isi-rb 1.1.0

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Files changed (23) hide show
  1. data/ChangeLog +111 -0
  2. data/README +126 -0
  3. data/Rakefile +56 -0
  4. data/bin/isi2bibtex +9 -0
  5. data/html/classes/ARGF.html +127 -0
  6. data/html/classes/ARGF.src/M000004.html +53 -0
  7. data/html/classes/ISI_record.html +182 -0
  8. data/html/classes/ISI_record.src/M000001.html +19 -0
  9. data/html/classes/ISI_record.src/M000002.html +42 -0
  10. data/html/classes/ISI_record.src/M000003.html +34 -0
  11. data/html/created.rid +1 -0
  12. data/html/files/README.html +282 -0
  13. data/html/files/lib/isi_rb.html +132 -0
  14. data/html/fr_class_index.html +28 -0
  15. data/html/fr_file_index.html +28 -0
  16. data/html/fr_method_index.html +30 -0
  17. data/html/index.html +24 -0
  18. data/html/rdoc-style.css +208 -0
  19. data/isi-rb.gemspec +29 -0
  20. data/lib/isi.rb +201 -0
  21. data/setup.rb +1585 -0
  22. data/tests/isi_test.rb +13 -0
  23. metadata +84 -0
data/ChangeLog ADDED
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+ 2007-04-26 NISHIMATSU Takeshi <takeshi@physics.rutgers.edu>
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+
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+ * ChangeLog: New file.
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+
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+ 2007-04-25 NISHIMATSU Takeshi <takeshi@physics.rutgers.edu>
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+
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+ * isi.rb: version 1.0.6
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+
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+ * isi.rb: NR
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+
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+ 2006-12-25 NISHIMATSU Takeshi <takeshi@physics.rutgers.edu>
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+
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+ * isi.rb: version 1.0.4
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+
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+ * isi.rb: Author = {#{fmt(and_separated_authors)}},
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+
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+ * isi.rb: fmt()
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+
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+ 2006-11-06 NISHIMATSU Takeshi <takeshi@physics.rutgers.edu>
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+
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+ * isi.rb version 1.0.2
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+
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+ * isi.rb: New tag DI
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+
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+ 2006-08-24 NISHIMATSU Takeshi <takeshi@physics.rutgers.edu>
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+
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+ * isi.rb version 1.0.1
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+
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+ * isi.rb: URL -> ReprintURL
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+
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+ 2006-08-17 NISHIMATSU Takeshi <takeshi@physics.rutgers.edu>
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+
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+ * isi.rb version 1.0.0
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+
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+ * isi.rb: def ARGF.read_an_ISI_record
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+ # singleton method (instance method associated only with ARGF)
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+
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+ 2006-08-10 NISHIMATSU Takeshi <takeshi@physics.rutgers.edu>
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+
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+ * isi.rb version 0.9b
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+
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+ * isi.rb: correct link to ((<"Perl version of isi2bibtex in CTAN"|URL:http://www.ctan.org/tex-archive/biblio/bibtex/utils/isi2bibtex/>)).
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+
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+ 2006-04-24 NISHIMATSU Takeshi <takeshi@physics.rutgers.edu>
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+
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+ * isi.rb version 0.9a
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+
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+ * isi.rb: correct link to ((<"Text::Format"|URL:http://rubyforge.org/projects/text-format/>))
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+
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+ 2006-02-23 NISHIMATSU Takeshi <takeshi@physics.rutgers.edu>
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+
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+ * isi.rb: version 0.9
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+
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+ * isi.rb: # F The number of Author(s) 1:1, 2:not 1 (default)
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+
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+ * isi.rb: ji2journal
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+
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+ * isi.rb: PRB, PRL, etc.
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+
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+ 2005-04-13 NISHIMATSU Takeshi <takeshi@physics.rutgers.edu>
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+
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+ * isi.rb: version 0.8 is announced at fj.sources, fj.comp.lang.ruby and fj.comp.texhax.
