/usr/local/bin/diffoscope --jquery http://code.jquery.com/jquery-2.2.4.min.js --html-dir /tank/diffoscope/refdb-0.9.9_7 /usr/local/poudriere/data/packages/e24a8cae34360705d022f17584bb6b4507b8eb89-build1/All/refdb-0.9.9_7.txz /usr/local/poudriere/data/packages/e24a8cae34360705d022f17584bb6b4507b8eb89-build2/All/refdb-0.9.9

/usr/local/poudriere/data/packages/e24a8cae34360705d022f17584bb6b4507b8eb89-build1/All/refdb-0.9.9_7.txz vs.

/usr/local/poudriere/data/packages/e24a8cae34360705d022f17584bb6b4507b8eb89-build2/All/refdb-0.9.9_7.txz ¶

refdb-0.9.9_7.txz-content ¶

+MANIFEST ¶

/usr/local/share/refdb/sql/empty.2.dump.sqlite3 ¶

/usr/local/share/refdb/sql/refdb.2.dump.sqlite ¶

/usr/local/share/refdb/sql/refdb.3.dump.sqlite ¶

/usr/local/share/doc/refdb/ch03.html ¶

/usr/local/share/doc/refdb/ch03s02.html ¶

/usr/local/share/doc/refdb/ch04.html ¶

/usr/local/share/doc/refdb/ch04s03.html ¶

/usr/local/share/doc/refdb/ch04s04.html ¶

/usr/local/share/doc/refdb/ch04s05.html ¶

/usr/local/share/doc/refdb/ch04s06.html ¶

/usr/local/share/doc/refdb/ch04s07.html ¶

/usr/local/share/doc/refdb/ch04s08.html ¶

/usr/local/share/doc/refdb/ch05.html ¶

/usr/local/share/doc/refdb/ch05s03.html ¶

/usr/local/share/doc/refdb/ch05s04.html ¶

/usr/local/share/doc/refdb/ch05s06.html ¶

/usr/local/share/doc/refdb/ch05s07.html ¶

/usr/local/share/doc/refdb/ch05s08.html ¶

/usr/local/share/doc/refdb/ch05s09.html ¶

/usr/local/share/doc/refdb/ch06.html ¶

/usr/local/share/doc/refdb/ch06s02.html ¶

/usr/local/share/doc/refdb/ch06s03.html ¶

/usr/local/share/doc/refdb/ch06s04.html ¶

/usr/local/share/doc/refdb/ch07.html ¶

/usr/local/share/doc/refdb/ch07s02.html ¶

/usr/local/share/doc/refdb/ch07s03.html ¶

/usr/local/share/doc/refdb/ch08.html ¶

/usr/local/share/doc/refdb/ch08s02.html ¶

/usr/local/share/doc/refdb/ch08s03.html ¶

/usr/local/share/doc/refdb/ch08s08.html ¶

/usr/local/share/doc/refdb/ch08s09.html ¶

/usr/local/share/doc/refdb/ch09.html ¶

/usr/local/share/doc/refdb/ch09s03.html ¶

/usr/local/share/doc/refdb/ch09s05.html ¶

/usr/local/share/doc/refdb/ch09s06.html ¶

/usr/local/share/doc/refdb/ch10s03.html ¶

/usr/local/share/doc/refdb/ch11s02.html ¶

/usr/local/share/doc/refdb/ch14.html ¶

/usr/local/share/doc/refdb/ch14s02.html ¶

/usr/local/share/doc/refdb/ch14s03.html ¶

