1====== Pubmed Plugin ====== 2 3---- plugin ---- 4description: Plugin that integrates informations of scientific journals articles from PubMed with PMID. 5author : Eric Maeker and Ikuo Obataya 6email : eric[at]maeker.fr 7type : syntax 8lastupdate : 2016-08-22 9compatible : 2016-06-26 "Elenor Of Tsort", 2015-08-10a "Detritus" 10depends : 11conflicts : 12similar : 13tags : biology chemistry medical science references 14downloadurl: https://github.com/EricMaeker/dokuwiki-plugin-pubmed/archive/master.zip 15bugtracker : https://github.com/EricMaeker/dokuwiki-plugin-pubmed/issues 16sourcerepo : https://github.com/EricMaeker/dokuwiki-plugin-pubmed/ 17 18screenshot_img : https://github.com/EricMaeker/dokuwiki-plugin-pubmed/raw/dokuwiki-web-site/site/pubmed_long_abstract.png 19---- 20 21======Functions====== 22 23This plugin is based on the Ikuo Obataya <I.Obataya@gmail.com> code base (from 2013). It integrates informations scientific journal articles from PubMed using its PubMed identifiant: //PMID//. The plugin downloads and stores the summary of each articles in an XML file in // /data/media/ncbi_esummary // directory. 24 25**%%{{pubmed>[Command]:[PubMed ID]}}%%** 26 27^ Command ^ item ^ function | 28^[[#short]] |link |Show a short pubmed link| 29^[[#long]] |link |Show a detailed pubmed link| 30^[[#long_abstract]]|link |Show a detailed pubmed link and the complete abstract of the article (if available)| 31^[[#search]] |link |Create a link to a search query over PubMed (you can use MeSH terms, wildcards...)| 32^summaryXML |xml |Show the XML data retreived from the NCBI database (usefull for debugging)| 33^clear_summary | - |Clear cached XML files in /data/media/ncbi_esummary| 34^remove_dir | - |Remove the XML output dir: /data/media/ncbi_esummary (by default)| 35 36======Examples (code followed by a screenshot of the result)====== 37=====short===== 38 39 {{pubmed>short:9039911}} 40{{https://github.com/EricMaeker/dokuwiki-plugin-pubmed/raw/dokuwiki-web-site/site/pubmed_short.png}} 41 42=====long===== 43 44 {{pubmed>long:9039911}} 45{{https://github.com/EricMaeker/dokuwiki-plugin-pubmed/raw/dokuwiki-web-site/site/pubmed_long.png}} 46 47=====long_abstract===== 48 49 {{pubmed>long_abstract:9039911}} 50{{https://github.com/EricMaeker/dokuwiki-plugin-pubmed/raw/dokuwiki-web-site/site/pubmed_long_abstract.png}} 51 52======search====== 53 54 {{pubmed>search:"Empathy"[Mesh] AND "Communication"[Mesh] AND "Aged"[Mesh]}} 55{{https://github.com/EricMaeker/dokuwiki-plugin-pubmed/raw/dokuwiki-web-site/site/search.png}} 56 57 58====== History ====== 59 60 * See [[https://github.com/EricMaeker/dokuwiki-plugin-pubmed/commits/dokuwiki-web-site]] 61 62====== Discussion ====== 63 64