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+
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+ * isi.rb: ISI_record#to_tohoku_DB(id, name)
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+
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+ * isi.rb: <--- isi2bibtex.rb
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+
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+ 2005-03-30 NISHIMATSU Takeshi <takeshi@physics.rutgers.edu>
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+
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+ * isi2bibtex.rb: version 0.7
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+
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+ * isi2bibtex.rb: tag LA
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+
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+ 2004-06-18 NISHIMATSU Takeshi <takeshi@physics.rutgers.edu>
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+
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+ * isi2bibtex.rb: ISI_record#fmt()
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+
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+ * isi2bibtex.rb: version 0.6 is released!
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+
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+ 2004-06-17 NISHIMATSU Takeshi <takeshi@physics.rutgers.edu>
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+
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+ * isi2bibtex.rb: version 0.5 is released!
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+
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+ * isi2bibtex.rb: require ((<"Text::Format"|URL:http://rubyforge.org/projects/text-format/>))
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+ by Austin Ziegler.
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+
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+ * isi2bibtex.rb: Title, Keywords, NewKeywords, and Abstract are nicely
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+ formated into fixed-width.
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+
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+ 2004-06-09 NISHIMATSU Takeshi <takeshi@physics.rutgers.edu>
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+
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+ * isi2bibtex.rb: version 0.4
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+
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+ * isi2bibtex.rb: simplified.
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+
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+ * isi2bibtex.rb: tags are sorted.
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+
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+ * isi2bibtex.rb: Reports "Filename:LineNumber: ..." when unknown tags are found.
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+
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+ 2004-06-07 NISHIMATSU Takeshi <takeshi@physics.rutgers.edu>
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+
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+ * isi2bibtex.rb: version 0.3 is released!
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+
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+ * isi2bibtex.rb: Format of ref_name is changed to author:[authors:]journal:volume:page:year.
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+
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+ * isi2bibtex.rb: Names of authors such like "de Haas, WJ" and "van Alphen, PM"
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+ are now available.
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+
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+ * isi2bibtex.rb: AR tag (article number of new APS journals) is now available.
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+
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+ * isi2bibtex.rb: It is O.K. in the case of "BP art. no., EP 125111".
data/README ADDED
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+ = isi-rb
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+
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+ == What is isi-rb?
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+ isi-rb converts ISI Export Format to BibTeX Format.
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+ This is a Ruby script. You can use isi-rb as a library.
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+
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+ ISI Web of Science, http://portal.isiknowledge.com,
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+ provides their bibliographic information in ISI Export Format.
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+ You can get the tagged Marked List in Web of Science by
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+ pushing the [SAVE TO FILE] button.
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+
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+ == Where is the homepage of isi-rb?
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+ http://isi-rb.rubyforge.org
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+
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+ == Where can I download isi-rb?
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+ Go to http://rubyforge.org/projects/isi-rb .
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+
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+ == How can I install isi-rb?
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+ There are three different ways to install isi.rb.
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+ === I. Simple way
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+ Installing this package is as simple as:
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+ $ ruby setup.rb
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+ === II. RubyGems users can take an easy way
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+ There is an easier way, if you are a RubyGems user:
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+ $ gem install isi-rb
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+ === III. Another simple way; just copy isi.rb
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+ Just copy isi.rb into your working directory which contains
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+ your saved "Marked List", e.g. savedrecs.txt.
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+ $ cp lib/isi.rb ~/your/working/directory/
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+ $ cd ~/your/working/directory/
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+ $ ruby isi.rb savedrecs1.txt savedrecs2.txt
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+ $ ruby isi.rb < savedrecs.txt > savedrecs.bib
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+ Lsat two lines are examples of usage for this installation way.
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+
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+ == How can I use it?
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+ === Save the marked records to an output file in ISI Web of Science
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+ Mark the articles in ISI Web of Science. Then, view and save the
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+ marked records to an output file (savedrecs.txt). I recommend to
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+ check "Author(s)", "Title", "Source", "abstract*", "keywords" and
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+ "source abbreviation" as the fields to include in the output file.
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+ === Here are some examples
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+ % isi2bibtex savedrecs.txt
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+ % isi2bibtex savedrecs1.txt savedrecs2.txt > savedrecs.bib
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+ % isi2bibtex < savedrecs.txt > savedrecs.bib
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+ % cat savedrecs.txt | isi2bibtex > savedrecs.bib
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+ === You can use isi-rb as a library.
