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Mihai's links about computing environment setup

Jabref.

  • A free bibliography management tool, includes bibtex to endnote conversion facilities. Has Mac, Unix, Windows versions
  • Obtain the binary: Download from sourceforge. Installation should be self-explantory. Specific but may become outdated info:
  • Can store info in a .bib file and as such it is immediately usable with latex.
  • An example .bib file if you want to test your installation: stochopt.bib. This will give you a feel on how the information is displayed.

Finding suitable bibtex entries.

  1. With Google Scholar
    1. Go to Google Scholar.
    2. On the right of the search box, select "Scholar Preferences". In the last set of choices (bottom of the page), you will see "Bibliography Manager". Select "Bibtex" from drop-down list. Click " Save Preferences".
    3. Now search something (say, for kicks, "anitescu").
    4. At the bottom of each entry, you will se an "import into bibtex" tab. You can press it and obtain a decent reference in bibtex. Copy it-- with mouse -- and paste it in Jabref.
    5. Instead of 4, I recommend the following. Click on "All xxx versions tab". You will see another list. Import in bibtex. the one that has as source the one on the publisher website. In the case of the first entry with my name, that is "Springer". It tends to be much more comprehensive than the default google scholar entries. Again, copy it -- with mouse -- and paste it in Jabref.
    6. Instead of 4,5 you can do the following: Click on the title of the article to go to the publisher's site. All publisher's I can think of will allow you to export the citation in a format that can be imported -- far as I experienced with it -- in Jabref. That is the most authoritative bibliographical entry. In the case of the first entry searched under my name, that is Springer, and the citation can be exported in RIS format, and then read into Jabref. One important side-effect of this method is that you will typically also have the information about the digital object identifier (DOI) and can save it in the Jabref data base. Subsequently, when you use this format, you may be able to click on this link to get back to the actual source.

Entering info in Jabref.

    1. Assume you have exported in some format from the publisher website, say "RIS" -- step Google 6 above. Then all you have to do is to go to the Jabref menu bar, click File-> Import in current database -> (Choose your file, after selecting the right filter from the drop-down format. In this case, RIS). And the file will appear, with an "Earth" sign signifying it has also captured the DOI.
    2. Assume you have the info in the clipboard, after you have copied it with mouse --steps Google 4,5 above. While doing this, identify the type of bib entry (article, book, etc). Then from the menu bar, press the + symbol. Choose the same type of entry as you have identified. Press on "Bibtex Source". Paste the info in the clipboard. Delete one of the type identifiers (this is the only step where it helps to know a bit of bibtex: each line must be ending with a comma except for the last, each piece of data used in {}, and the keyword -- e.g. @article, should appear only once; you need to do a bit of formatting by hand). A good entry should look like this (not necessarily with all the fields, this is imported from RIS, doi, issn, publisher, tend to be optional field)
    3. @ARTICLE{Steiger05,
      author = {Rainer Steiger and Christian H. Bischof and Bruno Lang and Walter
      Thiel},
      title = {Using automatic differentiation to compute derivatives for a quantum-chemical
      computer program},
      journal = {Future Gener. Comput. Syst.},
      year = {2005},
      volume = {21},
      pages = {1324--1332},
      number = {8},
      address = {Amsterdam, The Netherlands, The Netherlands},
      doi = {http://dx.doi.org/10.1016/j.future.2004.11.011},
      issn = {0167-739X},
      publisher = {Elsevier Science Publishers B. V.}
      }

    4. Save. You are done with this entry.
    5. Save your work as your_bib_file.bib.

Using Jabref with other software.

  • With latex, just save the file as a "bib"file and you can use it with bibtex.
  • Can be used in Endnote, by exporting. Simply Choose File->Export and Select Endnote Filer (*.txt). Import in endnote with the default filter (Endnote Import).
  • Can be used in Word 2008 with built-in citation manager by a roundabout
    • Export the Bibliography in .xml in <home>->Documents->Microsoft User Data->Sources.xml. Use the MS Office 2007 (xml) filter. When Word is started, the citation manager reads that file and makes the references available for insert in the word document.
    • Open a Word document with 08.
    • Press toolbox icon. Select the citations tab (mine is the third from left). Alternatively, Press Menu Bar-> Toolbox -> Citation Manager.
    • Press the settings button at the bottom of the toolbox view. You will now see a list of ALL bib entries in your Bibliography. Select the ones you need and press Copy. Now they appear in the citations pane, and double-click will insert them at cursor.
  • Can be used in Word 2007 similarly, from what I heard. I cannot experiment with it since I have EndNOTE which has disabled my Office Citation Manager :-).


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Last modified: January 05, 2010