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Re: Journal
abbreviations and articles downloaded from PubMed
| Re: Journal
abbreviations and articles downloaded from PubMed |
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Author: Community Mailer
Posted: Fri, 29 May 2009 09:47:21 -0700
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Subject: Re: Journal abbreviations and articles downloaded from PubMed
Author: pablog (New User)
Date: 05-29-2009 12:47 PM
Hi, The problem comes from a little file situated in the Reference Manager main folder and called "PERDICT.dat". This file contains a list of abbriged terms of journal titles supposed not to have a dot. In fact, when you import a reference from PubMed, RefMan scans this file with the words of the journal abbreviation and, if a word is not retrieved in the list, it put a dot at the end of the word. The problem is that this term list is not adapted for the abbriged names of the PubMed Journals and a lot of terms are not present. The worst is that the journal form with dots is not recognized by the term list! Like you, I wanted RefMan not to put all those "." et the end of the terms when I import references from PubMed so I've tried to replace the PERDICT.dat list with all the terms found on the whole list of PubMed Journals and finally I could solved this problem last year with the follow steps : 1) download the PubMed journal list in txt ( ftp://ftp.ncbi.nih.gov/pubmed/J_Medline.txt ) 2) edit the list with Word to extract only the journal titles and Medline abbreviations 3) cut the phrases to obtain a list of all the single words contained in those titles 4) edit the list with Excel to remove the duplicate words 5) sort alphabetically and save the final list in txt format 6) rename the file "PERDICT.dat" located at the Reference Manager root folder (for me the path is "C:\Program Files\Reference Manager 12\PERDICT.dat") in something like "PERDICT.dat.old" 7) place a copy of the list made from PubMed in the Reference Manager main folder ("C:\Program Files\Reference Manager 12\) and rename the txt file with "PERDICT.dat" If you want to skip the steps 1-5, I can send you a copy of this PERDICT.dat list of terms "PubMed compatible" (13'900 words and 121 Kb) that works fine now for me. Hope that helps Pablo Iriarte CHUV Lausanne
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abbreviations and articles downloaded from PubMed, Community Mailer
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