/usr/local/share/doc/refdb/ch17.html ¶

/usr/local/share/doc/refdb/ch18.html ¶

/usr/local/share/doc/refdb/ch18s02.html ¶

/usr/local/share/doc/refdb/ch19.html ¶

/usr/local/share/doc/refdb/ch19s02.html ¶

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1	{"name":"refdb","origin":"textproc/refdb","version":"0.9.9_7","comment":"Bibliographic·reference·database","maintainer":"ohartman@zedat.fu-berlin.de","www":"http://refdb.sourceforge.net/","abi":"FreeBSD:11:amd64","arch":"freebsd:11:x86:64","prefix":"/usr/local","flatsize":7434387,"licenselogic":"single","desc":"RefDB·is·a·client-server·database·system·for·storing,·retrieving·and\nformatting·bibliographic·references.\n\nWWW:·http://refdb.sourceforge.net/","deps":{"expat":{"origin":"textproc/expat2","version":"2.1.0_3"},"btparse":{"origin":"textproc/btparse","version":"0.35_1"},"postgresql93-client":{"origin":"databases/postgresql93-client","version":"9.3.13"},"readline":{"origin":"devel/readline","version":"6.3.8"},"libdbi":{"origin":"databases/libdbi","version":"0.9.0_3"},"perl5":{"origin":"lang/perl5.20","version":"5.20.3_13"}},"categories":["textproc"],"shlibs_required":["libbtparse.so.0","libexpat.so.1","libreadline.so.6","libdbi.so.1"],"options":{"DOCS":"on","MYSQL":"off","PGSQL":"on","SQLITE":"off"},"fil·✂	1	{"name":"refdb","origin":"textproc/refdb","version":"0.9.9_7","comment":"Bibliographic·reference·database","maintainer":"ohartman@zedat.fu-berlin.de","www":"http://refdb.sourceforge.net/","abi":"FreeBSD:11:amd64","arch":"freebsd:11:x86:64","prefix":"/usr/local","flatsize":7434387,"licenselogic":"single","desc":"RefDB·is·a·client-server·database·system·for·storing,·retrieving·and\nformatting·bibliographic·references.\n\nWWW:·http://refdb.sourceforge.net/","deps":{"expat":{"origin":"textproc/expat2","version":"2.1.0_3"},"btparse":{"origin":"textproc/btparse","version":"0.35_1"},"postgresql93-client":{"origin":"databases/postgresql93-client","version":"9.3.13"},"readline":{"origin":"devel/readline","version":"6.3.8"},"libdbi":{"origin":"databases/libdbi","version":"0.9.0_3"},"perl5":{"origin":"lang/perl5.20","version":"5.20.3_13"}},"categories":["textproc"],"shlibs_required":["libbtparse.so.0","libexpat.so.1","libreadline.so.6","libdbi.so.1"],"options":{"DOCS":"on","MYSQL":"off","PGSQL":"on","SQLITE":"off"},"fil·✂