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+ T.B.A.
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+
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+ == Copying
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+ isi-rb is distributed in the hope that
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+ it will be useful, but WITHOUT ANY WARRANTY.
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+ You can copy, modify and redistribute isi-rb,
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+ but only under the conditions described in
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+ the GNU General Public License (the "GPL").
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+
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+ == Thanks to contributer(s)!
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+ * Marcin Dulak
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+
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+ == Who is the author?
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+ NISHIMATSU Takeshi <t-nissie{at}imr.tohoku.ac.jp>
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+
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+ == Why did he write it?
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+ Because he do not like the output format of the Perl version.
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+
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+ == Is there a Perl version?
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+ Yes.
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+ You can find the Perl version by Jonathan Swinton, Ben Bolker, Anthony Stone, John J. Lee
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+ in CTAN http://www.ctan.org/tex-archive/biblio/bibtex/utils/isi2bibtex .
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+
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+ == I do not like the output format of isi-rb, neither!
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+ The output format is defined in the source code WYSIWYGly.
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+ So you can change by yourself easily.
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+
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+ == Meanings of tags in ISI Export Format:
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+ See http://isibasic.com/help/helpprn.html .
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+ === file-unique tags
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+ FN: File type. The file starts with 'FN ISI Export Format'
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+ VR: Version number of ISI export file format
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+ EF: End of file
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+ === normal tags
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+ AB: Abstract
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+ AF: Authors Full (AU Foo, BAR -> AF Foo, B. A. R.; AU Nishimatsu, T -> AF Nishimatsu Takeshi)
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+ AR: Article number of new APS journals
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+ AU: Authors
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+ BP: Beginning page
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+ C1: Research addresses
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+ CR: Cited references
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+ DE: Original keywords
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+ DI: DOI
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+ DT: Document type
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+ EP: Ending page
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+ ER: end of a record
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+ GA: ISI document delivery number
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+ ID: New keywords given by ISI
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+ IS: issue
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+ J9: 29-character journal title abbreviation
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+ JI: ISO journal title abbreviation
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+ LA: Language
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+ NR: Cited reference count
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+ PD: Publication date e.g. "JUN 8" or "JUL"
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+ PG: the number of pages
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+ PI: Publisher city
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+ PN: Part number
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+ PT: Publication type (e.g., book, journal, book in series)
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+ PU: Publisher
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+ PY: Publication year
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+ RP: Reprint address
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+ SE: Book series title
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+ SI: Special issue
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+ SN: ISSN
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+ SO: journal title, in full
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+ SU: Supplement
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+ TC: Times cited
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+ TI: Title
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+ UT: ISI unique article identifier
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+ VL: Volume
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+ WP: Publisher web address
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+ === isi-rb original tags
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+ UR: URL
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+
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+ == Known bugs
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+ * none.
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+
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+ == TODO
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+ * Write papers, not tools for writing papers.
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+ * tests/isi_test.rb
data/Rakefile ADDED
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+ #! /usr/bin/env rake
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+ # -*-Ruby-*-
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+ # Time-stamp: <2007-04-28 18:58:58 t-nissie>
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+ # Author: Takeshi Nishimatsu
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+ ##
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+ $LOAD_PATH.unshift('lib')
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+
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+ require 'rubygems'
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+ require 'rake/gempackagetask'
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+ require 'rake/testtask'
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+ require 'rake/rdoctask'
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+ require 'rake/contrib/rubyforgepublisher'
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+ require 'isi.rb'
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+ require 'archive/tar/minitar'
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+ require 'zlib'
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+
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+ spec = eval(File.read("isi-rb.gemspec"))
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+ spec.version = ISI_RB_VERSION
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+ RDOC_OPTS = %w(--title isi-rb --main README --line-numbers)
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+ spec.rdoc_options = RDOC_OPTS
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+
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+ desc "Build the RubyGem for isi-rb"
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+ task :gem => [ :test ]
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+ Rake::GemPackageTask.new(spec) do |g|
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+ g.need_tar = true
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+ g.need_zip = true
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+ g.package_dir = ".."
