@manuscripts/transform 4.3.53 → 4.4.1

package/src/jats/__tests__/__fixtures__/jats-citations.xml

@@ -0,0 +1,472 @@
+<?xml version="1.0" encoding="utf-8"?>
+<!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 article-type="research-article" dtd-version="1.1" xml:lang="en"
+         xmlns:xlink="http://www.w3.org/1999/xlink" xmlns:mml="http://www.w3.org/1998/Math/MathML">
+    <front>
+        <journal-meta>
+            <journal-id journal-id-type="publisher-id">APA6</journal-id>
+            <journal-id journal-id-type="nlm-ta">Brain Behav</journal-id>
+            <journal-title-group>
+                <journal-title>Brain and Behavior</journal-title>
+                <abbrev-journal-title abbrev-type="pubmed">Brain Behav.</abbrev-journal-title>
+            </journal-title-group>
+            <issn pub-type="epub">2162-3279</issn>
+            <publisher>
+                <publisher-name>John Wiley and Sons</publisher-name>
+            </publisher>
+        </journal-meta>
+        <article-meta>
+            <article-id pub-id-type="doi">10.5555/BRB3-2019-12-0787</article-id>
+            <article-id pub-id-type="publisher-id">BRB3-2019-12-0787</article-id>
+            <article-categories>
+                <subj-group subj-group-type="heading">
+                    <subject>Original Research</subject>
+                </subj-group>
+            </article-categories>
+            <title-group>
+                <article-title>Blood <bold>pressure</bold> after follow up in a stroke prevention
+                    clinic
+                </article-title>
+                <alt-title alt-title-type="right-running">Blood pressure after stroke</alt-title>
+            </title-group>
+            <contrib-group>
+                <contrib contrib-type="author" corresp="yes">
+                    <contrib-id contrib-id-type="orcid" authenticated="true"
+                    >
+                        https://orcid.org/0000-0003-2217-5904
+                    </contrib-id>
+                  <string-name>
+                    Eminem
+                  </string-name>
+                    <degrees>RN</degrees>
+                    <degrees>MPH</degrees>
+                    <degrees>PhD</degrees>
+                    <xref ref-type="aff" rid="BRB3-2019-12-0787-aff1"/>
+                </contrib>
+                <contrib contrib-type="author">
+                    <name>
+                        <surname>Poulsen</surname>
+                        <given-names>Mai Bang</given-names>
+                    </name>
+                    <degrees>MD</degrees>
+                    <degrees>PhD</degrees>
+                    <xref ref-type="fn" rid="BRB3-2019-12-0787-afn-0001">*</xref>
+                    <xref ref-type="aff" rid="BRB3-2019-12-0787-aff1"/>
+                </contrib>
+                <aff id="BRB3-2019-12-0787-aff1"><institution content-type="dept">Department of
+                    Neurology</institution>, <institution>Herlev og Gentofte
+                    Hospital</institution>, <addr-line>Borgmester Ib Juuls Vej 1</addr-line>,
+                    <addr-line>
+                        <postal-code>2730</postal-code>
+                        <city>Herlev</city>
+                    </addr-line>
+                    ,
+                    <country>Denmark</country>
+                </aff>
+            </contrib-group>
+            <author-notes>
+                <corresp id="BRB3-2019-12-0787-cor1">Corresponding author: Agnete Hviid
+                    Hornnes&#x2028;<email xlink:href="agnete.hviid.hornnes@regionh.dk"
+                    >
+                        agnete.hviid.hornnes@regionh.dk</email>&#x2028;FAX: 0045 3868 4031
+                </corresp>
+                <fn id="BRB3-2019-12-0787-afn-0001">
+                    <label>*</label>
+                    <p>Mai Bang Poulsen, MD, PhD&#x2028;Department of
+                        Neurology&#x2028;Nordsj&#x00E6;llands Hospital&#x2028;Dyrehavevej
+                        29&#x2028;3400 Hiller&#x00F8;d&#x2028;Denmark
+                    </p>
+                </fn>
+                <fn id="BRB3-2019-12-0787-afn-0002">
+                    <p>ClinicalTrials.gov NCT03782857.</p>
+                </fn>
+                <fn fn-type="con">
+                    <p content-type="fn-title">Contributor Information</p>
+                    <p>Agnete Hviid Hornnes, Email: agnete.hviid.hornnes@regionh.dk <ext-link
+                            ext-link-type="uri" xlink:href="https://orcid.org/0000-0003-2217-5904"
