Journal Archiving and Interchange Tag Library NISO JATS Draft Version 1.1d2

<ext-link>

External Link

Link to an external file or resource.

Remarks

Linking: Use the standard XLink attributes to provide a live link to the external source. The attribute @xlink:href is not required, but should be used to provide the link.
Resource Type: The @ext-link-type attribute can be used to give an indication of the type of resource to which the external link points. While this Tag Set does not constrain the values of this attribute, and ordinary text is acceptable, the suggested values include:

ec
Enzyme nomenclature. See http://www.chem.qmw.ac.uk/iubmb/enzyme/

gen
GenBank identifier

genpept
Translated protein-encoding sequence database

highwire
HighWire Press intrajournal

pdb
Protein data bank. See http://www.rcsb.org/pdb/

pgr
Plant gene register. See http://www.ebi.ac.uk/~textman/pgr-htdocs/pgr/

pir
Protein Information Resource. See http://pir.georgetown.edu

pirdb
Protein Information Resource. See http://pir.georgetown.edu

pmcid
PubMed Central identifier

pmid
PubMed identifier

sprot
Swiss-Prot. See http://www.ebi.ac.uk/swissprot/

aoi
Astronomical Object Identifier

doi
Digital Object Identifier

ftp
File transfer protocol

uri
Website or web service

Related Elements

<self-uri> is used when a document or document component (such as an article or a chapter) is available in multiple forms, for example, as a means of indicating the online version of a print document. Conversely, a URI that indicates a different book, article, or any other kind of live-linked external reference is usually tagged as <ext-link>. The <uri> element, although allowed everywhere <ext-link> is used, is more typically part of an address, information concerning a contributor, or part of a reference citation. Loosely put, an external link <ext-link> element is intended to act as a link; a URI <uri> element identifies a URI (such as a URL) in the text, but may or may not be a traversable link; and the <self-uri> points to another form of the same document. To make any of these elements into a live link, add the XLink @xlink:href attribute.
The address element <email> is allowed as part of a paragraph as well as inside an address. There are two ways to treat an email address in text: as an <email> element or as an <ext-link> element. If both a textual phrase (“the Moody Institute’s email address”) and a mailto URL are required, the <ext-link> element should be used.
The elements used in an address may include the address class elements: <addr-line>, <city>, <country>, <fax>, <institution>, <institution-wrap>, <state>, <phone>, and <postal-code> and the address linking class elements: <email>, <ext-link>, and <uri>.

Attributes

assigning-authority Authority Responsible for an Identifier
ext-link-type Type of External Link
id Document Internal Identifier
specific-use Specific Use
xlink:actuate Actuating the Link
xlink:href Href (Linking Mechanism)
xlink:role Role of the Link
xlink:show Showing the Link
xlink:title Title of the Link
xlink:type Type of Link
xml:base Base
xml:lang Language
xmlns:xlink XLink Namespace Declaration

Content Model

<!ELEMENT  ext-link     (#PCDATA %ext-link-elements;)*               >

Expanded Content Model

(#PCDATA | email | ext-link | uri | inline-supplementary-material | related-article | related-object | hr | bold | fixed-case | italic | monospace | overline | overline-start | overline-end | roman | sans-serif | sc | strike | underline | underline-start | underline-end | ruby | alternatives | inline-graphic | private-char | chem-struct | inline-formula | tex-math | mml:math | abbrev | milestone-end | milestone-start | named-content | styled-content | fn | target | xref | sub | sup | x)*

Description

Any combination of:

This element may be contained in:

