment.xml

@@ -0,0 +1,12 @@
+<mml:math xmlns:mml='http://www.w3.org/1998/Math/MathML'>
+  <mml:mrow>
+    <mml:mi>cos</mml:mi>
+    <mml:mo>&#8289;</mml:mo>
+    <mml:mo>(</mml:mo>
+    <mml:msup>
+      <mml:mi>x</mml:mi>
+      <mml:mn>3</mml:mn>
+    </mml:msup>
+    <mml:mo>)</mml:mo>
+  </mml:mrow>
+</mml:math>

package/src/jats/__tests__/__snapshots__/citeproc.test.ts.snap

@@ -0,0 +1,57 @@
+// Vitest Snapshot v1, https://vitest.dev/guide/snapshot.html
+
+exports[`Export formatted references > Export references in AMA style > bib1 1`] = `"<ref id=\\"bib1\\"><label>1. </label><mixed-citation publication-type=\\"journal\\"><person-group person-group-type=\\"author\\"><string-name><surname>Doe</surname> <given-names>J</given-names></string-name>, <string-name><surname>Smith</surname> <given-names>J</given-names></string-name></person-group>. <article-title>Advancements in Artificial Intelligence</article-title>. <source><italic>AI Research Journal</italic></source>. <year>2021</year>;<volume>18</volume><issue>(2)</issue>:<fpage>45</fpage>-<lpage>60</lpage>. doi:<pub-id pub-id-type=\\"doi\\">10.1000/xyz123</pub-id></mixed-citation></ref>"`;
+
+exports[`Export formatted references > Export references in AMA style > bib1-citation 1`] = `"<sup>1</sup>"`;
+
+exports[`Export formatted references > Export references in AMA style > bib2 1`] = `"<ref id=\\"bib2\\"><label>2. </label><mixed-citation publication-type=\\"book\\"><person-group person-group-type=\\"author\\"><string-name><surname>Brown</surname> <given-names>M</given-names></string-name>, <string-name><surname>Green</surname> <given-names>A</given-names></string-name></person-group>. Vol <volume>1</volume>. <edition>2nd</edition> ed. (<person-group person-group-type=\\"editor\\"><string-name><surname>Williams</surname> <given-names>D</given-names></string-name>, <string-name><surname>Taylor</surname> <given-names>S</given-names></string-name>, eds</person-group>.). <publisher-loc>New York, USA</publisher-loc>: <publisher-name>Springer</publisher-name>; <year>2020</year>. <ext-link ext-link-type=\\"uri\\" xlink:href=\\"https://doi.org/10.1000/xyz123\\">https://doi.org/10.1000/xyz123</ext-link>.</mixed-citation></ref>"`;
+
+exports[`Export formatted references > Export references in AMA style > bib2-citation 1`] = `"<sup>2</sup>"`;
+
+exports[`Export formatted references > Export references in AMA style > bib3 1`] = `"<ref id=\\"bib3\\"><label>3. </label><mixed-citation publication-type=\\"chapter\\"><person-group person-group-type=\\"author\\"><string-name><surname>Miller</surname> <given-names>S</given-names></string-name></person-group>. <part-title>Machine Learning Applications</part-title>. In: <source><italic>Handbook of AI</italic></source>. <publisher-name>Oxford University Press</publisher-name>; <year>2022</year>:<fpage>105</fpage>-<lpage>120</lpage>.</mixed-citation></ref>"`;
+
+exports[`Export formatted references > Export references in AMA style > bib3-citation 1`] = `"<sup>3</sup>"`;
+
+exports[`Export formatted references > Export references in AMA style > bib4 1`] = `"<ref id=\\"bib4\\"><label>4. </label><mixed-citation publication-type=\\"confproc\\"><person-group person-group-type=\\"author\\"><string-name><surname>Johnson</surname> <given-names>E</given-names></string-name></person-group>. <part-title>Deep Learning in Image Processing</part-title>. <source><italic>Proceedings of the International Conference on Machine Learning</italic></source>. <year>2019</year>:<fpage>223</fpage>-<lpage>230</lpage>. <ext-link ext-link-type=\\"uri\\" xlink:href=\\"https://icml2019.org/papers/223\\">https://icml2019.org/papers/223</ext-link>.</mixed-citation></ref>"`;
+
+exports[`Export formatted references > Export references in AMA style > bib4-citation 1`] = `"<sup>4</sup>"`;
+
+exports[`Export formatted references > Export references in AMA style > bib5 1`] = `"<ref id=\\"bib5\\"><label>5. </label><mixed-citation publication-type=\\"thesis\\"><person-group person-group-type=\\"author\\"><string-name><surname>Garcia</surname> <given-names>D</given-names></string-name></person-group>. <part-title>Neural Networks for Natural Language Processing</part-title>. <year>2021</year>. doi:<pub-id pub-id-type=\\"doi\\">10.1234/thesis2021</pub-id></mixed-citation></ref>"`;