+                    >
+                        https//orcid.org/0000-0003-2217-5904</ext-link>&#x2028;Mai Bang Poulsen,
+                        Email: mai.bang.poulsen.02@regionh.dk
+                    </p>
+                    <p>Both authors have made substantial contributions to conception and design and
+                        acquisitions and analyses
+                        <?AuthorQuery id="Q3" queryText="Check meaning - US English uses different spellings for the noun
+                        &quot;analyses&quot; (more than one analysis) and the verb form &quot;analyzes&quot;"?> and
+                        interpretation of data and have; and been
+                        involved in writing the manuscript and given final approval of the version
+                        to be published. Both authors have participated sufficiently in the work to
+                        take public responsibility for the content; and agree to be accountable for
+                        all aspects of the work in ensuring that questions related to the accuracy
+                        or integrity of any part of the work are appropriately investigated and
+                        resolved.
+                    </p>
+                </fn>
+            </author-notes>
+            <pub-date pub-type="ppub">
+                <year/>
+            </pub-date>
+            <volume/>
+            <supplementary-material id="S1"
+                                    xlink:href="attachment:7d9d686b-5488-44a5-a1c5-46351e7f9312" mimetype="application"
+                                    mime-subtype="vnd.openxmlformats-officedocument.wordprocessingml.document">
+                <caption>
+                    <title>final manuscript-hum-huili-dbh-suicide-20200707_figures (9)
+                    </title>
+                </caption>
+            </supplementary-material>
+            <history>
+                <date date-type="received">
+                    <day>09</day>
+                    <month>12</month>
+                    <year>2019</year>
+                </date>
+                <date date-type="rev-recd">
+                    <day/>
+                    <month/>
+                    <year/>
+                </date>
+                <date date-type="accepted">
+                    <day>27</day>
+                    <month>04</month>
+                    <year>2020</year>
+                </date>
+            </history>
+            <permissions></permissions>
+            <self-uri content-type="document"
+                      xlink:href="http://www.harmreductionjournal.com/content/1/1/5"/>
+            <self-uri content-type="document"
+                      xlink:href="http://www.harmreductionjournal.com/content/1/1/2"/>
+
+            <abstract>
+                <sec>
+                    <title>Objectives</title>
+                    <p>In Denmark 25% of hospital admissions with stroke are recurrent strokes. With
+                        thrombolytic treatment more patients survive with only minor disability.
+                        This promising development should be followed up by intensive secondary
+                        prevention. Hypertension is the most important target. We aimed at testing
+                        the hypotheses that early follow up in a preventive clinic would result in
+                        1) A higher proportion of patients with blood pressure at target, 2) Time to
+                        stroke recurrence, myocardial infarction and death would be longer in the
+                        intervention group compared to controls.
+                    </p>
+                </sec>
+                <sec>
+                    <title>Materials and Methods</title>
+                    <p>Eligible patients admitted to the stroke unit of Herlev Hospital were
+                        randomized shortly before discharge to intervention or control group. Of 78
+                        included participants data from 73 was available for follow up nine months
+                        after inclusion. Patients in the intervention group were seen in the clinic
+                        within one week. In case of hypertension treatment was initiated or supplied
+                        with a new drug. We used individual targets for blood pressure according to
+                        diagnosis of stroke and patients&#x2019; comorbidity. Patients in the
+                        intervention group had a median of five visits to the preventive clinic.
