forked from D-Net/dnet-hadoop
254 lines
8.7 KiB
Java
254 lines
8.7 KiB
Java
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package eu.dnetlib.dhp.sx.bio.pubmed;
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import java.io.Serializable;
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import java.util.ArrayList;
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import java.util.List;
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/**
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* This class represent an instance of Pubmed Article extracted from the native XML
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*
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* @author Sandro La Bruzzo
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*/
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public class PMArticle implements Serializable {
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/**
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* the Pubmed Identifier
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*/
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private String pmid;
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/**
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* the DOI
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*/
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private String doi;
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/**
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* the Pubmed Date extracted from <PubmedPubDate> Specifies a date significant to either the article's history or the citation's processing.
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* All <History> dates will have a <Year>, <Month>, and <Day> elements. Some may have an <Hour>, <Minute>, and <Second> element(s).
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*/
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private String date;
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/**
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* This is an 'envelop' element that contains various elements describing the journal cited; i.e., ISSN, Volume, Issue, and PubDate and author name(s), however, it does not contain data itself.
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*/
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private PMJournal journal;
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/**
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* The full journal title (taken from NLM cataloging data following NLM rules for how to compile a serial name) is exported in this element. Some characters that are not part of the NLM MEDLINE/PubMed Character Set reside in a relatively small number of full journal titles. The NLM journal title abbreviation is exported in the <MedlineTA> element.
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*/
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private String title;
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/**
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* English-language abstracts are taken directly from the published article.
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* If the article does not have a published abstract, the National Library of Medicine does not create one,
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* thus the record lacks the <Abstract> and <AbstractText> elements. However, in the absence of a formally
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* labeled abstract in the published article, text from a substantive "summary", "summary and conclusions" or "conclusions and summary" may be used.
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*/
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private String description;
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/**
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* the language in which an article was published is recorded in <Language>.
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* All entries are three letter abbreviations stored in lower case, such as eng, fre, ger, jpn, etc. When a single
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* record contains more than one language value the XML export program extracts the languages in alphabetic order by the 3-letter language value.
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* Some records provided by collaborating data producers may contain the value und to identify articles whose language is undetermined.
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*/
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private String language;
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/**
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* NLM controlled vocabulary, Medical Subject Headings (MeSH®), is used to characterize the content of the articles represented by MEDLINE citations. *
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*/
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private final List<PMSubject> subjects = new ArrayList<>();
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/**
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* This element is used to identify the type of article indexed for MEDLINE;
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* it characterizes the nature of the information or the manner in which it is conveyed as well as the type of
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* research support received (e.g., Review, Letter, Retracted Publication, Clinical Conference, Research Support, N.I.H., Extramural).
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*/
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private final List<PMSubject> publicationTypes = new ArrayList<>();
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/**
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* Personal and collective (corporate) author names published with the article are found in <AuthorList>.
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*/
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private List<PMAuthor> authors = new ArrayList<>();
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/**
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* <GrantID> contains the research grant or contract number (or both) that designates financial support by any agency of the United States Public Health Service
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* or any institute of the National Institutes of Health. Additionally, beginning in late 2005, grant numbers are included for many other US and non-US funding agencies and organizations.
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*/
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private final List<PMGrant> grants = new ArrayList<>();
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/**
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* get the DOI
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* @return a DOI
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*/
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public String getDoi() {
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return doi;
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}
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/**
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* Set the DOI
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* @param doi a DOI
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*/
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public void setDoi(String doi) {
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this.doi = doi;
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}
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/**
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* get the Pubmed Identifier
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* @return the PMID
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*/
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public String getPmid() {
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return pmid;
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}
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/**
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* set the Pubmed Identifier
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* @param pmid the Pubmed Identifier
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*/
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public void setPmid(String pmid) {
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this.pmid = pmid;
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}
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/**
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* the Pubmed Date extracted from <PubmedPubDate> Specifies a date significant to either the article's history or the citation's processing.
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* All <History> dates will have a <Year>, <Month>, and <Day> elements. Some may have an <Hour>, <Minute>, and <Second> element(s).