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+ end
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+
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+ task :default => [ :test ]
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+
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+ desc "Run the unit and functional tests"
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+ task :test
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+ Rake::TestTask.new do |t|
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+ t.test_files = FileList['tests/*.rb']
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+ t.verbose = true
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+ end
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+
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+ Rake::RDocTask.new do |rdoc|
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+ rdoc.rdoc_dir = 'html'
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+ rdoc.options = RDOC_OPTS
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+ if ENV['DOC_FILES']
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+ rdoc.rdoc_files.include(ENV['DOC_FILES'].split(/,\s*/))
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+ else
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+ rdoc.rdoc_files.include('README')
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+ rdoc.rdoc_files.include('lib/**/*.rb')
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+ end
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+ end
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+
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+ desc "Build Packages"
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+ task :package => [ :rdoc ]
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+
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+ desc "Publish to RubyForge"
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+ task :rubyforge => [ :package ] do
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+ Rake::RubyForgePublisher.new('isi-rb', 't-nissie').upload
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+ end
data/bin/isi2bibtex ADDED
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+ #!/usr/bin/env ruby
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+ # isi2bibtex -*-Ruby-*-
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+ # Time-stamp: <2007-04-27 16:40:51 t-nissie>
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+ # Author: Takeshi Nishimatsu
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+ ##
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+ require 'isi'
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+ while rec = ARGF.read_an_ISI_record
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+ print rec.to_bibtex
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+ end
data/html/classes/ARGF.html ADDED
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+ <?xml version="1.0" encoding="iso-8859-1"?>
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+ <!DOCTYPE html
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+ PUBLIC "-//W3C//DTD XHTML 1.0 Transitional//EN"
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+ "http://www.w3.org/TR/xhtml1/DTD/xhtml1-transitional.dtd">
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+
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+ <html xmlns="http://www.w3.org/1999/xhtml" xml:lang="en" lang="en">
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+ <head>
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+ <title>Module: ARGF</title>
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+ <meta http-equiv="Content-Type" content="text/html; charset=iso-8859-1" />
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+ <meta http-equiv="Content-Script-Type" content="text/javascript" />
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+ <link rel="stylesheet" href=".././rdoc-style.css" type="text/css" media="screen" />
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+ <script type="text/javascript">
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+ // <![CDATA[
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+
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+ function popupCode( url ) {
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+ window.open(url, "Code", "resizable=yes,scrollbars=yes,toolbar=no,status=no,height=150,width=400")
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+ }
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+
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+ function toggleCode( id ) {
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+ if ( document.getElementById )
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+ elem = document.getElementById( id );
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+ else if ( document.all )
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+ elem = eval( "document.all." + id );
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+ else
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+ return false;
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+
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+ elemStyle = elem.style;
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+
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+ if ( elemStyle.display != "block" ) {
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+ elemStyle.display = "block"
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+ } else {
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+ elemStyle.display = "none"
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+ }
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+
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+ return true;
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+ }
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+
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+ // Make codeblocks hidden by default
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+ document.writeln( "<style type=\"text/css\">div.method-source-code { display: none }</style>" )
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+
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+ // ]]>
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+ </script>
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+
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+ </head>
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+ <body>
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+
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+
