====== Pubmed Plugin ======

---- plugin ----
description: Plugin that retrieves the information of scientific journals from PubMed with PMID
author     : Ikuo Obataya
email      : I.Obataya[at]gmail.com
type       : syntax
lastupdate : 2023-08-07
compatible : Jack Jackrum
depends    : 
conflicts  : 
similar    : pubchem,pdb
tags       : biology chemistry medical science references
downloadurl: https://github.com/iobataya/dokuwiki-plugin-pubmed/archive/master.zip
bugtracker : https://github.com/iobataya/dokuwiki-plugin-pubmed/issues
sourcerepo : https://github.com/iobataya/dokuwiki-plugin-pubmed
----
===== Functions =====

This is a plugin for DokuWiki that retrieves the information from PubMed with PMID. The plugin stores NCBI ESummary XML file ''/data/media/ncbi_esummary'' directory.

  {{pubmed>[Command]:[PubMed ID]}}

^  Command        ^  Item   ^  Function  ^
^[[#short]]       |  link   |Show a short pubmed link from NCBI Structure database  |
^[[#long]]        |  link   |Show a detailed pubmed link from NCBI Structure database  |
^[[#summaryXML]]  |  xml    |Show a XML summary data from the NCBI database using Entrez Utilities  |
^clear_summary    |  --     |Clear cached XML files in ''/data/media/ncbi_esummary''  |

===== Examples =====

==== Short ====

Code
  {{pubmed>short:9039911}}

Display
  Wilmut I et al.Nature 385 p810-3 (1997 Feb 27)

==== Long ====

Code
  {{pubmed>long:9039911}}

Display
  Viable offspring derived from fetal and adult mammalian cells.
  Wilmut I, Schnieke AE, McWhir J, Kind AJ, Campbell KH,Nature385p810-3(1997 Feb 27)

==== SummaryXML ====

Code
  {{pubmed>summaryXML:9039911}}

Display

<code xml>
<?xml version="1.0"?>
<!DOCTYPE eSummaryResult PUBLIC "-//NLM//DTD eSummaryResult, 29 October 2004//EN" "http://www.ncbi.nlm.nih.gov/entrez/query/DTD/eSummary_041029.dtd">
<eSummaryResult>
<DocSum>
	<Id>9039911</Id>
	<Item Name="PubDate" Type="Date">1997 Feb 27</Item>
	<Item Name="EPubDate" Type="Date"></Item>
	<Item Name="Source" Type="String">Nature</Item>
	<Item Name="AuthorList" Type="List">
		<Item Name="Author" Type="String">Wilmut I</Item>
		<Item Name="Author" Type="String">Schnieke AE</Item>
		<Item Name="Author" Type="String">McWhir J</Item>
		<Item Name="Author" Type="String">Kind AJ</Item>
		<Item Name="Author" Type="String">Campbell KH</Item>
	</Item>
...
</code>

===== History =====

  * 2016.10.24
    * URLs are changed according to changes in Web API of NCBI database.
  * 2013.01.30
    * This plugin became independent on other helper plugins. You don't need bio plugin nor cache plugin.
  * 2008.03.22
    * Some functions were parted into Bio Plugin((removed, discontinued)) and [[Cache]] Plugin.
  * 2008.02.26
    * Cache ESummary XML file in ''/data/media/ncbi_esummary'' directory
  * 2007.12.08
    * Fix around directory creation & [[:ACL]]
    * Append an icon image

===== Notes =====

  * Please note that an improved version of this plugin is available on [[plugin:pubmed2020]]