+
+exports[`Export formatted references > Export references in AMA style > bib5-citation 1`] = `"<sup>5</sup>"`;
+
+exports[`Export formatted references > Export references in AMA style > bib6 1`] = `"<ref id=\\"bib6\\"><label>6. </label><mixed-citation publication-type=\\"page\\"><person-group person-group-type=\\"author\\"><string-name><surname>Jones</surname> <given-names>S</given-names></string-name></person-group>. <part-title>Big Data Trends in 2023</part-title>. <source>Data Science Blog</source>. <ext-link ext-link-type=\\"uri\\" xlink:href=\\"https://www.datascienceblog.com/big-data-2023\\">https://www.datascienceblog.com/big-data-2023</ext-link>. Published <year>2023</year>. Accessed <date-in-citation content-type=\\"access-date\\" iso-8601-date=\\"2024-02-15\\">February 15, 2024</date-in-citation>.</mixed-citation></ref>"`;
+
+exports[`Export formatted references > Export references in AMA style > bib6-citation 1`] = `"<sup>6</sup>"`;
+
+exports[`Export formatted references > Export references in AMA style > bib7 1`] = `"<ref id=\\"bib7\\"><label>7. </label><mixed-citation publication-type=\\"other\\"><person-group person-group-type=\\"author\\"><string-name><surname>Adams</surname> <given-names>L</given-names></string-name></person-group>. <part-title>Private Research Report on AI Ethics</part-title>. <source><italic>Internal Research Report</italic></source>. <year>2022</year>.</mixed-citation></ref>"`;
+
+exports[`Export formatted references > Export references in AMA style > bib7-citation 1`] = `"<sup>7</sup>"`;
+
+exports[`Export formatted references > Export references in Chicago Author Date style > bib1 1`] = `"<ref id=\\"bib1\\"><mixed-citation publication-type=\\"journal\\"><person-group person-group-type=\\"author\\"><string-name><surname>Doe</surname>, <given-names>John</given-names></string-name>, and <string-name><given-names>Jane</given-names> <surname>Smith</surname></string-name></person-group>. <year>2021</year>. <article-title>“Advancements in Artificial Intelligence.”</article-title> <source><italic>AI Research Journal</italic></source> <volume>18</volume> (<issue>2</issue>): <fpage>45</fpage>–<lpage>60</lpage>. <pub-id pub-id-type=\\"doi\\">https://doi.org/10.1000/xyz123</pub-id>.</mixed-citation></ref>"`;
+
+exports[`Export formatted references > Export references in Chicago Author Date style > bib1-citation 1`] = `"(Doe and Smith 2021)"`;
+
+exports[`Export formatted references > Export references in Chicago Author Date style > bib2 1`] = `"<ref id=\\"bib2\\"><mixed-citation publication-type=\\"book\\"><person-group person-group-type=\\"author\\"><string-name><surname>Brown</surname>, <given-names>Michael</given-names></string-name>, and <string-name><given-names>Anna</given-names> <surname>Green</surname></string-name></person-group>. <year>2020</year>. <person-group person-group-type=\\"editor\\">Edited by <string-name><given-names>David</given-names> <surname>Williams</surname></string-name> and <string-name><given-names>Sophia</given-names> <surname>Taylor</surname></string-name></person-group>. <source><italic>Introduction to Data Science</italic></source>. <edition>2nd</edition> ed. Vol. <volume>1</volume>. <series>Data Science Series</series>. <publisher-loc>New York, USA</publisher-loc>: <publisher-name>Springer</publisher-name>. <ext-link ext-link-type=\\"uri\\" xlink:href=\\"https://doi.org/10.1000/xyz123\\">https://doi.org/10.1000/xyz123</ext-link>.</mixed-citation></ref>"`;
+
+exports[`Export formatted references > Export references in Chicago Author Date style > bib2-citation 1`] = `"(Brown and Green 2020)"`;
+
+exports[`Export formatted references > Export references in Chicago Author Date style > bib3 1`] = `"<ref id=\\"bib3\\"><mixed-citation publication-type=\\"chapter\\"><person-group person-group-type=\\"author\\"><string-name><surname>Miller</surname>, <given-names>Susan</given-names></string-name></person-group>. <year>2022</year>. <part-title>“Machine Learning Applications.”</part-title> In <source><italic>Handbook of AI</italic></source>, <fpage>105</fpage>–<lpage>20</lpage>. <publisher-name>Oxford University Press</publisher-name>.</mixed-citation></ref>"`;
+