+                    </p>
+                </sec>
+                <sec>
+                    <title>Results</title>
+                    <p>In the intervention group blood pressure was treated to target in 25 patients
+                        (69%) versus 14 (38%) in the control group (<italic>p</italic>&#x2009;=&#x2009;0.007).
+                        Median time to first event was 44 months (4&#x2013;49) in the intervention
+                        group and 19 months (4&#x2013;37) in controls (
+                        <italic>p</italic>
+                        &#x2009;=&#x2009;0.316).
+                    </p>
+                </sec>
+                <sec>
+                    <title>Conclusions</title>
+                    <p>Treatment of hypertension to individual targets after stroke is feasible. It
+                        may postpone recurrent stroke and death in stroke survivors.
+                    </p>
+                </sec>
+            </abstract>
+            <abstract abstract-type="graphical">
+                <fig id="fig-1" position="anchor" fig-type="half-left">
+                    <graphic xlink:href="demo1.jpg"/>
+                </fig>
+            </abstract>
+            <abstract abstract-type="key-image">
+                <fig id="fig-2" position="anchor" fig-type="half-left">
+                    <graphic xlink:href="demo2.jpg"/>
+                </fig>
+            </abstract>
+            <abstract abstract-type="short">
+                <p>The is the third and last part of the volume devoted to solubility data of rare
+                    earth metal chlorides in water and in ternary and quaternary aqueous systems.
+                    Compilations of all available experimental data are introduced for each rare
+                    earth
+                    metal chloride with a corresponding critical evaluation. This part covers
+                    chlorides
+                    of Gd, Tb, Dy, Ho, Er, Tm, Yb, and Lu, with coverage of the literature through
+                    the
+                    middle of 2008.
+                </p>
+            </abstract>
+            <kwd-group kwd-group-type="author">
+                <title>KEYWORDS &#x2028;</title>
+                <kwd>secondary prevention</kwd>
+                <kwd>stroke recurrence</kwd>
+                <kwd>blood pressure</kwd>
+                <kwd>blood pressure target</kwd>
+                <kwd>randomized controlled trial</kwd>
+            </kwd-group>
+            <funding-group>
+                <award-group>
+                    <funding-source>National Institutes of Health</funding-source>
+                    <principal-award-recipient>Berkeley</principal-award-recipient>
+                    <award-id>GM18458</award-id>
+                </award-group>
+                <award-group>
+                    <funding-source>National Science Foundation</funding-source>
+                    <award-id>DMS-0204674</award-id>
+                    <award-id>DMS-0244638</award-id>
+                </award-group>
+            </funding-group>
+            <counts>
+                <count count-type="box" count="0"/>
+                <fig-count count="3"/>
+                <table-count count="2"/>
+                <equation-count count="0"/>
+                <ref-count count="25"/>
+                <word-count count="4484"/>
+            </counts>
+        </article-meta>
+    </front>
+    <body>
+        <sec>
+            <title>Section</title>
+            <p>This work was supported by the National Natural Science Foundation of China
+                (81771439), Jiangsu Provincial Key <xref ref-type="bibr" rid="ref1">
+                    1</xref>Research and Development Program (BE2020661 and BE2018662), Jiangsu
+                Provincial Health Commission Science Research Program (QNRC2016228, H2019056 and
+                LGY2018010), Jiangsu Provincial Six Talent Peaks Project (WSN-165), Suzhou Municipal
+                Health Commission Science Research Program (SZYJTD201715, LCZX201820, Kjxw2018048
+                and Gwzx201801), Suzhou Municipal Sci-Tech Bureau Program (SZS201722, SS201706,
+                SYS2019113 and SS2019009), and CAS Key Laboratory of Mental Health, Institute of
+                Psychology (KLMH2019K03).
