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Language field form Endnote not being importe

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2013-05-15
2013-05-28
  • I am just trying out a test installation of RefBase to host records imported from an Endnote master database.  Whatever export style I choose in Endnote, e.g. RefMan (RIS) or Endnote, the contents of the Language field from the Endnote Records is not being imported.  Yet there is a Language field in RefBase records.  I have noticed in the example text files for the different import styles on the website that the language field is not included.  Does RefBase not have an import option for the langauge field?  Alternatively can anyone advise on a fix for the problem please?

     
  • Further to this message, I have just realised that the issue number fields are also not being imported from the RefMan (RIS) files. An example imported record is below. Language is present tagged as LA and Issue is present as M1.  But they are not appearing in RefBase.  Other fields such as year, volume and pages DO appear.

    Any ideas please?

    Douglas Grindlay

    TY  - JOUR
    AB  - There are numerous treatments for correction of dorsal displacement of the soft palate (DDSP). However, the efficacy of these treatments is controversial and there is little consensus on how best to treat this condition. The aims of this study were to systematically review the literature and to assess the evidence on the clinical effects of interventions for dynamic intermittent DDSP. A secondary objective was to assess whether factors relating to study quality affected reported success rates. Twenty-three studies were included, covering a wide number of interventions but also differing widely is terms of study design, sample size, method of diagnosis, outcome measure and the number lost to follow-up. The assessment of adverse effects was severely limited because of lack of reporting. The way in which success is measured appears to have a great effect on the reported results. Research synthesis has been severely limited because of the heterogeneity in the included studies. The low level of evidence makes it difficult to draw firm conclusions as to the efficacy of procedures for DDSP. Hence it is currently not possible to determine which procedure is the most appropriate. This systematic review highlights the difficulties of studying palatal dysfunction and suggests areas where improvements can be made in future studies.
    AD  - Department of Clinical Veterinary Science, University of Bristol, UK. kate.allen@bristol.ac.uk
    AN  - 21880063
    AU  - Allen, K. J.
    AU  - Christley, R. M.
    AU  - Birchall, M. A.
    AU  - Franklin, S. H.
    DA  - May
    DO  - 10.1111/j.2042-3306.2011.00385.x
    DP  - NLM
    ET  - 2011/09/02
    J2  - Equine veterinary journal
    KW  - Airway Obstruction/etiology/therapy/ veterinary
    Animals
    Evidence-Based Practice/standards
    Horse Diseases/diagnosis/etiology/ therapy
    Horses
    Palate, Soft/ pathology/physiopathology
    Quality Assurance, Health Care
    Research/standards
    Treatment Outcome
    LA  - eng
    M1  - 3
    N1  - MEDLINE, PUBMED, ISI Web of Science, CAB Abstracts, Embase and IVIS searched
    PY  - 2012
    SN  - 2042-3306 (Electronic)
    0425-1644 (Linking)
    SP  - 259-66
    ST  - A systematic review of the efficacy of interventions for dynamic intermittent dorsal displacement of the soft palate
    T2  - Equine Vet J
    TI  - A systematic review of the efficacy of interventions for dynamic intermittent dorsal displacement of the soft palate
    UR  - http://dx.doi.org/10.1111/j.2042-3306.2011.00385.x
    VL  - 44
    ID  - 612
    ER  -

     
  • Hi Douglas,

    Does RefBase not have an import option for the langauge field?

    There was a a bug in the field mappings of refbase-0.9.5 that prevented the language field to be imported correctly.

    The newest refbase version which is available in the refbase SVN repository (see http://svn.refbase.net ), should import the language field. You can try this refbase version online at http://174.137.191.6/~refbase/beta.refbase.net/ .

    I have just realised that the issue number fields are also not being imported from the RefMan (RIS) files.

    The issue being encoded in the RIS field M1 ("Miscellaneous 1") is pretty uncommon and is not supported by refbase. Replace the RIS tag M1 with IS (or CP), and the issue should get imported correctly.