Offset 1, 10 lines modified		Offset 1, 10 lines modified
1	BEGIN·TRANSACTION;	1	BEGIN·TRANSACTION;
2	CREATE·TABLE·t_meta·(meta_app·VARCHAR(20),meta_type·VARCHAR(20),meta_version·VARCHAR(20),meta_dbversion·SMALLINT,meta_create_date·DATETIME,meta_modify_date·DATETIME);	2	CREATE·TABLE·t_meta·(meta_app·VARCHAR(20),meta_type·VARCHAR(20),meta_version·VARCHAR(20),meta_dbversion·SMALLINT,meta_create_date·DATETIME,meta_modify_date·DATETIME);
3	INSERT·INTO·"t_meta"·VALUES('refdb',·'risx',·'0.9.9-1',·2,·'2016-06-10·07:58:33',·'2016-06-10·07:58:33');	3	INSERT·INTO·"t_meta"·VALUES('refdb',·'risx',·'0.9.9-1',·2,·'2016-06-11·19:38:04',·'2016-06-11·19:38:04');
4	CREATE·TABLE·t_refdb·(refdb_id·INTEGER·PRIMARY·KEY,refdb_citekey·TEXT·UNIQUE,refdb_type·TEXT,refdb_pubyear·SMALLINT,refdb_secyear·SMALLINT,refdb_startpage·TEXT,refdb_endpage·TEXT,refdb_abstract·TEXT,refdb_title·TEXT,refdb_volume·TEXT,refdb_issue·TEXT,refdb_booktitle·TEXT,refdb_city·TEXT,refdb_publisher·TEXT,refdb_title_series·TEXT,refdb_address·TEXT,refdb_issn·TEXT,refdb_pyother_info·TEXT,refdb_secother_info·TEXT,refdb_periodical_id·BIGINT,refdb_user1·TEXT,refdb_user2·TEXT,refdb_user3·TEXT,refdb_user4·TEXT,refdb_user5·TEXT,refdb_misc1·TEXT,refdb_misc2·TEXT,refdb_misc3·TEXT);	4	CREATE·TABLE·t_refdb·(refdb_id·INTEGER·PRIMARY·KEY,refdb_citekey·TEXT·UNIQUE,refdb_type·TEXT,refdb_pubyear·SMALLINT,refdb_secyear·SMALLINT,refdb_startpage·TEXT,refdb_endpage·TEXT,refdb_abstract·TEXT,refdb_title·TEXT,refdb_volume·TEXT,refdb_issue·TEXT,refdb_booktitle·TEXT,refdb_city·TEXT,refdb_publisher·TEXT,refdb_title_series·TEXT,refdb_address·TEXT,refdb_issn·TEXT,refdb_pyother_info·TEXT,refdb_secother_info·TEXT,refdb_periodical_id·BIGINT,refdb_user1·TEXT,refdb_user2·TEXT,refdb_user3·TEXT,refdb_user4·TEXT,refdb_user5·TEXT,refdb_misc1·TEXT,refdb_misc2·TEXT,refdb_misc3·TEXT);
5	CREATE·TABLE·t_author·(author_id·INTEGER·PRIMARY·KEY,author_name·TEXT·NOT·NULL,author_lastname·TEXT,author_firstname·TEXT,author_middlename·TEXT,author_suffix·TEXT);	5	CREATE·TABLE·t_author·(author_id·INTEGER·PRIMARY·KEY,author_name·TEXT·NOT·NULL,author_lastname·TEXT,author_firstname·TEXT,author_middlename·TEXT,author_suffix·TEXT);
6	CREATE·TABLE·t_keyword·(keyword_id·INTEGER·PRIMARY·KEY,keyword_name·TEXT·NOT·NULL);	6	CREATE·TABLE·t_keyword·(keyword_id·INTEGER·PRIMARY·KEY,keyword_name·TEXT·NOT·NULL);
7	CREATE·TABLE·t_periodical·(periodical_id·INTEGER·PRIMARY·KEY,periodical_name·TEXT,periodical_abbrev·TEXT,periodical_custabbrev1·TEXT,periodical_custabbrev2·TEXT);	7	CREATE·TABLE·t_periodical·(periodical_id·INTEGER·PRIMARY·KEY,periodical_name·TEXT,periodical_abbrev·TEXT,periodical_custabbrev1·TEXT,periodical_custabbrev2·TEXT);
8	CREATE·TABLE·t_note·(note_id·INTEGER·PRIMARY·KEY,note_key·TEXT·UNIQUE,note_title·TEXT,note_content_type·TEXT,note_content_xmllang·TEXT,note_user_id·BIGINT,note_date·DATE,note_share·SMALLINT,note_content·TEXT);	8	CREATE·TABLE·t_note·(note_id·INTEGER·PRIMARY·KEY,note_key·TEXT·UNIQUE,note_title·TEXT,note_content_type·TEXT,note_content_xmllang·TEXT,note_user_id·BIGINT,note_date·DATE,note_share·SMALLINT,note_content·TEXT);
9	CREATE·TABLE·t_user·(user_id·INTEGER·PRIMARY·KEY,user_name·TEXT·NOT·NULL);	9	CREATE·TABLE·t_user·(user_id·INTEGER·PRIMARY·KEY,user_name·TEXT·NOT·NULL);
10	CREATE·TABLE·t_link·(link_id·INTEGER·PRIMARY·KEY,link_url·TEXT·NOT·NULL);	10	CREATE·TABLE·t_link·(link_id·INTEGER·PRIMARY·KEY,link_url·TEXT·NOT·NULL);

Offset 341, 15 lines modified		Offset 341, 15 lines modified
341	··meta_type·TEXT,	341	··meta_type·TEXT,
342	··meta_version·TEXT,	342	··meta_version·TEXT,
343	··meta_dbversion·SMALLINT,	343	··meta_dbversion·SMALLINT,
344	··meta_create_date·DATETIME,	344	··meta_create_date·DATETIME,
345	··meta_modify_date·DATETIME	345	··meta_modify_date·DATETIME
346	);	346	);