+exports[`Export formatted references > Export references in Chicago Author Date style > bib3-citation 1`] = `"(Miller 2022)"`;
+
+exports[`Export formatted references > Export references in Chicago Author Date style > bib4 1`] = `"<ref id=\\"bib4\\"><mixed-citation publication-type=\\"confproc\\"><person-group person-group-type=\\"author\\"><string-name><surname>Johnson</surname>, <given-names>Emily</given-names></string-name></person-group>. <year>2019</year>. <part-title>“Deep Learning in Image Processing.”</part-title> <source><italic>Proceedings of the International Conference on Machine Learning</italic></source>. <publisher-loc>New York, USA</publisher-loc>: <publisher-name>IEEE</publisher-name>. <ext-link ext-link-type=\\"uri\\" xlink:href=\\"https://icml2019.org/papers/223\\">https://icml2019.org/papers/223</ext-link>.</mixed-citation></ref>"`;
+
+exports[`Export formatted references > Export references in Chicago Author Date style > bib4-citation 1`] = `"(Johnson 2019)"`;
+
+exports[`Export formatted references > Export references in Chicago Author Date style > bib5 1`] = `"<ref id=\\"bib5\\"><mixed-citation publication-type=\\"thesis\\"><person-group person-group-type=\\"author\\"><string-name><surname>Garcia</surname>, <given-names>Daniel</given-names></string-name></person-group>. <year>2021</year>. <part-title>“Neural Networks for Natural Language Processing.”</part-title> <pub-id pub-id-type=\\"doi\\">https://doi.org/10.1234/thesis2021</pub-id>.</mixed-citation></ref>"`;
+
+exports[`Export formatted references > Export references in Chicago Author Date style > bib5-citation 1`] = `"(Garcia 2021)"`;
+
+exports[`Export formatted references > Export references in Chicago Author Date style > bib6 1`] = `"<ref id=\\"bib6\\"><mixed-citation publication-type=\\"page\\"><person-group person-group-type=\\"author\\"><string-name><surname>Jones</surname>, <given-names>Sarah</given-names></string-name></person-group>. <year>2023</year>. <part-title>“Big Data Trends in 2023.”</part-title> <source>Data Science Blog</source>. <year>2023</year>. <ext-link ext-link-type=\\"uri\\" xlink:href=\\"https://www.datascienceblog.com/big-data-2023\\">https://www.datascienceblog.com/big-data-2023</ext-link>.</mixed-citation></ref>"`;
+
+exports[`Export formatted references > Export references in Chicago Author Date style > bib6-citation 1`] = `"(Jones 2023)"`;
+
+exports[`Export formatted references > Export references in Chicago Author Date style > bib7 1`] = `"<ref id=\\"bib7\\"><mixed-citation publication-type=\\"other\\"><person-group person-group-type=\\"author\\"><string-name><surname>Adams</surname>, <given-names>Lisa</given-names></string-name></person-group>. <year>2022</year>. <part-title>“Private Research Report on AI Ethics.”</part-title> <source><italic>Internal Research Report</italic></source>. <publisher-name>AI Ethics Initiative</publisher-name>.</mixed-citation></ref>"`;
+
+exports[`Export formatted references > Export references in Chicago Author Date style > bib7-citation 1`] = `"(Adams 2022)"`;

package/src/jats/__tests__/__snapshots__/create-article-node.test.ts.snap

@@ -0,0 +1,65 @@
+// Vitest Snapshot v1, https://vitest.dev/guide/snapshot.html
+
+exports[`Create empty document > should create an empty document 1`] = `
+Object {
+  "attrs": Object {
+    "acceptanceDate": undefined,
+    "articleType": "research-article",
+    "correctionDate": undefined,
+    "doi": "",
+    "id": "manuscript:123",
+    "primaryLanguageCode": "",
+    "prototype": "",
+    "receiveDate": undefined,
+    "retractionDate": undefined,
+    "revisionReceiveDate": undefined,
+    "revisionRequestDate": undefined,
+  },
+  "content": Array [
+    Object {
+      "attrs": Object {
+        "dataTracked": null,
+        "id": "MPTitle:test",
+        "placeholder": "Insert title here...",
+      },
+      "type": "title",
+    },
+    Object {
+      "attrs": Object {
+        "id": "MPAbstracts:test",
+      },
+      "type": "abstracts",
+    },
+    Object {
+      "attrs": Object {
+        "id": "MPBody:test",
+      },
+      "content": Array [
+        Object {
+          "attrs": Object {
+            "dataTracked": null,
+            "id": "MPParagraph:test",
+            "placeholder": "",
+          },
+          "type": "paragraph",
+        },