<abbrev>, <abbrev-journal-title>, <address>, <addr-line>, <aff>, <alt-title>, <anonymous>, <array>, <article-meta>, <article-title>, <attrib>, <award-id>, <bold>, <chapter-title>, <chem-struct>, <chem-struct-wrap>, <code>, <collab>, <comment>, <compound-kwd-part>, <conf-acronym>, <conf-loc>, <conf-name>, <conf-num>, <conf-sponsor>, <conf-theme>, <contrib>, <contrib-group>, <copyright-statement>, <corresp>, <data-title>, <def-head>, <degrees>, <disp-formula>, <disp-formula-group>, <edition>, <element-citation>, <email>, <etal>, <ext-link>, <fax>, <fig>, <fig-group>, <fixed-case>, <front-stub>, <funding-source>, <funding-statement>, <given-names>, <gov>, <graphic>, <history>, <inline-formula>, <inline-supplementary-material>, <institution>, <issue>, <issue-part>, <issue-sponsor>, <issue-title>, <italic>, <journal-subtitle>, <journal-title>, <kwd>, <label>, <license-p>, <media>, <meta-name>, <meta-value>, <mixed-citation>, <monospace>, <named-content>, <on-behalf-of>, <overline>, <p>, <part-title>, <patent>, <phone>, <prefix>, <preformat>, <product>, <publisher-loc>, <publisher-name>, <rb>, <related-article>, <related-object>, <role>, <roman>, <sans-serif>, <sc>, <self-uri>, <series>, <series-text>, <series-title>, <sig>, <sig-block>, <source>, <speaker>, <std-organization>, <strike>, <string-conf>, <string-date>, <string-name>, <styled-content>, <sub>, <subject>, <subtitle>, <suffix>, <sup>, <supplement>, <supplementary-material>, <surname>, <table-wrap>, <table-wrap-group>, <target>, <td>, <term>, <term-head>, <th>, <title>, <trans-source>, <trans-subtitle>, <trans-title>, <underline>, <unstructured-kwd-group>, <uri>, <verse-line>, <version>, <volume>, <volume-id>, <volume-series>, <xref>

Example 1

An empty <ext-link> element for which content will be generated: 
...
<sec sec-type="intro">
<title>Introduction</title>
<p>... The highest 16S rDNA sequence similarity
value of 98&amp;amp;#x0025; was obtained for the
<italic>D. maris</italic> 16S rDNA sequence
(GenBank accession no. <ext-link ext-link-type="gen"
xmlns:xlink="http://www.w3.org/1999/xlink" xlink:href="Y18883"/>)
and for the <italic>D. maris</italic> DSM 43672<sup>T</sup>
16S rDNA sequence (GenBank accession no. <ext-link ext-link-type="gen"
xmlns:xlink="http://www.w3.org/1999/xlink" xlink:href="X79290"/>)
...</p>
</sec>
...

Example 2

An <ext-link> element with content; no text will be generated. The content is @xlink:href attribute, repeated: 
 
...
<fig id="f1" orientation="portrait" position="float">
<label>FIG. 1.</label>
<caption>
<p>(a) Schematic of the working principles of HFM, (b) a typical application
scheme for an electric bias in HFM, (c) regulation the conformations and
dynamics (trapping, concentration, and sudden stretching) of λ-DNA molecules
in HFM, and (d) schematic of the trapping location regulation (enhanced online).
[URL: <ext-link ext-link-type="uri" xlink:href="https://dx.doi.org/10.1063/1.4762852.1">
http://dx.doi.org/10.1063/1.4762852.1</ext-link>]
<alternatives>
<media id="v1" mime-subtype="avi" mimetype="video" orientation="portrait"
position="anchor" specific-use="original-format" xlink:href="v1">
<object-id pub-id-type="doi" specific-use="metadata">10.1063/1.4762852.1</object-id>
</media>
<media mime-subtype="mpeg" mimetype="video" orientation="portrait"
position="anchor" specific-use="archival-format" xlink:href="v1"></media>
<media mime-subtype="x-flv" mimetype="video" orientation="portrait"
position="anchor" specific-use="online-format" xlink:href="v1"></media>
</alternatives>
</p>
</caption>
<graphic orientation="portrait" position="float" xlink:href="f1"/>
<graphic id="f1a" orientation="portrait" position="float" xlink:href="dummy1.png"/>
<graphic id="f1b" orientation="portrait" position="float" xlink:href="dummy2.png"/>
<graphic id="f1c" orientation="portrait" position="float" xlink:href="dummy3.png"/>
<graphic id="f1d" orientation="portrait" position="float" xlink:href="dummy4.png"/>
</fig>
...

Example 3

The <ext-link> element used for email, with content given: 

...
<contrib-group>
<contrib contrib-type="author">
<name name-style="western">
<surname>Nüsslin</surname>
<given-names>Fridtjof</given-names>
<prefix>Dr.</prefix>
</name>
</contrib>
<aff>Klinik für Strahlentherapie und Radiologische Onkologie,
<institution>Technische Universität München</institution>, 
Munich, Germany (Tel: 49-89-41404517, E-mail:
<ext-link ext-link-type="email" xlink:href="mailto:nuesslin@lrz.tum.de">
nuesslin@lrz.tum.de</ext-link>)</aff>
</contrib-group>
...

Journal Archiving and Interchange Tag Library NISO JATS Draft Version 1.1d2

Version of December 2014

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