From: Zoltan K. <zo...@gm...> - 2011-09-13 06:58:13
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Hi, On Tue, Sep 6, 2011 at 10:19 PM, Vitaly V. Ganusov <vit...@gm...> wrote: > I cannot download references from medline anymore - the query returns > status that "Query return no results" no matter what I search. It used > to work fine until recently. > > I run Ubuntu 10.04 LTS, version 1.2.12 Hm. I think it is not an Ubuntu issue. The same for me under Fedora. The URL pyblio has used gives the message 'Wrong DB name' upon medline query. The links we have used: query_url = 'http://www.ncbi.nlm.nih.gov/entrez/utils/pmqty.fcgi' fetch_url = 'http://www.ncbi.nlm.nih.gov/entrez/utils/pmfetch.fcgi' So, maybe these urls don't work anymore? Does anybody have any information regarding this ussue? I'm afraid we have to change the url (eutils?), and update the code. Zoltan |
From: Zoltan K. <zo...@gm...> - 2011-09-13 20:27:23
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Hi, It seems we should update the query link. We should use eutils. See eg. http://eutils.ncbi.nlm.nih.gov/entrez/eutils/esearch.fcgi?db=pubmed&term=science[journal]+AND+breast+cancer+AND+2008[pdat] I'm checking the manual, and trying to find out how the code should be updated. Zoltan 2011/9/13 Vitaly V. Ganusov <vi...@ni...>: > Yes, it is the most likely explanation. Other applications work fine, e.g., > jabref, so they probably know what happened. > > Vitaly > > On 09/13/2011 02:58 AM, Zoltan Kota wrote: >> >> Hi, >> >> On Tue, Sep 6, 2011 at 10:19 PM, Vitaly V. Ganusov >> <vit...@gm...> wrote: >>> >>> I cannot download references from medline anymore - the query returns >>> status that "Query return no results" no matter what I search. It used >>> to work fine until recently. >>> >>> I run Ubuntu 10.04 LTS, version 1.2.12 >> >> Hm. I think it is not an Ubuntu issue. The same for me under Fedora. >> The URL pyblio has used gives the message 'Wrong DB name' upon medline >> query. The links we have used: >> query_url = 'http://www.ncbi.nlm.nih.gov/entrez/utils/pmqty.fcgi' >> fetch_url = 'http://www.ncbi.nlm.nih.gov/entrez/utils/pmfetch.fcgi' >> >> So, maybe these urls don't work anymore? Does anybody have any >> information regarding this ussue? >> >> I'm afraid we have to change the url (eutils?), and update the code. >> >> Zoltan > > -- > Vitaly V. Ganusov > Assistant Professor > M409 Walters Life Sciences > Department of Microbiology > University of Tennessee > Knoxville, TN 37996-0845 > USA > Phone: +1 865 974-4547 > FAX: +1 865 974-4007 > http://web.bio.utk.edu/ganusov/index.html > |