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Merge branch 'develop' of https://github.com/vivo-project/VIVO into develop

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Jim Blake 2017-12-01 09:33:17 -05:00
commit 5544b52712
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2
api/pom.xml
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@ -59,7 +59,7 @@
<dependency>
<groupId>org.vivoweb</groupId>
<artifactId>orcid-api-client</artifactId>
<version>0.6.0</version>
<version>0.6.2</version>
</dependency>
<dependency>

4
home/src/main/resources/rdf/tbox/filegraph/data-properties.owl
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@ -1876,8 +1876,8 @@ use one freetextKeyword assertion for each keyword or phrase.</obo:IAO_0000112>
<owl:DatatypeProperty rdf:about="http://vivoweb.org/ontology/core#researcherId">
<obo:IAO_0000112 rdf:datatype="http://www.w3.org/2001/XMLSchema#string">RearcherID is a Thomson Reuters project where researchers have a place to manage and share their professional information. It will allow them to solve author identity issues while simultaneously adding dynamic citation metrics and collaboration networks to your personal profile.
Definition source: http://isiwebofknowledge.com/researcherid/</obo:IAO_0000112>
<obo:IAO_0000112 rdf:datatype="http://www.w3.org/2001/XMLSchema#string">ResearcherID is a Clarivate Analytics project where researchers have a place to manage and share their professional information. It will allow them to solve author identity issues while simultaneously adding dynamic citation metrics and collaboration networks to their personal profile through integration with the Web of Science.
Definition source: https://clarivate.com/products/researcherid/</obo:IAO_0000112>
<rdfs:subPropertyOf rdf:resource="http://vivoweb.org/ontology/core#identifier"/>
</owl:DatatypeProperty>