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*
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* @return the Pubmed Date
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*/
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public String getDate() {
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return date;
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}
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/**
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* Set the pubmed Date
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* @param date
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*/
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public void setDate(String date) {
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this.date = date;
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}
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/**
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* The full journal title (taken from NLM cataloging data following NLM rules for how to compile a serial name) is exported in this element.
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* Some characters that are not part of the NLM MEDLINE/PubMed Character Set reside in a relatively small number of full journal titles.
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* The NLM journal title abbreviation is exported in the <MedlineTA> element.
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*
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* @return the pubmed Journal Extracted
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*/
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public PMJournal getJournal() {
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return journal;
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}
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/**
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* Set the mapped pubmed Journal
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* @param journal
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*/
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public void setJournal(PMJournal journal) {
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this.journal = journal;
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}
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/**
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* English-language abstracts are taken directly from the published article.
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* If the article does not have a published abstract, the National Library of Medicine does not create one,
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* thus the record lacks the <Abstract> and <AbstractText> elements. However, in the absence of a formally
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* labeled abstract in the published article, text from a substantive "summary", "summary and conclusions" or "conclusions and summary" may be used.
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*
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* @return the extracted pubmed Title
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*/
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public String getTitle() {
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return title;
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}
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/**
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* set the pubmed title
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* @param title
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*/
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public void setTitle(String title) {
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this.title = title;
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}
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/**
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* English-language abstracts are taken directly from the published article.
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* If the article does not have a published abstract, the National Library of Medicine does not create one,
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* thus the record lacks the <Abstract> and <AbstractText> elements. However, in the absence of a formally
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* labeled abstract in the published article, text from a substantive "summary", "summary and conclusions" or "conclusions and summary" may be used.
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*
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* @return the Mapped Pubmed Article Abstracts
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*/
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public String getDescription() {
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return description;
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}
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/**
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* Set the Mapped Pubmed Article Abstracts
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* @param description
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*/
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public void setDescription(String description) {
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this.description = description;
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}
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/**
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* Personal and collective (corporate) author names published with the article are found in <AuthorList>.
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*
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* @return get the Mapped Authors lists
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*/
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public List<PMAuthor> getAuthors() {
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return authors;
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}
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/**
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* Set the Mapped Authors lists
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* @param authors
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*/
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public void setAuthors(List<PMAuthor> authors) {
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this.authors = authors;
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}
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/**
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* This element is used to identify the type of article indexed for MEDLINE;
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* it characterizes the nature of the information or the manner in which it is conveyed as well as the type of
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* research support received (e.g., Review, Letter, Retracted Publication, Clinical Conference, Research Support, N.I.H., Extramural).
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*
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* @return the mapped Subjects
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*/
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public List<PMSubject> getSubjects() {
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return subjects;
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}
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/**
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*
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* the language in which an article was published is recorded in <Language>.
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* All entries are three letter abbreviations stored in lower case, such as eng, fre, ger, jpn, etc. When a single
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* record contains more than one language value the XML export program extracts the languages in alphabetic order by the 3-letter language value.
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* Some records provided by collaborating data producers may contain the value und to identify articles whose language is undetermined.
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*
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* @return The mapped Language
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*/
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public String getLanguage() {
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return language;
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}
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/**
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*
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* Set The mapped Language
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*
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* @param language the mapped Language
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*/
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public void setLanguage(String language) {
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this.language = language;
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}
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/**
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* This element is used to identify the type of article indexed for MEDLINE;
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* it characterizes the nature of the information or the manner in which it is conveyed as well as the type of
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* research support received (e.g., Review, Letter, Retracted Publication, Clinical Conference, Research Support, N.I.H., Extramural).
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*
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* @return the mapped Publication Type
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*/
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public List<PMSubject> getPublicationTypes() {
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return publicationTypes;
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}
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/**
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* <GrantID> contains the research grant or contract number (or both) that designates financial support by any agency of the United States Public Health Service
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* or any institute of the National Institutes of Health. Additionally, beginning in late 2005, grant numbers are included for many other US and non-US funding agencies and organizations.
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* @return the mapped grants
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*/
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public List<PMGrant> getGrants() {
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return grants;
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}
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}
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