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<!DOCTYPE html PUBLIC "-//W3C//DTD XHTML 1.0 Transitional//EN" "http://www.w3.org/TR/xhtml1/DTD/xhtml1-transitional.dtd"><html xmlns="http://www.w3.org/1999/xhtml"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8" /><title>Chapter 14. Tools for reference and notes management</title><link rel="stylesheet" type="text/css" href="manual.css" /><meta name="generator" content="DocBook XSL Stylesheets V1.78.1" /><link rel="home" href="index.html" title="RefDB handbook" /><link rel="up" href="pt04.html" title="Part IV. Reference manual" /><link rel="prev" href="re10.html" title="refdb-bug" /><link rel="next" href="re11.html" title="refdbc" /></head><body><div class="navheader"><table width="100%" summary="Navigation header"><tr><th colspan="3" align="center">Chapter 14. Tools for reference and notes management</th></tr><tr><td width="20%" align="left"><a accesskey="p" href="re10.html">Prev</a> </td><th width="60%" align="center">Part IV. Reference manual</th><td width="20%" align="right"> <a accesskey="n" href="re11.html">Next</a></td></tr></table><hr /></div><div class="chapter"><div class="titlepage"><div><div><h2 class="title"><a id="chapter-refdbc"></a>Chapter 14. Tools for reference and notes management</h2></div></div></div><div class="toc"><p><strong>Table of Contents</strong></p><dl class="toc"><dt><span class="sect1"><a href="ch14.html#idp69978912">Tools</a></span></dt><dd><dl><dt><span class="refentry"><a href="re11.html">refdbc</a></span></dt><dd><dl><dt><span class="refsect1"><a href="re11.html#refdbc-description">Description</a></span></dt><dt><span class="refsect1"><a href="re11.html#refdbc-options">Options</a></span></dt><dt><span class="refsect1"><a href="re11.html#refdbc-diagnostics">Diagnostics</a></span></dt><dt><span class="refsect1"><a href="re11.html#refdbc-configuration">Configuration</a></span></dt><dt><span class="refsect1"><a href="re11.html#refdbc-commands">Commands</a></span></dt><dd><dl><dt><span class="refsect2"><a href="re11.html#app-c-command-addlink">addlink</a></span></dt><dt><span class="refsect2"><a href="re11.html#app-c-command-addnote">addnote</a></span></dt><dt><span class="refsect2"><a href="re11.html#app-c-command-addref">addref</a></span></dt><dt><span class="refsect2"><a href="re11.html#app-c-command-checkref">checkref</a></span></dt><dt><span class="refsect2"><a href="re11.html#app-c-command-deletelink">deletelink</a></span></dt><dt><span class="refsect2"><a href="re11.html#app-c-command-deletenote">deletenote</a></span></dt><dt><span class="refsect2"><a href="re11.html#app-c-command-deleteref">deleteref</a></span></dt><dt><span class="refsect2"><a href="re11.html#app-c-command-dumpref">dumpref</a></span></dt><dt><span class="refsect2"><a href="re11.html#app-c-command-getau">getau, geted, getas, getax</a></span></dt><dt><span class="refsect2"><a href="re11.html#app-c-command-getjo">getjo, getjf, getj1, getj2</a></span></dt><dt><span class="refsect2"><a href="re11.html#app-c-command-getkw">getkw</a></span></dt><dt><span class="refsect2"><a href="re11.html#app-c-command-getnote">getnote</a></span></dt><dt><span class="refsect2"><a href="re11.html#app-c-command-getref">getref</a></span></dt><dt><span class="refsect2"><a href="re11.html#app-c-command-help">help, ?