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+
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+ <div id="classHeader">
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+ <table class="header-table">
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+ <tr class="top-aligned-row">
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+ <td><strong>Module</strong></td>
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+ <td class="class-name-in-header">ARGF</td>
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+ </tr>
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+ <tr class="top-aligned-row">
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+ <td><strong>In:</strong></td>
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+ <td>
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+ </td>
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+ </tr>
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+
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+ </table>
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+ </div>
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+ <!-- banner header -->
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+
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+ <div id="bodyContent">
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+
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+
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+
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+ <div id="contextContent">
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+
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+
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+
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+ </div>
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+
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+ <div id="method-list">
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+ <h3 class="section-bar">Methods</h3>
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+
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+ <div class="name-list">
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+ <a href="#M000004">read_an_ISI_record</a>&nbsp;&nbsp;
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+ </div>
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+ </div>
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+
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+ </div>
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+
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+
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+ <!-- if includes -->
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+
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+ <div id="section">
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+
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+
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+
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+
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+
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+
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+
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+
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+ <!-- if method_list -->
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+ <div id="methods">
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+ <h3 class="section-bar">Public Class methods</h3>
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+
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+ <div id="method-M000004" class="method-detail">
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+ <a name="M000004"></a>
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+
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+ <div class="method-heading">
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+ <a href="ARGF.src/M000004.html" target="Code" class="method-signature"
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+ onclick="popupCode('ARGF.src/M000004.html');return false;">
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+ <span class="method-name">read_an_ISI_record</span><span class="method-args">()</span>
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+ </a>
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+ </div>
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+
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+ <div class="method-description">
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+ </div>
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+ </div>
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+
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+
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+ </div>
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+
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+
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+ </div>
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+
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+
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+ <div id="validator-badges">
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+ <p><small><a href="http://validator.w3.org/check/referer">[Validate]</a></small></p>
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+ </div>
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+
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+ </body>
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+ </html>
data/html/classes/ARGF.src/M000004.html ADDED
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+ <?xml version="1.0" encoding="iso-8859-1"?>
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+ <!DOCTYPE html
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+ PUBLIC "-//W3C//DTD XHTML 1.0 Transitional//EN"
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+ "http://www.w3.org/TR/xhtml1/DTD/xhtml1-transitional.dtd">
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+
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+ <html>
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+ <head>
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+ <title>read_an_ISI_record (ARGF)</title>
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+ <meta http-equiv="Content-Type" content="text/html; charset=iso-8859-1" />
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+ <link rel="stylesheet" href="../.././rdoc-style.css" type="text/css" media="screen" />
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+ </head>
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+ <body class="standalone-code">