+      ],
+      "type": "body",
+    },
+    Object {
+      "attrs": Object {
+        "id": "MPBackmatter:test",
+        "placeholder": " ",
+      },
+      "type": "backmatter",
+    },
+    Object {
+      "attrs": Object {
+        "id": "MPComments:test",
+      },
+      "type": "comments",
+    },
+  ],
+  "type": "manuscript",
+}
+`;

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

@@ -0,0 +1,7 @@
+// Vitest Snapshot v1, https://vitest.dev/guide/snapshot.html
+
+exports[`JATS exporter > export latest version > jats-export 1`] = `"<!DOCTYPE article PUBLIC \\"-//NLM//DTD JATS (Z39.96) Journal Archiving and Interchange DTD with OASIS Tables with MathML3 v1.2 20190208//EN\\" \\"http://jats.nlm.nih.gov/archiving/1.2/JATS-archive-oasis-article1-mathml3.dtd\\"><article xmlns:xlink=\\"http://www.w3.org/1999/xlink\\" article-type=\\"research-article\\" xml:lang=\\"en\\"><front><article-meta><title-group><article-title>This is the Article Title</article-title><subtitle>Which has a Subtitle</subtitle></title-group><contrib-group content-type=\\"authors\\"><contrib contrib-type=\\"author\\" id=\\"contrib-1\\" corresp=\\"yes\\"><role>Member, IEEE</role><name><surname>Day</surname><given-names>Nathan</given-names></name><xref ref-type=\\"aff\\" rid=\\"aff-1\\"><sup>1</sup></xref><xref ref-type=\\"fn\\" rid=\\"fn-1\\"><sup>2</sup></xref><xref ref-type=\\"corresp\\" rid=\\"corresp-1\\"><sup>3</sup></xref></contrib><aff id=\\"aff-1\\"><label>1</label><institution>University of Life</institution>, <addr-line>Houston, TX</addr-line>, <city>Houston</city>, <state>TX</state>, <country>USA</country></aff></contrib-group><author-notes><corresp id=\\"corresp-1\\"><label>*</label>Correspondence: nday@inera.com.</corresp><fn id=\\"fn-1\\"><p>Author_Footnote.</p></fn><fn id=\\"fn-2\\"><p>DisclaimerThis is an unlabelled author footnote with a separate title.</p></fn><fn fn-type=\\"coi-statement\\"><label>Competing Interests</label><p id=\\"p-1\\">This is information about Competing Interests.</p></fn></author-notes><history><date date-type=\\"accepted\\"><day>12</day><month>05</month><year>2009</year></date><date date-type=\\"received\\"><day>01</day><month>04</month><year>2009</year></date><date date-type=\\"rev-recd\\"><day>02</day><month>05</month><year>2009</year></date></history><abstract abstract-type=\\"teaser\\"><p id=\\"p-2\\">The direct interaction of phenobarbital with the epidermal growth factor receptor reveals a new network interface in nuclear receptor signaling.</p></abstract><abstract><sec id=\\"sec-1\\" sec-type=\\"intro\\"><title>Introduction</title><p id=\\"p-3\\">This is a sectionalized abstract.</p></sec><sec id=\\"sec-2\\" sec-type=\\"results\\"><title>Results</title><p id=\\"p-4\\">These are the results of the experiment.</p></sec></abstract><kwd-group kwd-group-type=\\"author\\"><kwd>Paragraphs</kwd><kwd>exporting</kwd><kwd>testing</kwd><kwd>NLM DTD</kwd></kwd-group><counts><fig-count count=\\"1\\"/><ref-count count=\\"1\\"/><word-count count=\\"190\\"/></counts></article-meta></front><body><sec id=\\"sec-3\\" sec-type=\\"intro\\"><title>Introduction</title><sec id=\\"sec-4\\"><title>A level 2 subhead</title><sec id=\\"sec-5\\"><title>A level 3 subhead</title><sec id=\\"sec-6\\"><title>A level 4 subhead</title><sec id=\\"sec-7\\"><title>A level 5 subhead</title></sec></sec></sec></sec></sec><sec id=\\"sec-8\\" sec-type=\\"methods\\"><title>Materials and Methods</title><p id=\\"p-5\\">Some more text</p></sec><sec id=\\"sec-9\\" sec-type=\\"results\\"><title>Results</title><p id=\\"p-6\\">Some text that introduces a poem:</p><p id=\\"p-7\\">Poetry Source: Wikipedia</p><p id=\\"p-8\\">You might1 peruse, e.g., <xref rid=\\"boxed-text-1\\">Box 1</xref>. See also .</p><boxed-text id=\\"boxed-text-1\\"><label>Box 1</label><caption><title>Boxed boxes.</title></caption><sec id=\\"sec-10\\"><title>Box_Head_1</title><sec id=\\"sec-11\\"><title>Box_Head_2</title><p id=\\"p-9\\">Box_Text<xref ref-type=\\"fn\\" rid=\\"fn-5\\">c</xref></p></sec></sec></boxed-text><p id=\\"p-10\\">See also, <xref ref-type=\\"bibr\\" rid=\\"ref-1\\"><sup>1</sup></xref> and . Kinds of tables This is a table title continued paragraph Table_Head Table_Body* * Table_Footnote Block_Quote Source: Wikipedia Paragraph_Continued with a graphic in the middlewhere the paragraph continues.