</a></span></dt><dt><span class="refsect2"><a href="re11.html#app-c-command-listdb">listdb</a></span></dt><dt><span class="refsect2"><a href="re11.html#app-c-command-liststyle">liststyle</a></span></dt><dt><span class="refsect2"><a href="re11.html#app-c-command-pickref">pickref</a></span></dt><dt><span class="refsect2"><a href="re11.html#app-c-command-countnote">countnote</a></span></dt><dt><span class="refsect2"><a href="re11.html#app-c-command-countref">countref</a></span></dt><dt><span class="refsect2"><a href="re11.html#app-c-command-selectdb">selectdb</a></span></dt><dt><span class="refsect2"><a href="re11.html#app-c-command-set">set</a></span></dt><dt><span class="refsect2"><a href="re11.html#app-c-command-updatejo">updatejo</a></span></dt><dt><span class="refsect2"><a href="re11.html#app-c-command-updatenote">updatenote</a></span></dt><dt><span class="refsect2"><a href="re11.html#app-c-command-updateref">updateref</a></span></dt><dt><span class="refsect2"><a href="re11.html#app-c-command-verbose">verbose</a></span></dt><dt><span class="refsect2"><a href="re11.html#app-c-command-whichdb">whichdb</a></span></dt></dl></dd><dt><span class="refsect1"><a href="re11.html#refdbc-files">Files</a></span></dt><dt><span class="refsect1"><a href="re11.html#refdbc-see_also">See also</a></span></dt><dt><span class="refsect1"><a href="re11.html#refdbc-author">Author</a></span></dt></dl></dd><dt><span class="refentry"><a href="re12.html">bib2ris</a></span></dt><dd><dl><dt><span class="refsect1"><a href="re12.html#bib2ris-description">Description</a></span></dt><dt><span class="refsect1"><a href="re12.html#bib2ris-options">Options</a></span></dt><dt><span class="refsect1"><a href="re12.html#idp73860368">Diagnostics</a></span></dt><dt><span class="refsect1"><a href="re12.html#bib2ris-configuration">Configuration</a></span></dt><dt><span class="refsect1"><a href="re12.html#bib2ris-data-processing">Data Processing</a></span></dt><dt><span class="refsect1"><a href="re12.html#bib2ris-files">Files</a></span></dt><dt><span class="refsect1"><a href="re12.html#bib2ris-see_also2">See also</a></span></dt><dt><span class="refsect1"><a href="re12.html#bib2ris-author2">Author</a></span></dt></dl></dd><dt><span class="refentry"><a href="re13.html">db2ris</a></span></dt><dd><dl><dt><span class="refsect1"><a href="re13.html#db2ris-description">Description</a></span></dt><dt><span class="refsect1"><a href="re13.html#db2ris-options">Options</a></span></dt><dt><span class="refsect1"><a href="re13.html#db2ris-configuration">Configuration</a></span></dt><dt><span class="refsect1"><a href="re13.html#db2ris-data-processing">Data Processing</a></span></dt><dt><span class="refsect1"><a href="re13.html#db2ris-modifying">Modifying db2ris</a></span></dt><dt><span class="refsect1"><a href="re13.html#db2ris-files">Files</a></span></dt><dt><span class="refsect1"><a href="re13.html#db2ris-see_also">See also</a></span></dt><dt><span class="refsect1"><a href="re13.html#db2ris-author">Author</a></span></dt></dl></dd><dt><span class="refentry"><a href="re14.html">en2ris</a></span></dt><dd><dl><dt><span class="refsect1"><a href="re14.html#en2ris-description">Description</a></span></dt><dt><span class="refsect1"><a href="re14.html#en2ris-options">Options</a></span></dt><dt><span class="refsect1"><a href="re14.html#en2ris-configuration">Configuration</a></span></dt><dt><span class="refsect1"><a href="re14.html#en2ris-data-processing">Data Processing</a></span></dt><dt><span class="refsect1"><a href="re14.html#en2ris-files">Files</a></span></dt><dt><span class="refsect1"><a href="re14.html#en2ris-see_also">See also</a></span></dt><dt><span class="refsect1"><a href="re14.html#en2ris-author">Author</a></span></dt></dl></dd><dt><span class="refentry"><a href="re15.html">marc2ris</a></span></dt><dd><dl><dt><span class="refsect1"><a href="re15.html#marc2ris-description">Description</a></span></dt><dt><span class="refsect1"><a href="re15.html#marc2ris-options">Options</a></span></dt><dt><span class="refsect1"><a href="re15.html#marc2ris-configuration">Configuration</a></span></dt><dt><span class="refsect1"><a href="re15.html#marc2ris-data-processing">Data Processing</a></span></dt><dt><span class="refsect1"><a href="re15.html#marc2ris-files">Files</a></span></dt><dt><span class="refsect1"><a href="re15.html#marc2ris-see_also">See also</a></span></dt><dt><span class="refsect1"><a href="re15.html#marc2ris-author">Author</a></span></dt></dl></dd><dt><span