Import pdfs from Mendeley to Zotero

I am trying to import from Mendeley to Zotero. Both RIS and Bib files work. But I can't get the pdfs to come over.
Please help.
Thanks
ps. Using Zotero 4.0.8 and Windows 7 32 bit

Here is a a sample entry of Mendeley's RIS export that has a pdf attached to it:

TY - JOUR
T1 - Commentary: the role of appraisal and multisource feedback in the UK General Medical Council's new revalidation system.
A1 - Rubin, Peter
Y1 - 2012/12//
JF - Academic medicine : journal of the Association of American Medical Colleges
VL - 87
IS - 12
SP - 1654
EP - 6
DO - 10.1097/ACM.0b013e3182758c02
UR - http://www.ncbi.nlm.nih.gov/pubmed/23187912
N2 - Beginning in December 2012, all UK doctors will be required to complete a periodic revalidation process conducted by the General Medical Council (GMC) to retain their licence to practise medicine. Regular appraisals, based on the GMC's core guidance for doctors, will be used by responsible officers to evaluate a doctor's practice based on six types of supporting information. Feedback from patients and colleagues, referred to as multisource feedback (MSF), is one element of supporting information that doctors will present at appraisal to support their revalidation.This commentary by the Chair of the GMC expands on the research in this issue by Wright and colleagues to provide an overview of the history of revalidation in the United Kingdom, discuss the role of appraisal in revalidation, and examine the need for and value of MSF in this process. The author highlights the support that the GMC has received from UK patient organizations and ends by focusing on the benefits of revalidation and the expectations for its development in the future.
ER -
«1
  • ask Mendeley - as you can see, there's not actually a file-link in that RIS (it should be preceded by an L1 tag), but I'm pretty sure other people have done this successfully.
  • Thanks Adam - I posted my question there and Mendeley directed me back to this discussion on Zotero!

    Anyway - here's a RIS entry that does have the L1 tag:

    TY - JOUR
    T1 - Assessing professional competence: from methods to programmes.
    A1 - van der Vleuten, Cees P M
    A1 - Schuwirth, Lambert W T
    Y1 - 2005/03//
    KW - Clinical Competence
    KW - Clinical Competence: standards
    KW - Education, Medical, Undergraduate
    KW - Education, Medical, Undergraduate: methods
    KW - Learning
    KW - Program Evaluation
    KW - Reproducibility of Results
    JF - Medical education
    VL - 39
    IS - 3
    SP - 309
    EP - 17
    DO - 10.1111/j.1365-2929.2005.02094.x
    UR - http://www.ncbi.nlm.nih.gov/pubmed/15733167
    L1 - file:///C:/Users/Anju/AppData/Local/Mendeley Ltd./Mendeley Desktop/Downloaded/van der Vleuten, Schuwirth - 2005 - Assessing professional competence from methods to programmes.pdf
    N1 - Mainly focused on assessment tools but has some overarching points about assessment programmes that could relate to appraisal programmes
    N2 - INTRODUCTION: We use a utility model to illustrate that, firstly, selecting an assessment method involves context-dependent compromises, and secondly, that assessment is not a measurement problem but an instructional design problem, comprising educational, implementation and resource aspects. In the model, assessment characteristics are differently weighted depending on the purpose and context of the assessment. EMPIRICAL AND THEORETICAL DEVELOPMENTS: Of the characteristics in the model, we focus on reliability, validity and educational impact and argue that they are not inherent qualities of any instrument. Reliability depends not on structuring or standardisation but on sampling. Key issues concerning validity are authenticity and integration of competencies. Assessment in medical education addresses complex competencies and thus requires quantitative and qualitative information from different sources as well as professional judgement. Adequate sampling across judges, instruments and contexts can ensure both validity and reliability. Despite recognition that assessment drives learning, this relationship has been little researched, possibly because of its strong context dependence. ASSESSMENT AS INSTRUCTIONAL DESIGN: When assessment should stimulate learning and requires adequate sampling, in authentic contexts, of the performance of complex competencies that cannot be broken down into simple parts, we need to make a shift from individual methods to an integral programme, intertwined with the education programme. Therefore, we need an instructional design perspective. IMPLICATIONS FOR DEVELOPMENT AND RESEARCH: Programmatic instructional design hinges on a careful description and motivation of choices, whose effectiveness should be measured against the intended outcomes. We should not evaluate individual methods, but provide evidence of the utility of the assessment programme as a whole.
    ER -
  • if there is a PDF in that file this should import fine -
    have you made sure the file
    C:/Users/Anju/AppData/Local/Mendeley Ltd./Mendeley Desktop/Downloaded/van der Vleuten, Schuwirth - 2005 - Assessing professional competence from methods to programmes.pdf
    exists on your harddisk?
  • edited October 14, 2013
    If those pdfs are found in the Mendeley organised folder, can one copy them and paste into Mendeley's downloaded folder? Or create a duplicate back-up version to test?