</p><sec id=\\"sec-12\\"><label>H<sub>1</sub></label><title>This is a hypothesis.</title><list list-type=\\"bullet\\"><list-item><p id=\\"p-11\\">Num_Bul_List_1</p><p id=\\"p-12\\">List_1_Continued</p><list list-type=\\"bullet\\"><list-item><p id=\\"p-13\\">Num_Bul_List_2</p><p id=\\"p-14\\">List_2_Continued</p></list-item></list></list-item><list-item><p id=\\"p-15\\">level 1, bullet 2</p></list-item></list></sec></sec><sec id=\\"sec-13\\" sec-type=\\"discussion\\"><title>Discussion</title><p id=\\"p-16\\">ParagraphUnnumbered_List_1 Another unnumbered itemwith another paragraph that continues after a list.</p></sec><sec id=\\"sec-14\\" sec-type=\\"conclusions\\"><title>Conclusions</title><p id=\\"p-17\\">Paragraph</p></sec></body><back><app-group><app><sec id=\\"sec-15\\" sec-type=\\"appendices\\"><label>Appendix A</label><title>This is an appendix</title><sec id=\\"sec-16\\"><title>Appendix_Head_1</title><sec id=\\"sec-17\\"><title>Appendix_Head_2</title><p id=\\"p-18\\">Appendix_Text</p></sec></sec></sec></app></app-group><ack><title>Acknowledgements</title><p id=\\"p-19\\">Acknowledgement</p></ack><sec id=\\"sec-18\\" sec-type=\\"availability\\"><title>Data availability</title><p id=\\"p-20\\">This is some information about data availability.</p></sec><sec id=\\"sec-19\\" sec-type=\\"ethics-statement\\"><title>Ethics statement</title><p id=\\"p-21\\">Paragraph, see<xref ref-type=\\"fn\\" rid=\\"fn-4\\">b</xref>  and <xref ref-type=\\"fig\\" rid=\\"fig-1\\">Figure 1</xref>.</p><fig id=\\"fig-1\\" fig-type=\\"half-right\\"><label>Figure 1</label><caption><p>A picture on the kinds of figures.</p><p>The Fig Caption continues.</p></caption><p id=\\"p-22\\">test paragraph</p><graphic xlink:href=\\"123412341234.fig1\\"/><attrib>Source: Wikipedia.</attrib></fig><fig id=\\"fig-2\\"><label>Figure 2</label><caption><p>A missing picture on the kinds of figures.</p><p>The Fig Caption continues.</p></caption><p id=\\"p-23\\">test paragraph</p><graphic specific-use=\\"MISSING\\" xlink:href=\\"\\"/><attrib>Source: Wikipedia.</attrib></fig></sec><fn-group><fn fn-type=\\"con\\"><label>Author Contributions</label><p id=\\"p-24\\">Author Contibutions are described here.</p></fn><fn fn-type=\\"financial-disclosure\\"><label>Financial Disclosure</label><p id=\\"p-25\\">This is a Financial Disclosure.</p></fn></fn-group><fn-group id=\\"fn-group-1\\"><title>Footnotes</title><fn id=\\"fn-3\\"><p id=\\"p-26\\">Box Note</p></fn><fn id=\\"fn-4\\"><p id=\\"p-27\\">This is a footnote.</p></fn><fn id=\\"fn-5\\"><p id=\\"p-28\\">Footnote called out in a box</p></fn></fn-group><ref-list><ref id=\\"ref-1\\"><label>1. </label><mixed-citation publication-type=\\"journal\\"><person-group person-group-type=\\"author\\"><string-name><surname>Day</surname> <given-names>RN</given-names></string-name></person-group>. <article-title>This is the article title</article-title>. <source><italic>EDCC</italic></source>. <year>2008</year>;<volume>3</volume><issue>(2)</issue>:<fpage>123</fpage>-<lpage>134</lpage>.</mixed-citation></ref></ref-list></back></article>"`;
+
+exports[`JATS exporter > export v1.1 > jats-export-1.1 1`] = `"<!DOCTYPE article PUBLIC \\"-//NLM//DTD JATS (Z39.96) Journal Archiving and Interchange DTD with OASIS Tables with MathML3 v1.1 20151215//EN\\" \\"http://jats.nlm.nih.gov/archiving/1.1/JATS-archive-oasis-article1-mathml3.dtd\\"><article xmlns:xlink=\\"http://www.w3.org/1999/xlink\\" article-type=\\"research-article\\" xml:lang=\\"en\\"><front><article-meta><title-group><article-title>This is the Article Title</article-title><subtitle>Which has a Subtitle</subtitle></title-group><contrib-group content-type=\\"authors\\"><contrib contrib-type=\\"author\\" id=\\"contrib-1\\" corresp=\\"yes\\"><role>Member, IEEE</role><name><surname>Day</surname><given-names>Nathan</given-names></name><xref ref-type=\\"aff\\" rid=\\"aff-1\\"><sup>1</sup></xref><xref ref-type=\\"fn\\" rid=\\"fn-1\\"><sup>2</sup></xref><xref ref-type=\\"corresp\\" rid=\\"corresp-1\\"><sup>3</sup></xref></contrib><aff id=\\"aff-1\\"><label>1</label><institution>University of Life</institution>, <addr-line>Houston, TX</addr-line>, <city>Houston</city>, <state>TX</state>, <country>USA</country></aff></contrib-group><author-notes><corresp id=\\"corresp-1\\"><label>*</label>Correspondence: nday@inera.com.