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132 řádky
4.8 KiB
132 řádky
4.8 KiB
;;; x2bib.el --- Bibliography conversion to Bibtex
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;;; Header:
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;;; Commentary:
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;; This module is more for my convenience to convert bibliography files to
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;; bibtex. This can be done at the command line, for example, but I want to do
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;; it in Emacs. There are a few scenarios where this happens.
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;; 1. Someone sends me a non-Bibtex file (Endnote, etc...)
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;; 2. From some online search I select many references and there is no export to
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;; Bibtex option, e.g. from Web of Science.
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;; This code is mostly wrappers around the command line utilities at
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;; http://sourceforge.net/p/bibutils/home/Bibutils.
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;; Here are the commands that are available.
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;; bib2xml - convert BibTeX to MODS XML intermediate
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;; biblatex2xml - convert BibLaTeX to MODS XML intermediate
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;; copac2xml - convert COPAC format references to MODS XML intermediate
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;; end2xml - convert EndNote (Refer format) to MODS XML intermediate
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;; endx2xml - convert EndNote XML to MODS XML intermediate
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;; isi2xml - convert ISI web of science to MODS XML intermediate
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;; med2xml - convert Pubmed XML references to MODS XML intermediate
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;; modsclean - a MODS to MODS converter for testing puposes mostly
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;; ris2xml - convert RIS format to MODS XML intermediate
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;; xml2ads - convert MODS XML intermediate into Smithsonian Astrophysical
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;; Observatory (SAO)/National Aeronautics and Space
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;; Administration (NASA) Astrophyics Data System or ADS
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;; reference format (converter submitted by Richard Mathar)
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;; xml2bib - convert MODS XML intermediate into BibTeX
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;; xml2end - convert MODS XML intermediate into format for EndNote
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;; xml2isi - convert MODS XML intermediate to ISI format
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;; xml2ris - convert MODS XML intermediate into RIS format
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;; xml2wordbib - convert MODS XML intermediate into Word 2007 bibliography format
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;;; Code:
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(require 'bibtex)
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(require 'org-ref-core)
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;;* RIS to bibtex
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;; RIS can be pretty easily exported from Endnote. Here is a function to read an
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;; RIS file and convert it to bibtex which is inserted at point. Note that there
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;; is often other output from the commands. We try to comment them out here, but
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;; you should probably inspect the entries, and do other bibtex file compliance
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;; checks.
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;;;###autoload
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(defun ris2bib (risfile &optional verbose)
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"Convert RISFILE to bibtex and insert at point.
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Without a prefix arg, stderr is diverted.
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If VERBOSE is non-nil show command output."
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(interactive
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(list (read-file-name "RIS file:")
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(prefix-numeric-value current-prefix-arg)))
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(let ((result (shell-command-to-string
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(concat
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(format
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"ris2xml %s | xml2bib -w"
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risfile)
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(unless verbose " 2> /dev/null")))))
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;; make some lines into comments.
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(setq result (replace-regexp-in-string
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"^xml2bib:"
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"% xml2bib:"
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result))
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(setq result (replace-regexp-in-string
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"^ris2xml:"
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"% ris2xml"
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result))
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(setq result (replace-regexp-in-string
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"^ Defaulting"
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"% Defaulting"
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result))
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(insert result)))
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;;* Pubmed XML to bibtex
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;; In http://www.ncbi.nlm.nih.gov/pubmed/ you can select entries, and then send
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;; them to a file. If you choose Pubmed XML as the format, then you can use this
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;; function to convert it to bibtex.
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;;;###autoload
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(defun medxml2bib (medfile &optional verbose)
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"Convert MEDFILE (in Pubmed xml) to bibtex and insert at point.
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Without a prefix arg, stderr is diverted.
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Display output if VERBOSE is non-nil."
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(interactive
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(list (read-file-name "MED file:")
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(prefix-numeric-value current-prefix-arg)))
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(let ((result (shell-command-to-string
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(concat
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(format
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"med2xml %s | xml2bib -w"
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medfile)
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(unless verbose " 2> /dev/null")))))
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;; make some lines into comments.
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(setq result (replace-regexp-in-string
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"^xml2bib:"
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"% xml2bib:"
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result))
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(setq result (replace-regexp-in-string
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"^med2xml:"
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"% med2xml"
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result))
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(setq result (replace-regexp-in-string
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"^ Defaulting"
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"% Defaulting"
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result))
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(insert result)))
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;;* Clean up all the entries
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;; Finally, after you put the new entries in, you probably need to do some clean
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;; up actions. This little function does that.
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;;;###autoload
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(defun clean-entries ()
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"Map over bibtex entries and clean them."
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(interactive)
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(bibtex-map-entries
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(lambda (a b c)
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(ignore-errors
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(org-ref-clean-bibtex-entry)))))
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(provide 'x2bib)
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;;; x2bib.el ends here
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