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+ <pre> <span class="ruby-comment cmt"># File lib/isi.rb, line 157</span>
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+ 157: <span class="ruby-keyword kw">def</span> <span class="ruby-constant">ARGF</span>.<span class="ruby-identifier">read_an_ISI_record</span>
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+ 158: <span class="ruby-comment cmt"># singleton method (instance method associated only with ARGF)</span>
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+ 159: <span class="ruby-identifier">hash</span> = {}
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+ 160: <span class="ruby-keyword kw">while</span> <span class="ruby-identifier">line</span> = <span class="ruby-identifier">gets</span>
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+ 161: <span class="ruby-comment cmt">#===== a few special cases</span>
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+ 162: <span class="ruby-keyword kw">return</span> <span class="ruby-constant">ISI_record</span>.<span class="ruby-identifier">new</span>(<span class="ruby-identifier">hash</span>) <span class="ruby-keyword kw">if</span> <span class="ruby-identifier">line</span> <span class="ruby-operator">=~</span> <span class="ruby-regexp re">/^ER/</span>
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+ 163: <span class="ruby-keyword kw">next</span> <span class="ruby-keyword kw">if</span> <span class="ruby-identifier">line</span> <span class="ruby-operator">=~</span> <span class="ruby-regexp re">/^(EF|FN|VR)/</span> <span class="ruby-comment cmt"># ignore file-unique tags</span>
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+ 164: <span class="ruby-keyword kw">next</span> <span class="ruby-keyword kw">if</span> <span class="ruby-identifier">line</span> <span class="ruby-operator">=~</span> <span class="ruby-regexp re">/^\s*$/</span> <span class="ruby-comment cmt"># ignore blank lines</span>
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+ 165: <span class="ruby-keyword kw">while</span> <span class="ruby-identifier">line</span> <span class="ruby-operator">=~</span> <span class="ruby-regexp re">/\!$/</span>
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+ 166: <span class="ruby-identifier">line</span>.<span class="ruby-identifier">chomp!</span>.<span class="ruby-identifier">chop!</span> <span class="ruby-comment cmt"># continued to next line if the line ends with &quot;!&quot;</span>
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+ 167: <span class="ruby-identifier">line</span> <span class="ruby-operator">&lt;&lt;</span> <span class="ruby-identifier">gets</span>
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+ 168: <span class="ruby-keyword kw">end</span>
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+ 169: <span class="ruby-comment cmt">#===== Normal tags</span>
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+ 170: <span class="ruby-keyword kw">case</span> <span class="ruby-identifier">line</span>
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+ 171: <span class="ruby-keyword kw">when</span> <span class="ruby-regexp re">/^(AU|AF) /</span>
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+ 172: <span class="ruby-identifier">tag</span> = <span class="ruby-identifier">$1</span>
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+ 173: <span class="ruby-identifier">authors</span> = [<span class="ruby-identifier">line</span>.<span class="ruby-identifier">chomp</span>.<span class="ruby-identifier">sub</span>(<span class="ruby-regexp re">/^(AU|AF) /</span>,<span class="ruby-value str">''</span>)]
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+ 174: <span class="ruby-keyword kw">while</span> (<span class="ruby-identifier">line</span> = <span class="ruby-identifier">gets</span>) <span class="ruby-operator">=~</span> <span class="ruby-regexp re">/^ /</span>
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+ 175: <span class="ruby-identifier">authors</span>.<span class="ruby-identifier">push</span>(<span class="ruby-identifier">line</span>.<span class="ruby-identifier">chomp</span>.<span class="ruby-identifier">sub</span>(<span class="ruby-regexp re">/^ /</span>,<span class="ruby-value str">''</span>))
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+ 176: <span class="ruby-keyword kw">end</span>
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+ 177: <span class="ruby-identifier">hash</span>[<span class="ruby-identifier">tag</span>] = <span class="ruby-identifier">authors</span>
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+ 178: <span class="ruby-keyword kw">redo</span>
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+ 179: <span class="ruby-keyword kw">when</span> <span class="ruby-regexp re">/^(NR|PG|PY|TC) (.*)$/</span>
37
+ 180: <span class="ruby-identifier">hash</span>[<span class="ruby-identifier">$1</span>] = <span class="ruby-identifier">$2</span>.<span class="ruby-identifier">to_i</span>
38
+ 181: <span class="ruby-keyword kw">when</span> <span class="ruby-regexp re">/^(TI|AB|DE|ID|SO|PT|JI|BP|EP|AR|PD|VL|IS|GA|PI|PU|PN|PA|J9|UT|DT|C1|RP|SI|SE|SN|SU|LA|DI) (.*)$/</span>
39
+ 182: <span class="ruby-identifier">tag</span> = <span class="ruby-identifier">$1</span>
40
+ 183: <span class="ruby-identifier">str</span> = <span class="ruby-identifier">$2</span>
41
+ 184: <span class="ruby-keyword kw">while</span> (<span class="ruby-identifier">line</span> = <span class="ruby-identifier">gets</span>) <span class="ruby-operator">=~</span> <span class="ruby-regexp re">/^ /</span>
42
+ 185: <span class="ruby-identifier">str</span> <span class="ruby-operator">&lt;&lt;</span> <span class="ruby-identifier">line</span>.<span class="ruby-identifier">chomp</span>.<span class="ruby-identifier">sub</span>(<span class="ruby-regexp re">/^ /</span>,<span class="ruby-value str">''</span>)
43
+ 186: <span class="ruby-keyword kw">end</span>
44
+ 187: <span class="ruby-identifier">hash</span>[<span class="ruby-identifier">tag</span>] = <span class="ruby-identifier">str</span>
45
+ 188: <span class="ruby-keyword kw">redo</span>
46
+ 189: <span class="ruby-keyword kw">else</span>
47
+ 190: <span class="ruby-constant">STDERR</span> <span class="ruby-operator">&lt;&lt;</span> <span class="ruby-node">&quot;#{$FILENAME}:#{file.lineno}: Unknown tag: #{line}&quot;</span>
48
+ 191: <span class="ruby-keyword kw">end</span>
49
+ 192: <span class="ruby-keyword kw">end</span>
50
+ 193: <span class="ruby-keyword kw">return</span> <span class="ruby-keyword kw">nil</span>
51
+ 194: <span class="ruby-keyword kw">end</span></pre>
52
+ </body>
53
+ </html>