+            </p>
+            <p>This work was supported by the National Natural Science Foundation of China
+                (81771439), Jiangsu Provincial Key <xref ref-type="bibr" rid="ref2">
+                    1</xref>Research and Development Program (BE2020661 and BE2018662), Jiangsu
+                Provincial Health Commission Science Research Program (QNRC2016228, H2019056 and
+                LGY2018010), Jiangsu Provincial Six Talent Peaks Project (WSN-165), Suzhou Municipal
+                Health Commission Science Research Program (SZYJTD201715, LCZX201820, Kjxw2018048
+                and Gwzx201801), Suzhou Municipal Sci-Tech Bureau Program (SZS201722, SS201706,
+                SYS2019113 and SS2019009), and CAS Key Laboratory of Mental Health, Institute of
+                Psychology (KLMH2019K03).
+            </p>
+            <p>This work was supported by the National Natural Science Foundation of China
+                (81771439), Jiangsu Provincial Key <xref ref-type="bibr" rid="ref3">
+                    1</xref>Research and Development Program (BE2020661 and BE2018662), Jiangsu
+                Provincial Health Commission Science Research Program (QNRC2016228, H2019056 and
+                LGY2018010), Jiangsu Provincial Six Talent Peaks Project (WSN-165), Suzhou Municipal
+                Health Commission Science Research Program (SZYJTD201715, LCZX201820, Kjxw2018048
+                and Gwzx201801), Suzhou Municipal Sci-Tech Bureau Program (SZS201722, SS201706,
+                SYS2019113 and SS2019009), and CAS Key Laboratory of Mental Health, Institute of
+                Psychology (KLMH2019K03).
+            </p>
+            <p>This work was supported by the National Natural Science Foundation of China
+                (81771439), Jiangsu Provincial Key <xref ref-type="bibr" rid="ref4">
+                    1</xref>Research and Development Program (BE2020661 and BE2018662), Jiangsu
+                Provincial Health Commission Science Research Program (QNRC2016228, H2019056 and
+                LGY2018010), Jiangsu Provincial Six Talent Peaks Project (WSN-165), Suzhou Municipal
+                Health Commission Science Research Program (SZYJTD201715, LCZX201820, Kjxw2018048
+                and Gwzx201801), Suzhou Municipal Sci-Tech Bureau Program (SZS201722, SS201706,
+                SYS2019113 and SS2019009), and CAS Key Laboratory of Mental Health, Institute of
+                Psychology (KLMH2019K03).
+            </p>
+            <p>This work was supported by the National Natural Science Foundation of China
+                (81771439), Jiangsu Provincial Key <xref ref-type="bibr" rid="ref5">
+                    1</xref>Research and Development Program (BE2020661 and BE2018662), Jiangsu
+                Provincial Health Commission Science Research Program (QNRC2016228, H2019056 and
+                LGY2018010), Jiangsu Provincial Six Talent Peaks Project (WSN-165), Suzhou Municipal
+                Health Commission Science Research Program (SZYJTD201715, LCZX201820, Kjxw2018048
+                and Gwzx201801), Suzhou Municipal Sci-Tech Bureau Program (SZS201722, SS201706,
+                SYS2019113 and SS2019009), and CAS Key Laboratory of Mental Health, Institute of
+                Psychology (KLMH2019K03).
+            </p>
+            <p>This work was supported by the National Natural Science Foundation of China
+                (81771439), Jiangsu Provincial Key <xref ref-type="bibr" rid="ref6">
+                    1</xref>Research and Development Program (BE2020661 and BE2018662), Jiangsu
+                Provincial Health Commission Science Research Program (QNRC2016228, H2019056 and
+                LGY2018010), Jiangsu Provincial Six Talent Peaks Project (WSN-165), Suzhou Municipal
+                Health Commission Science Research Program (SZYJTD201715, LCZX201820, Kjxw2018048
+                and Gwzx201801), Suzhou Municipal Sci-Tech Bureau Program (SZS201722, SS201706,
+                SYS2019113 and SS2019009), and CAS Key Laboratory of Mental Health, Institute of
+                Psychology (KLMH2019K03).