    Other than that, I have been reading different threads about importing RIS/ Bibtex with pdfs still attached from Mendeley, could someone please consolidate this in a clear and easy to follow set of instructions for Windows (7)?

    Here is the other related thread:
    https://forums.zotero.org/discussion/28786/

    But I've got to say it is going over my head.

    I've got now [no thanks so Mendeley's curious self duplicating mysteries] 35,000+ database. If only one could combine the ease of retrieving metadata for Pdfs from Mendeley with Zotero's duplication function...

    Anyhow, would be great if I could retain my Pdfs with the bibtex from Mendeley and have them imported intact into Zotero.

    With about 13,000 pdfs, I can't really wait for Google Scholar's 50 pdf limit.
  • edited October 14, 2013
    If those pdfs are found in the Mendeley organised folder, can one copy them and paste into Mendeley's downloaded folder? Or create a duplicate back-up version to test?
    sorry, could you explain that a bit more, I don't follow? (as for back-up/testing - Zotero only ever copies files, it will never remove a file from anywhere, in case that's a concern).

    Attaching PDFs should work out of the box when using Mendeley's RIS export. There are a host of issues using BibTex file export (and import) on Windows, so I'd council against that. Differences are marginal anyway.
  • Ok maybe to keep things simple, I just need simple, step by step instructions to import my pdfs with bibtex/ ris into Zotero from Mendeley - but I dont want to mess up my Mendeley account - not just yet.
  • There should really just be two steps:
    1. Export library as RIS from Mendeley (go to "all documents", select all (ctrl+a) and the click "Export" from the File Menu. Select .ris as the filetype.
    2. Import that file to Zotero (click on import in the gears menu and select the file exported from Mendeley.

    That's it and none of this will ever touch your Mendeley database.
  • edited October 15, 2013
    But what about the attached Pdfs from Mendeley? The key is that they come attached or can be automatically reattached with the relevant reference. Can one also do this in bibtex?

    I have since started another thread to centralise ideas for migrating from Mendeley to Zotero.

    https://forums.zotero.org/discussion/32500/migrating-from-mendeley-to-zotero/
  • they'll be attached, yes. Also, there's really no cost to just trying this out.
    Re Bibtex - generally yes, but due - mainly - to a persistent Mendeley bug (http://feedback.mendeley.com/forums/4941-general/suggestions/1008319-bug-in-exported-bib-file-ver-0-9-7-1-windows-) but also some issues of Zotero's own handling of Windows filepaths in bibtex, it takes many more steps, some of them a bit involved.
  • edited October 14, 2013
    This has got to be the most EXCELLENT outcome I have experienced in months and months of frustration with managing my 35,000+ database.

    So I followed your instruction:

    1. Export library as RIS from Mendeley (go to "all documents", select all (ctrl+a) and the click "Export" from the File Menu. Select .ris as the filetype.

    2. Import that file to Zotero (click on import in the gears menu and select the file exported from Mendeley.


    The most important thing is WHERE one saves the RIS file. I saved it in my Mendeley organised folder, where my renamed pdfs are outputted by Mendeley.

    Then I import the RIS file into Zotero - and it WORKS!!!!!! THANK YOU :-)

    [Finally an end in sight for these crazy months of endless Mendeley bugs!]

    This is the best of all worlds based on the following workflow:

    [1] Mendeley batch pdf metadata retrieval ------>
    [2] Zotero's automatic duplicates control & search ------> [perhaps for some]
    [3] Endnote's bibliographic formatting


    With such a huge database, I am afraid there is no "Swiss Army" knife bibliographic management software. But maybe now, there are hybrid approaches to enhance one's productivity [like hands up who have spent more time fixing one's bibliographic software than doing the research and writing itself? Calling to all Mendeley users...]
  • Okay now the challenge is to get the pdfs to open within the browser or standalone [if that's possible], so I am now referring to this link:

    https://forums.zotero.org/discussion/23749/annotate-attached-pdfs/

    Which hasn't worked for me.
  • (Continued on the thread linked to by TTLP)
  • edited October 15, 2013
    When logging from another computer through standalone, it says some Pdf links are either deleted or changed (which could be true as I have been experimenting), but how do I batch reconnect the links?

