Re: [pyblio] no access to medline/pubmed

[Zoltan K. <zo...@gm...>]

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
>