+            </p>
+            <p>This work was supported by the National Natural Science Foundation of China
+                (81771439), Jiangsu Provincial Key <xref ref-type="bibr" rid="ref7">
+                    1</xref>Research and Development Program (BE2020661 and BE2018662), Jiangsu
+                Provincial Health Commission Science Research Program (QNRC2016228, H2019056 and
+                LGY2018010), Jiangsu Provincial Six Talent Peaks Project (WSN-165), Suzhou Municipal
+                Health Commission Science Research Program (SZYJTD201715, LCZX201820, Kjxw2018048
+                and Gwzx201801), Suzhou Municipal Sci-Tech Bureau Program (SZS201722, SS201706,
+                SYS2019113 and SS2019009), and CAS Key Laboratory of Mental Health, Institute of
+                Psychology (KLMH2019K03).
+            </p>
+
+
+        </sec>
+    </body>
+    <back>
+        <fn-group>
+            <fn fn-type="financial-disclosure">
+                <p content-type="fn-title">FUNDING INFORMATION</p>
+                <p>A paragraph</p>
+            </fn>
+        </fn-group>
+        <ref-list>
+            <title>References</title>
+            <ref id="ref1">
+                <element-citation publication-type="journal" publication-format="print"
+                                  specific-use="archival">
+                    <person-group person-group-type="author">
+                        <name>
+                            <surname>Doe</surname>
+                            <given-names>John</given-names>
+                        </name>
+                        <name>
+                            <surname>Smith</surname>
+                            <given-names>Jane</given-names>
+                        </name>
+                    </person-group>
+                    <article-title>Advancements in Artificial Intelligence</article-title>
+                    <source>AI Research Journal</source>
+                    <year iso-8601-date="2021-05-10">2021</year>
+                    <month>May</month>
+                    <day>10</day>
+                    <volume>18</volume>
+                    <issue>2</issue>
+                    <supplement>Suppl. 1</supplement>
+                    <fpage>45</fpage>
+                    <lpage>60</lpage>
+                    <elocation-id>e012345</elocation-id>
+                    <pub-id pub-id-type="doi">10.1000/xyz123</pub-id>
+                    <ext-link ext-link-type="uri">https://doi.org/10.1000/xyz123</ext-link>
+                </element-citation>
+            </ref>
+            <ref id="ref2">
+                <element-citation publication-type="book" publication-format="print">
+                    <person-group person-group-type="author">
+                        <name>
+                            <surname>Brown</surname>
+                            <given-names>Michael</given-names>
+                        </name>
+                        <name>
+                            <surname>Green</surname>
+                            <given-names>Anna</given-names>
+                        </name>
+                    </person-group>
+                    <person-group person-group-type="editor">
+                        <name>
+                            <surname>Williams</surname>
+                            <given-names>David</given-names>
+                        </name>
+                        <name>
+                            <surname>Taylor</surname>
+                            <given-names>Sophia</given-names>
+                        </name>
+                    </person-group>
+                    <source>Introduction to Data Science</source>
+                    <publisher-name>Springer</publisher-name>
+                    <publisher-loc>New York, USA</publisher-loc>
+                    <year iso-8601-date="2020">2020</year>
+                    <edition>2nd</edition>
+                    <volume>1</volume>
+                    <series>Data Science Series</series>
+                    <ext-link ext-link-type="uri">https://doi.org/10.1000/xyz123</ext-link>
+                    <size units="pages">350</size>
+                </element-citation>
+            </ref>
+            <ref id="ref3">
+                <element-citation publication-type="book-chapter">
+                    <person-group person-group-type="author">
+                        <name>
+                            <surname>Miller</surname>
+                            <given-names>Susan</given-names>
+                        </name>
+                    </person-group>
+                    <article-title>Machine Learning Applications</article-title>
+                    <source>Handbook of AI</source>
+                    <publisher-name>Oxford University Press</publisher-name>
+                    <year>2022</year>