347	INSERT·INTO·t_meta·VALUES·('refdb','refdb','0.9.9-1',2,'2016-06-10·07:58:32','2016-06-10·07:58:32');	347	INSERT·INTO·t_meta·VALUES·('refdb','refdb','0.9.9-1',2,'2016-06-11·19:38:04','2016-06-11·19:38:04');

348	CREATE·TABLE·t_journal_words·(	348	CREATE·TABLE·t_journal_words·(
349	··name·TEXT·DEFAULT·''·NOT·NULL,	349	··name·TEXT·DEFAULT·''·NOT·NULL,
350	··PRIMARY·KEY·(name)	350	··PRIMARY·KEY·(name)
351	);	351	);

Offset 424, 15 lines modified		Offset 424, 15 lines modified
424	··meta_type·TEXT,	424	··meta_type·TEXT,
425	··meta_version·TEXT,	425	··meta_version·TEXT,
426	··meta_dbversion·SMALLINT,	426	··meta_dbversion·SMALLINT,
427	··meta_create_date·DATETIME,	427	··meta_create_date·DATETIME,
428	··meta_modify_date·DATETIME	428	··meta_modify_date·DATETIME
429	);	429	);

430	INSERT·INTO·t_meta·VALUES·('refdb','refdb','0.9.9-1',3,'2016-06-10·07:58:32','2016-06-10·07:58:32');	430	INSERT·INTO·t_meta·VALUES·('refdb','refdb','0.9.9-1',3,'2016-06-11·19:38:04','2016-06-11·19:38:04');

431	CREATE·TABLE·t_journal_words·(	431	CREATE·TABLE·t_journal_words·(
432	··name·TEXT·DEFAULT·''·NOT·NULL,	432	··name·TEXT·DEFAULT·''·NOT·NULL,
433	··PRIMARY·KEY·(name)	433	··PRIMARY·KEY·(name)
434	);	434	);

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1	<?xml·version="1.0"·encoding="UTF-8"·standalone="no"?>	1	<?xml·version="1.0"·encoding="UTF-8"·standalone="no"?>
2	<!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 3. Current·limitations·and·platform·issues</title><link·rel="stylesheet"·type="text/css"·href="manual.css"·/><meta·name="generator"·content="DocBook·XSL·Stylesheets·V1.76.1"·/><link·rel="home"·href="index.html"·title="RefDB·handbook"·/><link·rel="up"·href="pt01.html"·title="Part I. Overview"·/><link·rel="prev"·href="ch02s05.html"·title="Related·Software"·/><link·rel="next"·href="ch03s02.html"·title="Platform·issues"·/></head><body><div·class="navheader"><table·width="100%"·summary="Navigation·header"><tr><th·colspan="3"·align="center">Chapter 3. Current·limitations·and·platform·issues</th></tr><tr><td·width="20%"·align="left"><a·accesskey="p"·href="ch02s05.html">Prev</a> </td><th·width="60%"·align="center">Part I. Overview</th><td·width="20%"·align="right"> <a·✂	2	<!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 3. Current·limitations·and·platform·issues</title><link·rel="stylesheet"·type="text/css"·href="manual.css"·/><meta·name="generator"·content="DocBook·XSL·Stylesheets·V1.76.1"·/><link·rel="home"·href="index.html"·title="RefDB·handbook"·/><link·rel="up"·href="pt01.html"·title="Part I. Overview"·/><link·rel="prev"·href="ch02s05.html"·title="Related·Software"·/><link·rel="next"·href="ch03s02.html"·title="Platform·issues"·/></head><body><div·class="navheader"><table·width="100%"·summary="Navigation·header"><tr><th·colspan="3"·align="center">Chapter 3. Current·limitations·and·platform·issues</th></tr><tr><td·width="20%"·align="left"><a·accesskey="p"·href="ch02s05.html">Prev</a> </td><th·width="60%"·align="center">Part I. Overview</th><td·width="20%"·align="right"> <a·✂