    There are a few more issues with your sample data (thanks for posting them):

    1. Keywords won't be separated correctly with semicolon characters unless you prefix each Keyword with a KW tag (or include the semicolon characters directly)

    2. refbase maps RIS tags J2 as well as T2 to the abbreviated journal, so your full journal name won't get imported. Use RIS tags JF or JO for the full journal name and it should get imported correctly.

    Here's your modified sample data:

    TY  - JOUR
    AB  - There are numerous treatments for correction of dorsal displacement of
    the soft palate (DDSP). However, the efficacy of these treatments is controversial
    and there is little consensus on how best to treat this condition. The aims
    of this study were to systematically review the literature and to assess the
    evidence on the clinical effects of interventions for dynamic intermittent DDSP.
    A secondary objective was to assess whether factors relating to study quality
    affected reported success rates. Twenty-three studies were included, covering
    a wide number of interventions but also differing widely is terms of study design,
    sample size, method of diagnosis, outcome measure and the number lost to follow-up.
    The assessment of adverse effects was severely limited because of lack of reporting.
    The way in which success is measured appears to have a great effect on the reported
    results. Research synthesis has been severely limited because of the heterogeneity
    in the included studies. The low level of evidence makes it difficult to draw
    firm conclusions as to the efficacy of procedures for DDSP. Hence it is currently
    not possible to determine which procedure is the most appropriate. This systematic
    review highlights the difficulties of studying palatal dysfunction and suggests
    areas where improvements can be made in future studies.
    AD  - Department of Clinical Veterinary Science, University of Bristol, UK.
    kate.allen@bristol.ac.uk
    AN  - 21880063
    AU  - Allen, K. J.
    AU  - Christley, R. M.
    AU  - Birchall, M. A.
    AU  - Franklin, S. H.
    DA  - May
    DO  - 10.1111/j.2042-3306.2011.00385.x
    DP  - NLM
    ET  - 2011/09/02
    JO  - Equine veterinary journal
    KW  - Airway Obstruction/etiology/therapy/ veterinary
    KW  - Animals
    KW  - Evidence-Based Practice/standards
    KW  - Horse Diseases/diagnosis/etiology/ therapy
    KW  - Horses
    KW  - Palate, Soft/ pathology/physiopathology
    KW  - Quality Assurance, Health Care
    KW  - Research/standards
    KW  - Treatment Outcome
    LA  - eng
    IS  - 3
    N1  - MEDLINE, PUBMED, ISI Web of Science, CAB Abstracts, Embase and IVIS searched
    PY  - 2012
    SN  - 2042-3306 (Electronic)
    0425-1644 (Linking)
    SP  - 259-66
    ST  - A systematic review of the efficacy of interventions for dynamic intermittent dorsal displacement of the soft palate
    T2  - Equine Vet J
    TI  - A systematic review of the efficacy of interventions for dynamic intermittent dorsal displacement of the soft palate
    UR  - http://dx.doi.org/10.1111/j.2042-3306.2011.00385.x
    VL  - 44
    ID  - 612
    ER  -
    

    If you need to import many of these records and don't want to adopt the tags in the raw RIS data, you can also edit refbase's field mappings to suit your needs. To do so, open file '' in a text editor and search for a line containing this string:

    "TY"  =>  "type",

    This is the start of the '$tagsToRefbaseFieldsArray' which contains all the RIS -> refbase field mappings.

    Hope this helps,
    Matthias

     
  • Thanks for the quick and helpful reply, Matthias.  I realised yesterday afternoon the problem with Issue number and Journal title was to do with the tags that Endnote was using in its RIS export style.  I have now edited the Endnote style to give the required tags for the Issue Number and Full journal title fields.

    I will investigate which version we are using to try to resolve the Langauge field issue.

    Cheers,
    Douglas

     
  • Hi Douglas, you're welcome. Let us know if you run into more issues.

    Great to hear that you could edit your Endnote RIS export style. So you don't need to edit refbase's field mappings. But for any other interested folks reading this: I omitted the refbase import file name in my previous post. This line:

    To do so, open file '' in a text editor…

    should have read:

    To do so, open file 'includes/import.inc.php' in a text editor

    Best,
    Matthias