    I have 25Gb Zotero storage - and would be happy to keep all my pdfs stored there for different computers. I also would like to integrate it with my android tablet.

    Perhaps this refers to a different thread, but I am not sure what is the best way to approach the set-up for different computers access. I also have Dropbox, Google Drive and Busybox.

    I have read many threads and blogs, but must now say, I have lost sight what is the best way to set up a centralised system.

    I have since started a new thread, please refer to this on integrating Zotero Cloud, Android, Dropbox, Google Drive & Windows:

    https://forums.zotero.org/discussion/32499/best-practices-for-integrating-zotero-storage-3rd-party-cloud-windows-android/
  • what is the exact message you're getting? There's typically no batch re-connect, but if you tell us what exactly you're seeing, we'll be able to say more.
  • Exact Message: "The attached file could not be found. It may have been moved or deleted outside of Zotero".

    With button option to either "Locate" or "Cancel".
  • you would also get that message if file syncing hadn't completed. That seems by far the most likely scenario for what's happening.

    (@Dan - shouldn't that be added to the error message? Given that in 9 out of 10 cases this is due to files not syncing rather than moved/deleted files, this seems confusing).
  • How does one know the difference?

    Also could I batch rename my pdf with Zotfile in the meantime, and then attempt for another reset for sync to copy from my local onto server?

    How long should I assume for changes to be completely repopulated on the server?
  • If you have a completed sync on both machines with no errors (no red or yellow symbol next to the round green arrow), files should be synced. If not, see
    http://www.zotero.org/support/kb/files_not_syncing
  • @TTLP, any particular reason for including
    [3] Endnote's bibliographic formatting
    in your proposed workflow? What's wrong with Zotero's bibliographic output?
  • edited October 16, 2013
    [Thread redirected to another forum].
  • edited October 16, 2013
    Rintze

    Regarding:
    @TTLP, any particular reason for including

    [3] Endnote's bibliographic formatting

    in your proposed workflow? What's wrong with Zotero's bibliographic output?

    _____


    You may have noticed that I've added bracket (for some).

    I must say I haven't thoroughly tested this last part myself - if only because I am still principally stuck between phase 1 & 2.

    I noticed previously Word's citation index seemed to scramble Mendeley and Zotero... which forced me to abandon one or the other as word add on.


    As for Endnote - this came from my professor because he is such a stickler for absolute precise APA protocols. By that, he means everything... (maybe I have opened a can of worms here...?)
  • Yeah, I don't know what it is with APA and profs. There is no real world scenario where being able to follow APA to the letter is important.

    But as long as you make sure to keep all your titles in sentence case in Zotero http://www.zotero.org/support/kb/sentence_casing APA style should be flawless.
    You need to remove issue numbers for continuously paginated journals, though. Not sure how Endnote handles that, but I don't really see how it can be automated.
  • edited October 16, 2013
    And the scrambling of citations between Mendeley and Zotero in Word?

    As for the sentence case aspect, one can't do batch changes?
  • you mean some citations generated by Mendeley, some by Zotero? Yeah, I could see that causing problems, but you'd have to replace one or the other anyway.
  • Good to know it is a known bug... hence for now, Endnote (for some).
  • edited October 17, 2013
    I'm not sure why you consider that a bug - you'll get chaos when you mix citation managers in a document either way.
    edit: and obviously if you want to use Zotero anyway, you can just remove Mendeley field codes and replace the citations with Zotero citations.
  • I've read through the thread, and I wasn't sure, so I'll ask.

    What is the known bug?
  • @fbennett - that Mendeley and Zotero citations in the same document can create problems. I'm not sure I'd classify this as "known", but given that Mendeley uses, to large extent, old Zotero code, I'm not surprised this doesn't work well.
  • @TTLP: If the bug is that citations inserted by two separate products do not behave seamlessly as if inserted with one or the other of them, I'd agree with adamsmith that that's pushing the term beyond its normal meaning.
  • Sorry - for my layman's terminology. Known bug retracted. Just that it is not easy to decipher whether problem is my system alone: the "is it me or not" problem.
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