+                    <chapter-title>Chapter 5</chapter-title>
+                    <fpage>105</fpage>
+                    <lpage>120</lpage>
+                </element-citation>
+            </ref>
+            <ref id="ref4">
+                <element-citation publication-type="confproc">
+                    <person-group person-group-type="author">
+                        <name>
+                            <surname>Johnson</surname>
+                            <given-names>Emily</given-names>
+                        </name>
+                    </person-group>
+                    <article-title>Deep Learning in Image Processing</article-title>
+                    <conference>
+                        <conf-name>ICML 2019</conf-name>
+                        <conf-loc>San Francisco, USA</conf-loc>
+                        <conf-date iso-8601-date="2019-06-20">June 20-22, 2019</conf-date>
+                    </conference>
+                    <source>Proceedings of the International Conference on Machine Learning</source>
+                    <year>2019</year>
+                    <fpage>223</fpage>
+                    <lpage>230</lpage>
+                    <publisher-name>IEEE</publisher-name>
+                    <publisher-loc>New York, USA</publisher-loc>
+                    <ext-link ext-link-type="uri">https://icml2019.org/papers/223</ext-link>
+                </element-citation>
+            </ref>
+            <ref id="ref5">
+                <element-citation publication-type="thesis">
+                    <person-group person-group-type="author">
+                        <name>
+                            <surname>Garcia</surname>
+                            <given-names>Daniel</given-names>
+                        </name>
+                    </person-group>
+                    <article-title>Neural Networks for Natural Language Processing</article-title>
+                    <ext-link ext-link-type="uri">https://escholarship.org/uc/item/xyz123</ext-link>
+                    <year iso-8601-date="2021">2021</year>
+                    <institution>University of California, Berkeley</institution>
+                    <size units="pages">350</size>
+                    <pub-id pub-id-type="doi">10.1234/thesis2021</pub-id>
+                    <comment>Located at: Modern Manuscripts Collection,
+                        History of Medicine Division, National Library of
+                        Medicine, Bethesda, MD; MS F 179
+                    </comment>
+                </element-citation>
+            </ref>
+            <ref id="ref6">
+                <element-citation publication-type="web">
+                    <person-group person-group-type="author">
+                        <name>
+                            <surname>Jones</surname>
+                            <given-names>Sarah</given-names>
+                        </name>
+                    </person-group>
+                    <article-title>Big Data Trends in 2023</article-title>
+                    <source>Data Science Blog</source>
+                    <year>2023</year>
+                    <ext-link ext-link-type="uri">https://www.datascienceblog.com/big-data-2023</ext-link>
+                    <date-in-citation iso-8601-date="2024-02-15">Accessed: February 15, 2024</date-in-citation>
+                </element-citation>
+            </ref>
+            <ref id="ref7">
+                <element-citation publication-type="other">
+                    <person-group person-group-type="author">
+                        <name>
+                            <surname>Adams</surname>
+                            <given-names>Lisa</given-names>
+                        </name>
+                    </person-group>
+                    <article-title>Private Research Report on AI Ethics</article-title>
+                    <source>Internal Research Report</source>
+                    <year>2022</year>
+                    <publisher-name>AI Ethics Initiative</publisher-name>
+                </element-citation>
+            </ref>
+        </ref-list>
+    </back>
+</article>

package/src/jats/__tests__/__fixtures__/jats-comments.xml

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+<article xmlns:xlink="http://www.w3.org/1999/xlink" article-type="research-article">
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+    <fn-group>
+      <fn fn-type="financial-disclosure">
+        <p content-type="fn-title">FUNDING INFORMATION</p>
+        <p>A paragraph with a comment<?AuthorQuery id="c1" queryText="Back comment"?></p>
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+    <ref-list>
+      <title>References</title>
+      <ref id="ref1">
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+          <?AuthorQuery id="Q1" queryText="Ref comment"?>
+          <year>1992</year>
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