Trouble with NCBI Pubmed translator

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  • rwielage
    The import of the PubMed search finished. Thanks for the quick work on the PubMed fix!
  • ajlyon
    Can I take the silence to mean that this patch is working for everyone? If so, I'll ask to have it pushed to all users.
  • estes
    No, it is not working correctly for me yet. I updated the PubMed translator and have an up to date version of Zotero. I was able to save one article using the folder option. However, this does not consistently work. Additionally when I view the details of a single article on PubMed, clicking on the document icon in the address bar only results in a blank grey box in the lower right hand corner of my window. -The citation does not get uploaded. The magic wand tool does not work either.
  • ajlyon
    Please provide some sample URLs that don't work for you.
  • techneaux
    Just wanted to add that the new translator works for me.. I tried a bunch of random pubmed articles. Thank you, ajlyon!
  • rwielage
    ajlyon, it's working fine for me. Please push it out to our users. THANKS FOR YOUR QUICK RESPONSE!
  • tom7320
    THX! It works for me!

    Tom
  • estes
    http://www.ncbi.nlm.nih.gov/pubmed/20378307
  • techneaux
    estes: with the new translator from yesterday, that link/article works for me.
  • estes
    In private libraries I can add a citation by using the magic wand or folder button in the address bar.

    In shared libraries I can only add a citation by using the folder button in the address bar.

    The document button in the address bar does not work at all. The magic wand does not work for shared libraries.

    Mac 10.5.8, Zotero 2.0.3
  • ajlyon
    edited June 5, 2010
    @estes: It seems that there is something odd going on with your setup, since that citation works for me and for others in private and shared libraries. Update your translators in the Zotero preferences and try again. If items still don't save correctly, please submit an error report and debug output for a failed attempt to save from Pubmed; see http://www.zotero.org/support/reporting_bugs for details.
  • ajlyon
    By the way, the new translator has been committed. Manually update translators from the Zotero preferences to get it now, otherwise it will be automatically installed within 24 hours.
  • estes
    I figured it out.

    A year or two ago I set up a custom data directory that I no longer use. I forgot that I had two directories and updated the PubMed translator in the directory that is no longer in use. Now that I've updated the correct translator, things appear to be working fine again.
    Thank you for you help.
  • TonRullmann
    Hi,
    I cannot store PubMed entries using any of the methods described above: save an abstract directly, save from result list, PMID with magic wand.
    Do other people also experience issues?
    Thanks for you help.
  • tom7320
    Yup, same probleme here....
  • ajlyon
    The PMID lookup service is currently down -- see http://eutils.ncbi.nlm.nih.gov/entrez/eutils/efetch.fcgi?db=PubMed&retmode=xml&rettype=citation&id=20519957

    I'll see if perhaps something has changed. In the meantime, try using DOIs.
  • ajlyon
    The Pubmed Entrez Utilities seem to be down in general, judging from Twitter traffic on the topic. Hold on a few hours -- it should clear up.
  • ajlyon
    And now it is back up. If you are still experiencing issues with Pubmed, please post here. Otherwise, I think we can safely say that all is well.
  • TonRullmann
    Thanks ajlyon! Now I know where to look if this kind of problem occurs again.
    And indeed, saving Pubmed entries works again for me.
  • JLReeves
    The translator for Pubmed is not working
  • adamsmith
    JL - that's not helpful - provide details.
  • JLReeves
    When attempting to use the translator in the search bar to add information onto Zotero from Pubmed, there is no action that occurs. There is a red box down in the right hand corner of Zotero but the file does not save.
  • ajlyon
    The URL http://www.ncbi.nlm.nih.gov/pubmed/20519957 works for me. Does it work for you?

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