</corresp><fn id=\\"fn-1\\"><p>Author_Footnote.</p></fn><fn id=\\"fn-2\\"><p>DisclaimerThis is an unlabelled author footnote with a separate title.</p></fn><fn fn-type=\\"coi-statement\\"><label>Competing Interests</label><p id=\\"p-1\\">This is information about Competing Interests.</p></fn></author-notes><history><date date-type=\\"accepted\\"><day>12</day><month>05</month><year>2009</year></date><date date-type=\\"received\\"><day>01</day><month>04</month><year>2009</year></date><date date-type=\\"rev-recd\\"><day>02</day><month>05</month><year>2009</year></date></history><abstract abstract-type=\\"teaser\\"><p id=\\"p-2\\">The direct interaction of phenobarbital with the epidermal growth factor receptor reveals a new network interface in nuclear receptor signaling.</p></abstract><abstract><sec id=\\"sec-1\\" sec-type=\\"intro\\"><title>Introduction</title><p id=\\"p-3\\">This is a sectionalized abstract.</p></sec><sec id=\\"sec-2\\" sec-type=\\"results\\"><title>Results</title><p id=\\"p-4\\">These are the results of the experiment.</p></sec></abstract><kwd-group kwd-group-type=\\"author\\"><kwd>Paragraphs</kwd><kwd>exporting</kwd><kwd>testing</kwd><kwd>NLM DTD</kwd></kwd-group><counts><fig-count count=\\"1\\"/><ref-count count=\\"1\\"/><word-count count=\\"190\\"/></counts></article-meta></front><body><sec id=\\"sec-3\\" sec-type=\\"intro\\"><title>Introduction</title><sec id=\\"sec-4\\"><title>A level 2 subhead</title><sec id=\\"sec-5\\"><title>A level 3 subhead</title><sec id=\\"sec-6\\"><title>A level 4 subhead</title><sec id=\\"sec-7\\"><title>A level 5 subhead</title></sec></sec></sec></sec></sec><sec id=\\"sec-8\\" sec-type=\\"methods\\"><title>Materials and Methods</title><p id=\\"p-5\\">Some more text</p></sec><sec id=\\"sec-9\\" sec-type=\\"results\\"><title>Results</title><p id=\\"p-6\\">Some text that introduces a poem:</p><p id=\\"p-7\\">Poetry Source: Wikipedia</p><p id=\\"p-8\\">You might1 peruse, e.g., <xref rid=\\"boxed-text-1\\">Box 1</xref>. See also .</p><boxed-text id=\\"boxed-text-1\\"><label>Box 1</label><caption><title>Boxed boxes.</title></caption><sec id=\\"sec-10\\"><title>Box_Head_1</title><sec id=\\"sec-11\\"><title>Box_Head_2</title><p id=\\"p-9\\">Box_Text<xref ref-type=\\"fn\\" rid=\\"fn-5\\">c</xref></p></sec></sec></boxed-text><p id=\\"p-10\\">See also, <xref ref-type=\\"bibr\\" rid=\\"ref-1\\"><sup>1</sup></xref> and . Kinds of tables This is a table title continued paragraph Table_Head Table_Body* * Table_Footnote Block_Quote Source: Wikipedia Paragraph_Continued with a graphic in the middlewhere the paragraph continues.</p><sec id=\\"sec-12\\"><label>H<sub>1</sub></label><title>This is a hypothesis.</title><list list-type=\\"bullet\\"><list-item><p id=\\"p-11\\">Num_Bul_List_1</p><p id=\\"p-12\\">List_1_Continued</p><list list-type=\\"bullet\\"><list-item><p id=\\"p-13\\">Num_Bul_List_2</p><p id=\\"p-14\\">List_2_Continued</p></list-item></list></list-item><list-item><p id=\\"p-15\\">level 1, bullet 2</p></list-item></list></sec></sec><sec id=\\"sec-13\\" sec-type=\\"discussion\\"><title>Discussion</title><p id=\\"p-16\\">ParagraphUnnumbered_List_1 Another unnumbered itemwith another paragraph that continues after a list.</p></sec><sec id=\\"sec-14\\" sec-type=\\"conclusions\\"><title>Conclusions</title><p id=\\"p-17\\">Paragraph</p></sec></body><back><app-group><app><sec id=\\"sec-15\\" sec-type=\\"appendices\\"><label>Appendix A</label><title>This is an appendix</title><sec id=\\"sec-16\\"><title>Appendix_Head_1</title><sec id=\\"sec-17\\"><title>Appendix_Head_2</title><p id=\\"p-18\\">Appendix_Text</p></sec></sec></sec></app></app-group><ack><title>Acknowledgements</title><p id=\\"p-19\\">Acknowledgement</p></ack><sec id=\\"sec-18\\" sec-type=\\"availability\\"><title>Data availability</title><p id=\\"p-20\\">This is some information about data availability.</p></sec><sec id=\\"sec-19\\" sec-type=\\"ethics-statement\\"><title>Ethics statement</title><p id=\\"p-21\\">Paragraph, see<xref ref-type=\\"fn\\" rid=\\"fn-4\\">b</xref>  and <xref ref-type=\\"fig\\" rid=\\"fig-1\\">Figure 1</xref>.