class="refentry"><a href="re16.html">med2ris</a></span></dt><dd><dl><dt><span class="refsect1"><a href="re16.html#med2ris-description">Description</a></span></dt><dt><span class="refsect1"><a href="re16.html#med2ris-options">Options</a></span></dt><dt><span class="refsect1"><a href="re16.html#med2ris-configuration">Configuration</a></span></dt><dt><span class="refsect1"><a href="re16.html#med2ris-data-processing">Data Processing</a></span></dt><dt><span class="refsect1"><a href="re16.html#med2ris-files">Files</a></span></dt><dt><span class="refsect1"><a href="re16.html#med2ris-see_also">See also</a></span></dt><dt><span class="refsect1"><a href="re16.html#med2ris-author">Author</a></span></dt></dl></dd><dt><span class="refentry"><a href="re17.html">refdb-pubmed</a></span></dt><dd><dl><dt><span class="refsect1"><a href="re17.html#refdb-pubmed-description">Description</a></span></dt><dt><span class="refsect1"><a href="re17.html#refdb-pubmed-options">Options</a></span></dt><dt><span class="refsect1"><a href="re17.html#refdb-pubmed-see_also">See also</a></span></dt><dt><span class="refsect1"><a href="re17.html#refdb-pubmed-author">Author</a></span></dt></dl></dd><dt><span class="refentry"><a href="re18.html">refdb_dos2unix</a></span></dt><dd><dl><dt><span class="refsect1"><a href="re18.html#dos2unix-description">Description</a></span></dt><dt><span class="refsect1"><a href="re18.html#dos2unix-see_also">See also</a></span></dt><dt><span class="refsect1"><a href="re18.html#dos2unix-author">Author</a></span></dt></dl></dd><dt><span class="refentry"><a href="re19.html">refdb_latex2utf8txt</a></span></dt><dd><dl><dt><span class="refsect1"><a href="re19.html#latex2utf8txt-description">Description</a></span></dt><dt><span class="refsect1"><a href="re19.html#idp74496576">Diagnostics</a></span></dt><dt><span class="refsect1"><a href="re19.html#latex2utf8txt-data-processing">Data Processing</a></span></dt><dt><span class="refsect1"><a href="re19.html#latex2utf8txt-see_also2">See also</a></span></dt><dt><span class="refsect1"><a href="re19.html#latex2utf8txt-author2">Author</a></span></dt></dl></dd></dl></dd><dt><span class="sect1"><a href="ch14s02.html">Reference data output formats</a></span></dt><dd><dl><dt><span class="sect2"><a href="ch14s02.html#idp74517008">scrn</a></span></dt><dt><span class="sect2"><a href="ch14s02.html#sect-getref-output-html">html</a></span></dt><dt><span class="sect2"><a href="ch14s02.html#idp74542160">xhtml</a></span></dt><dt><span class="sect2"><a href="ch14s02.html#idp74544336">ris</a></span></dt><dt><span class="sect2"><a href="ch14s02.html#idp74545776">risx</a></span></dt><dt><span class="sect2"><a href="ch14s02.html#idp74548624">mods</a></span></dt><dt><span class="sect2"><a href="ch14s02.html#idp74551312">bibtex</a></span></dt><dt><span class="sect2"><a href="ch14s02.html#idp74555504">db31</a></span></dt><dt><span class="sect2"><a href="ch14s02.html#idp74558864">db31x</a></span></dt><dt><span class="sect2"><a href="ch14s02.html#idp74560912">db50x</a></span></dt><dt><span class="sect2"><a href="ch14s02.html#idp74562864">teix</a></span></dt><dt><span class="sect2"><a href="ch14s02.html#idp74565520">tei5x</a></span></dt></dl></dd><dt><span class="sect1"><a href="ch14s03.html">Extended notes output formats</a></span></dt><dd><dl><dt><span class="sect2"><a href="ch14s03.html#idp74570752">scrn</a></span></dt><dt><span class="sect2"><a href="ch14s03.html#idp74573152">html</a></span></dt><dt><span class="sect2"><a href="ch14s03.html#idp74575456">xhtml</a></span></dt><dt><span class="sect2"><a href="ch14s03.html#idp74577664">xnote</a></span></dt></dl></dd><dt><span class="sect1"><a href="ch14s04.html">The query language</a></span></dt><dd><dl><dt><span class="sect2"><a href="ch14s04.html#sect-description-reference-query-language">The reference query language</a></span></dt><dt><span class="sect2"><a