[Biopython-dev] Fwd: [Utilities-announce] PubMed E-Utility 2013 DTD updates

[Peter Cock]

I've added the two new DTD files mentioned below:
https://github.com/biopython/biopython/commit/2a09b03ab4d861e91eb543bd6df717ecb4fdf097

Peter

---------- Forwarded message ----------
From: **
Date: Friday, September 28, 2012
Subject: [Utilities-announce] PubMed E-Utility 2013 DTD updates
To: NLM/NCBI List utilities-announce <utilities-announce at ncbi.nlm.nih.gov>


NCBI PubMed E-Utility Users,****

** **

We anticipate updating the PubMed E-Utility DTDs for 2012 in mid-December,
approximately on December 10 or 11, 2012.****

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The forthcoming DTDs are available from:****

** **

http://www.ncbi.nlm.nih.gov/entrez/query/DTD/nlmmedlinecitationset_130101.dtd
****

http://www.ncbi.nlm.nih.gov/entrez/query/DTD/pubmed_130101.dtd****

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Changes to NLMMedlineCitationSet DTD AND MEDLINE/PubMed XML:****

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**-          **Indicating abstracts not in MEDLINE/PubMed but available
from publishers****

English-language abstracts are taken directly from the published article
and included in the <Abstract> and <AbstractText> elements. If the article
does not have a published abstract, the record lacks the <Abstract> and
<AbstractText> elements. However, publishers may create English-language
abstracts that are not published with the article, as well as, non-English-
language abstracts that may or may not be published with the article.****

** **

These other abstracts will be indicated in the <OtherAbstract> element. A
new "Language" attribute is added to the <OtherAbstract> element. The
<AbstractText> element will carry the standard phrase: "Abstract available
from the publisher."****

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DTD:****

<!ELEMENT OtherAbstract (AbstractText+,CopyrightInformation?)>****

<!ATTLIST            OtherAbstract Type (AAMC | AIDS | KIE | PIP | NASA |
Publisher) #REQUIRED****

                                Language (#PCDATA ) "eng">****

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Sample XML:****

<OtherAbstract Type="Publisher" Language="fre"> <AbstractText> Abstract
available from the publisher.</AbstractText>****

</OtherAbstract>****

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**-          **Rename NameID to Identifier****

The NameID element was created in 2010 and modified in 2011 but has not yet
been used. NameID is renamed to Identifier. Identifier is an optional,
possibly multiply-occurring element permissible within the Author (personal
and collective) and Investigator elements.  The value in the Identifier
attribute Source designates the organizational authority that established
the unique identifier. ****

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DTD:****

<!ELEMENT     Author (((LastName, ForeName?, Initials?, Suffix?) |
CollectiveName),Identifier*)>****

<!ATTLIST     Author ValidYN (Y | N) "Y">****

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<!ELEMENT     Investigator (LastName,ForeName?,
Initials?,Suffix?,Identifier*,Affiliation?)>****

<!ATTLIST     Investigator ValidYN (Y | N) "Y">****

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<!ELEMENT     Identifier (#PCDATA)>****

<!ATTLIST     Identifier ****

                      Source CDATA #REQUIRED >****

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Sample XML:****

<Author ValidYN="Y">****

<LastName>Smith</LastName>****

<ForeName>John</ForeName>****

<Initials>A</Initials>****

<Identifier Source=”ORCID”>55555555555555</Identifier>****

</Author>****

** **

Thank you.****