</p><fig id=\\"fig-1\\" fig-type=\\"half-right\\"><label>Figure 1</label><caption><p>A picture on the kinds of figures.</p><p>The Fig Caption continues.</p></caption><p id=\\"p-22\\">test paragraph</p><graphic xlink:href=\\"123412341234.fig1\\"/><attrib>Source: Wikipedia.</attrib></fig><fig id=\\"fig-2\\"><label>Figure 2</label><caption><p>A missing picture on the kinds of figures.</p><p>The Fig Caption continues.</p></caption><p id=\\"p-23\\">test paragraph</p><graphic specific-use=\\"MISSING\\" xlink:href=\\"\\"/><attrib>Source: Wikipedia.</attrib></fig></sec><fn-group><fn fn-type=\\"con\\"><label>Author Contributions</label><p id=\\"p-24\\">Author Contibutions are described here.</p></fn><fn fn-type=\\"financial-disclosure\\"><label>Financial Disclosure</label><p id=\\"p-25\\">This is a Financial Disclosure.</p></fn></fn-group><fn-group id=\\"fn-group-1\\"><title>Footnotes</title><fn id=\\"fn-3\\"><p id=\\"p-26\\">Box Note</p></fn><fn id=\\"fn-4\\"><p id=\\"p-27\\">This is a footnote.</p></fn><fn id=\\"fn-5\\"><p id=\\"p-28\\">Footnote called out in a box</p></fn></fn-group><ref-list><ref id=\\"ref-1\\"><label>1. </label><mixed-citation publication-type=\\"journal\\"><person-group person-group-type=\\"author\\"><string-name><surname>Day</surname> <given-names>RN</given-names></string-name></person-group>. <article-title>This is the article title</article-title>. <source><italic>EDCC</italic></source>. <year>2008</year>;<volume>3</volume><issue>(2)</issue>:<fpage>123</fpage>-<lpage>134</lpage>.</mixed-citation></ref></ref-list></back></article>"`;
+
+exports[`JATS exporter > export with & and < in bibliography metadata > jats-export-with-xml-unsafe-in-biblios 1`] = `"<!DOCTYPE article PUBLIC \\"-//NLM//DTD JATS (Z39.96) Journal Archiving and Interchange DTD with OASIS Tables with MathML3 v1.2 20190208//EN\\" \\"http://jats.nlm.nih.gov/archiving/1.2/JATS-archive-oasis-article1-mathml3.dtd\\"><article xmlns:xlink=\\"http://www.w3.org/1999/xlink\\" article-type=\\"research-article\\" xml:lang=\\"en\\"><front><article-meta><title-group><article-title>This is the Article Title</article-title><subtitle>Which has a Subtitle</subtitle></title-group><contrib-group content-type=\\"authors\\"><contrib contrib-type=\\"author\\" id=\\"contrib-1\\" corresp=\\"yes\\"><role>Member, IEEE</role><name><surname>Day</surname><given-names>Nathan</given-names></name><xref ref-type=\\"aff\\" rid=\\"aff-1\\"><sup>1</sup></xref><xref ref-type=\\"fn\\" rid=\\"fn-1\\"><sup>2</sup></xref><xref ref-type=\\"corresp\\" rid=\\"corresp-1\\"><sup>3</sup></xref></contrib><aff id=\\"aff-1\\"><label>1</label><institution>University of Life</institution>, <addr-line>Houston, TX</addr-line>, <city>Houston</city>, <state>TX</state>, <country>USA</country></aff></contrib-group><author-notes><corresp id=\\"corresp-1\\"><label>*</label>Correspondence: nday@inera.com.</corresp><fn id=\\"fn-1\\"><p>Author_Footnote.</p></fn><fn id=\\"fn-2\\"><p>DisclaimerThis is an unlabelled author footnote with a separate title.</p></fn><fn fn-type=\\"coi-statement\\"><label>Competing Interests</label><p id=\\"p-1\\">This is information about Competing Interests.</p></fn></author-notes><history><date date-type=\\"accepted\\"><day>12</day><month>05</month><year>2009</year></date><date date-type=\\"received\\"><day>01</day><month>04</month><year>2009</year></date><date date-type=\\"rev-recd\\"><day>02</day><month>05</month><year>2009</year></date></history><abstract abstract-type=\\"teaser\\"><p id=\\"p-2\\">The direct interaction of phenobarbital with the epidermal growth factor receptor reveals a new network interface in nuclear receptor signaling.</p></abstract><abstract><sec id=\\"sec-1\\" sec-type=\\"intro\\"><title>Introduction</title><p id=\\"p-3\\">This is a sectionalized abstract.</p></sec><sec id=\\"sec-2\\" sec-type=\\"results\\"><title>Results</title><p id=\\"p-4\\">These are the results of the experiment.