href="ch14s04.html#sect-description-notes-query-language">The notes query language</a></span></dt><dt><span class="sect2"><a href="ch14s04.html#sect2-query-examples">Some example queries</a></span></dt></dl></dd><dt><span class="sect1"><a href="ch14s05.html">Regular expressions</a></span></dt><dd><dl><dt><span class="sect2"><a href="ch14s05.html#sect2-regular-expressions-unix">Unix-style regular expressions</a></span></dt><dt><span class="sect2"><a href="ch14s05.html#sect2-regular-expressions-sql">SQL regular expressions</a></span></dt></dl></dd></dl></div><p>The following tasks can be performed with the tools described in this chapter:</p><div class="itemizedlist"><ul class="itemizedlist" style="list-style-type: disc; "><li class="listitem"><p>Manually add, update, and delete reference entries</p></li><li class="listitem"><p>Search for and display reference entries</p></li><li class="listitem"><p>Search for and display authors and keywords</p></li><li class="listitem"><p>Include existing references into personal reference list</p></li><li class="listitem"><p>Convert reference data from various formats to RIS</p></li></ul></div><p>We'll first introduce the command-line client <span class="command"><strong>refdbc</strong></span>, RefDB's own multi-purpose reference and notes management client, along with the reference data converters that you can use along with it. The following sections explain the input and output data formats as well as the query language used by RefDB.</p><div class="sect1"><div class="titlepage"><div><div><h2 class="title" style="clear: both"><a id="idp69978912"></a>Tools</h2></div></div></div><p>The first subsection explains the usage of the command-line client refdbc.</p><p>Whenever you have an electronic source for reference data, you should use these instead of typing datasets from scratch. Reference data come in a variety of formats. Therefore RefDB ships with a few conversion utilities which are discussed in this chapter. These utilities create tagged RIS data from the input data.</p><div class="note" style="margin-left: 0.5in; margin-right: 0.5in;"><h3 class="title">Note</h3><p>Please visit Chris Putnam's <a class="ulink" href="http://www.scripps.edu/~cdputnam/software/bibutils/" target="_top">Bibutils</a> project for another set of bibliographic data converters. These tools allow to convert a few additional formats like ISI and MODS to RIS which can then be imported by RefDB.</p></div><p>Since version 0.9.3, RefDB supports risx as an additional native input format. You can employ the standard techniques of SGML and XML transformations, i.e. by running DSSSL or XSLT scripts with a suitable engine, to turn bibliographic data encoded as SGML or XML documents into risx.</p><p>Remember that RefDB accepts only four character encodings for XML input data: UTF-8, UTF-16, ISO-8859-1, and US-ASCII. If your input data use a different character encoding, please use the command-line utility <span class="command"><strong>iconv</strong></span> (usually part of the libiconv package) to convert your data to one of the existing character encodings. Do not forget to specify the character encoding in the processing instructions of the input file, otherwise RefDB will assume the data are encoded as UTF-8.</p></div></div><div class="navfooter"><hr /><table width="100%" summary="Navigation footer"><tr><td width="40%" align="left"><a accesskey="p" href="re10.html">Prev</a> </td><td width="20%" align="center"><a accesskey="u" href="pt04.html">Up</a></td><td width="40%" align="right"> <a accesskey="n" href="re11.html">Next</a></td></tr><tr><td width="40%" align="left" valign="top">refdb-bug </td><td width="20%" align="center"><a accesskey="h" href="index.html">Home</a></td><td width="40%" align="right" valign="top"> refdbc</td></tr></table></div></body></html>
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