104
webapp/src/main/webapp/templates/freemarker/visualization/mapOfScience/aboutMapOfScience.ftl
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@ -1,52 +1,52 @@
<#-- $This file is distributed under the terms of the license in LICENSE$ -->
<#assign aboutImagesRoot = '${urls.images}/visualization/mapofscience/about/'>
<h2>About VIVO's Map of Science Visualization</h2>
<h3>Reference Basemap</h3>
<p>The VIVO Map of Science visualization uses the UCSD map of science and classification
system that was computed using paper-level data from about 25,000 journals from Elsevier's
Scopus and and Thomson Reuters' Web of Science (WoS) for the years 2001-2010. The UCSD map
of science assigns the 25,000 journals to 554 subdisciplines that are further aggregated
into 13 main disciplines of science. In the map, each discipline has a distinct color
(green for 'Biology', brown for 'Earth Sciences', etc.) and a label. (Sub)disciplines that
are similar closer to one another on the map. (Sub)disciplines that are especially similar
are connected by grey lines.</p>
<h3>Data Overlay</h3>
<p>Publication activity of a university, organization, or person can be overlaid on the
map to generate expertise profiles. The process is as follows: (1) The set of unique
journals is identified, (2) the number of times each journal served as a publication venue
is calculated, and (3) the area size of the 13 disciplines and 554 subdisciplines is
calculated based on these journal publication venue counts. Note that some journals are
associated with exactly one (sub)discipline while others, e.g., interdisciplinary ones like
<em>Science</em> or <em>Nature</em>, are fractionally associated with multiple
(sub)disciplines. Subdisciplines inherit the colors of their parent disciplines.
(Sub)disciplines without any associated publications are given in gray.</p>
<img src="${aboutImagesRoot}/scimap_discipline.jpg" width="450" height="327" />
<img src="${aboutImagesRoot}/scimap_subdiscipline.jpg" width="450" height="327" />
<h3>Expertise Profile Comparison Map</h3>
<p>Publication activity of up to three organizations or persons can be compared via "Compare
organizations." In the table on the left, select up to three organizations. The expertise
profile of each organizations will be represented as data overlay. Each organizations is
represented in a distinct color and a top-10 list of subdisciplines with the highest number
of publications is given below the comparison map. Data can be saved as CSV file.</p>
<img src="${aboutImagesRoot}/scimap_comparison.jpg" width="803" height="781" style=
"margin-left: 50px;"/>
<h3>Interactivity</h3>
<p>The map can be explored at two levels-by 13 disciplines or 554 subdisciplines. Clicking
on a node in the map brings up the number of fractionally associated journal publications
and the percentage of publications mapped to this (sub)discipline. Hover over a discipline
in the table on the left to see what circles it corresponds to on the map. Use slider below
map, on the right to reduce number of subdisciplines shown to improve legibility</p>
<h3>Links</h3>
<p>For more information on the UCSD map of science and classification system, see
<a href="http://sci.cns.iu.edu/ucsdmap" target="_blank">http://sci.cns.iu.edu/ucsdmap</a>.
For other maps of science, see
<a href="http://scimaps.org" target="_blank">http://scimaps.org</a> and
<a href="http://mapofscience.com" target="_blank">http://mapofscience.com</a>.</p>
<#-- $This file is distributed under the terms of the license in LICENSE$ -->
<#assign aboutImagesRoot = '${urls.images}/visualization/mapofscience/about/'>
<h2>About VIVO's Map of Science Visualization</h2>
<h3>Reference Basemap</h3>
<p>The VIVO Map of Science visualization uses the UCSD map of science and classification
system that was computed using paper-level data from about 25,000 journals from Elsevier's
Scopus and Clarivate Analytics' Web of Science (WoS) for the years 2001-2010. The UCSD map
of science assigns the 25,000 journals to 554 subdisciplines that are further aggregated
into 13 main disciplines of science. In the map, each discipline has a distinct color
(green for 'Biology', brown for 'Earth Sciences', etc.) and a label. (Sub)disciplines that
are similar closer to one another on the map. (Sub)disciplines that are especially similar
are connected by grey lines.</p>
<h3>Data Overlay</h3>
<p>Publication activity of a university, organization, or person can be overlaid on the
map to generate expertise profiles. The process is as follows: (1) The set of unique
journals is identified, (2) the number of times each journal served as a publication venue
is calculated, and (3) the area size of the 13 disciplines and 554 subdisciplines is
calculated based on these journal publication venue counts. Note that some journals are
associated with exactly one (sub)discipline while others, e.g., interdisciplinary ones like
<em>Science</em> or <em>Nature</em>, are fractionally associated with multiple
(sub)disciplines. Subdisciplines inherit the colors of their parent disciplines.
(Sub)disciplines without any associated publications are given in gray.</p>
<img src="${aboutImagesRoot}/scimap_discipline.jpg" width="450" height="327" />
<img src="${aboutImagesRoot}/scimap_subdiscipline.jpg" width="450" height="327" />
<h3>Expertise Profile Comparison Map</h3>
<p>Publication activity of up to three organizations or persons can be compared via "Compare
organizations." In the table on the left, select up to three organizations. The expertise
profile of each organizations will be represented as data overlay. Each organizations is
represented in a distinct color and a top-10 list of subdisciplines with the highest number
of publications is given below the comparison map. Data can be saved as CSV file.</p>
<img src="${aboutImagesRoot}/scimap_comparison.jpg" width="803" height="781" style=
"margin-left: 50px;"/>
<h3>Interactivity</h3>
<p>The map can be explored at two levels-by 13 disciplines or 554 subdisciplines. Clicking
on a node in the map brings up the number of fractionally associated journal publications
and the percentage of publications mapped to this (sub)discipline. Hover over a discipline
in the table on the left to see what circles it corresponds to on the map. Use slider below
map, on the right to reduce number of subdisciplines shown to improve legibility</p>
<h3>Links</h3>
<p>For more information on the UCSD map of science and classification system, see
<a href="https://doi.org/10.1371/journal.pone.0039464" target="_blank">https://doi.org/10.1371/journal.pone.0039464</a>.
For other maps of science, see
<a href="http://scimaps.org" target="_blank">http://scimaps.org</a> and
<a href="http://mapofscience.com" target="_blank">http://mapofscience.com</a>.</p>

4
webapp/src/main/webapp/templates/freemarker/visualization/mapOfScience/mapOfScienceTooltips.ftl
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@ -4,7 +4,7 @@
<div id="toolTipOne" style="display:none;">
VIVO's Map of Science visualization depicts the topical expertise a university, organization, or person has
based on past publications loaded into VIVO. Shown here is the expertise profile of the ${entityLabel}--larger
based on past publications loaded into VIVO. The ${entityLabel} expertise profile is shown here--larger
circle sizes denote more publications per topic area.<br /><br />
<a href='${subEntityMapOfScienceCommonURL}about'>Learn more about VIVO's Map of Science visualization?</a>
@ -28,7 +28,7 @@ therefore it may not be fully representative of the overall publication activity
The publication coverage of this visualization can be improved by including more publication data in the VIVO
system, and by ensuring that each publication in the VIVO system is associated with a journal that the Map of
Science recognizes (based on the holdings of Thomson's ISI database and Elsevier's Scopus database). Journal
Science recognizes (based on the holdings of Clarivate Analytics' Web of Science database and Elsevier's Scopus database). Journal
names containing typos or other idiosyncrasies may need to be cleaned up before they are recognized. You may
contact a VIVO system administrator if publication coverage is a concern.</div>