</p></sec></abstract><kwd-group kwd-group-type=\\"author\\"><kwd>Paragraphs</kwd><kwd>exporting</kwd><kwd>testing</kwd><kwd>NLM DTD</kwd></kwd-group><counts><fig-count count=\\"1\\"/><ref-count count=\\"1\\"/><word-count count=\\"190\\"/></counts></article-meta></front><body><sec id=\\"sec-3\\" sec-type=\\"intro\\"><title>Introduction</title><sec id=\\"sec-4\\"><title>A level 2 subhead</title><sec id=\\"sec-5\\"><title>A level 3 subhead</title><sec id=\\"sec-6\\"><title>A level 4 subhead</title><sec id=\\"sec-7\\"><title>A level 5 subhead</title></sec></sec></sec></sec></sec><sec id=\\"sec-8\\" sec-type=\\"methods\\"><title>Materials and Methods</title><p id=\\"p-5\\">Some more text</p></sec><sec id=\\"sec-9\\" sec-type=\\"results\\"><title>Results</title><p id=\\"p-6\\">Some text that introduces a poem:</p><p id=\\"p-7\\">Poetry Source: Wikipedia</p><p id=\\"p-8\\">You might1 peruse, e.g., <xref rid=\\"boxed-text-1\\">Box 1</xref>. See also .</p><boxed-text id=\\"boxed-text-1\\"><label>Box 1</label><caption><title>Boxed boxes.</title></caption><sec id=\\"sec-10\\"><title>Box_Head_1</title><sec id=\\"sec-11\\"><title>Box_Head_2</title><p id=\\"p-9\\">Box_Text<xref ref-type=\\"fn\\" rid=\\"fn-5\\">c</xref></p></sec></sec></boxed-text><p id=\\"p-10\\">See also, <xref ref-type=\\"bibr\\" rid=\\"ref-1\\"><sup>1</sup></xref> and . Kinds of tables This is a table title continued paragraph Table_Head Table_Body* * Table_Footnote Block_Quote Source: Wikipedia Paragraph_Continued with a graphic in the middlewhere the paragraph continues.</p><sec id=\\"sec-12\\"><label>H<sub>1</sub></label><title>This is a hypothesis.</title><list list-type=\\"bullet\\"><list-item><p id=\\"p-11\\">Num_Bul_List_1</p><p id=\\"p-12\\">List_1_Continued</p><list list-type=\\"bullet\\"><list-item><p id=\\"p-13\\">Num_Bul_List_2</p><p id=\\"p-14\\">List_2_Continued</p></list-item></list></list-item><list-item><p id=\\"p-15\\">level 1, bullet 2</p></list-item></list></sec></sec><sec id=\\"sec-13\\" sec-type=\\"discussion\\"><title>Discussion</title><p id=\\"p-16\\">ParagraphUnnumbered_List_1 Another unnumbered itemwith another paragraph that continues after a list.</p></sec><sec id=\\"sec-14\\" sec-type=\\"conclusions\\"><title>Conclusions</title><p id=\\"p-17\\">Paragraph</p></sec></body><back><app-group><app><sec id=\\"sec-15\\" sec-type=\\"appendices\\"><label>Appendix A</label><title>This is an appendix</title><sec id=\\"sec-16\\"><title>Appendix_Head_1</title><sec id=\\"sec-17\\"><title>Appendix_Head_2</title><p id=\\"p-18\\">Appendix_Text</p></sec></sec></sec></app></app-group><ack><title>Acknowledgements</title><p id=\\"p-19\\">Acknowledgement</p></ack><sec id=\\"sec-18\\" sec-type=\\"availability\\"><title>Data availability</title><p id=\\"p-20\\">This is some information about data availability.</p></sec><sec id=\\"sec-19\\" sec-type=\\"ethics-statement\\"><title>Ethics statement</title><p id=\\"p-21\\">Paragraph, see<xref ref-type=\\"fn\\" rid=\\"fn-4\\">b</xref>  and <xref ref-type=\\"fig\\" rid=\\"fig-1\\">Figure 1</xref>.</p><fig id=\\"fig-1\\" fig-type=\\"half-right\\"><label>Figure 1</label><caption><p>A picture on the kinds of figures.</p><p>The Fig Caption continues.</p></caption><p id=\\"p-22\\">test paragraph</p><graphic xlink:href=\\"123412341234.fig1\\"/><attrib>Source: Wikipedia.</attrib></fig><fig id=\\"fig-2\\"><label>Figure 2</label><caption><p>A missing picture on the kinds of figures.</p><p>The Fig Caption continues.</p></caption><p id=\\"p-23\\">test paragraph</p><graphic specific-use=\\"MISSING\\" xlink:href=\\"\\"/><attrib>Source: Wikipedia.</attrib></fig></sec><fn-group><fn fn-type=\\"con\\"><label>Author Contributions</label><p id=\\"p-24\\">Author Contibutions are described here.</p></fn><fn fn-type=\\"financial-disclosure\\"><label>Financial Disclosure</label><p id=\\"p-25\\">This is a Financial Disclosure.</p></fn></fn-group><fn-group id=\\"fn-group-1\\"><title>Footnotes</title><fn id=\\"fn-3\\"><p id=\\"p-26\\">Box Note</p></fn><fn id=\\"fn-4\\"><p id=\\"p-27\\">This is a footnote.</p></fn><fn id=\\"fn-5\\"><p id=\\"p-28\\">Footnote called out in a box</p></fn></fn-group><ref-list><ref id=\\"ref-1\\"><label>1. </label><mixed-citation publication-type=\\"journal\\"><person-group person-group-type=\\"author\\"><string-name><surname>Day</surname> <given-names>RN</given-names></string-name></person-group>. <article-title>This is the article title. &amp; Sons 55 &lt; 135</article-title>. <source><italic>EDCC</italic></source>. <year>2008</year>;<volume>3</volume><issue>(2)</issue>:<fpage>123</fpage>-<lpage>134</lpage>.</mixed-citation></ref></ref-list></back></article>"`;