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1	<?xml·version="1.0"·encoding="UTF-8"·standalone="no"?>	1	<?xml·version="1.0"·encoding="UTF-8"·standalone="no"?>
2	<!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>Things·to·know·before·you·start</title><link·rel="stylesheet"·type="text/css"·href="manual.css"·/><meta·name="generator"·content="DocBook·XSL·Stylesheets·V1.76.1"·/><link·rel="home"·href="index.html"·title="RefDB·handbook"·/><link·rel="up"·href="ch04.html"·title="Chapter 4. Installation"·/><link·rel="prev"·href="ch04s02.html"·title="Upgrading·from·an·older·version"·/><link·rel="next"·href="ch04s04.html"·title="Installation·on·Linux·and·other·Unix·variants"·/></head><body><div·class="navheader"><table·width="100%"·summary="Navigation·header"><tr><th·colspan="3"·align="center">Things·to·know·before·you·start</th></tr><tr><td·width="20%"·align="left"><a·accesskey="p"·href="ch04s02.html">Prev</a> </td><th·width="60%"·align="center">Chapter 4. Installation</th><td·width="2·✂	2	<!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>Things·to·know·before·you·start</title><link·rel="stylesheet"·type="text/css"·href="manual.css"·/><meta·name="generator"·content="DocBook·XSL·Stylesheets·V1.76.1"·/><link·rel="home"·href="index.html"·title="RefDB·handbook"·/><link·rel="up"·href="ch04.html"·title="Chapter 4. Installation"·/><link·rel="prev"·href="ch04s02.html"·title="Upgrading·from·an·older·version"·/><link·rel="next"·href="ch04s04.html"·title="Installation·on·Linux·and·other·Unix·variants"·/></head><body><div·class="navheader"><table·width="100%"·summary="Navigation·header"><tr><th·colspan="3"·align="center">Things·to·know·before·you·start</th></tr><tr><td·width="20%"·align="left"><a·accesskey="p"·href="ch04s02.html">Prev</a> </td><th·width="60%"·align="center">Chapter 4. Installation</th><td·width="2·✂
3	serverip» 127.0.0.1	3	serverip» 127.0.0.1
4	port» 9734	4	port» 9734
5	pager» more	5	pager» more
6	timeout»180	6	timeout»180
7	#·end·of·refdbcrc	7	#·end·of·refdbcrc
8	» </pre><p>This·is·the·corresponding·copy·that·one·of·the·users·of·the·system·created·as·<code·class="filename">/home/joe/.refdbcrc</code>:</p><pre·class="programlisting">#·This·is·the·user·configuration·file·for·refdbc	8	» </pre><p>This·is·the·corresponding·copy·that·one·of·the·users·of·the·system·created·as·<code·class="filename">/home/joe/.refdbcrc</code>:</p><pre·class="programlisting">#·This·is·the·user·configuration·file·for·refdbc
9	pager» less	9	pager» less
10	username» joesixpack	10	username» joesixpack
11	passwd··*·	11	passwd··*·
12	timeout»30	12	timeout»30
13	#·end·of·.refdbcrc	13	#·end·of·.refdbcrc
14	» </pre><p>As·you·can·see·our·hypothetical·system·administrator·configured·the·IP·address·(<code·class="varname">serverip</code>)·and·the·<code·class="varname">port</code>·where·refdbd·listens·to·the·client·requests.·This·value·is·most·likely·the·same·for·all·users·on·the·system,·so·this·is·nothing·to·worry·about·for·the·users.·<code·class="filename">more</code>·is·defined·as·the·default·<code·class="varname">pager</code>,·and·the·<code·class="varname">timeout</code>·is·set·to·3 minutes.</p><p>Joe·Sixpack,·our·reckless·user,·does·not·like·<code·class="filename">more</code>·as·a·pager·and·prefers·to·use·<code·class="filename">less</code>·instead.·He·also·thinks·that·half·a·minute·as·a·timeout·should·be·enough.·Both·of·these·settings·override·the·corresponding·values·in·the·global·file.·<code·class="varname">serverip</code>·and·<code·class="varname">port</code>·are·not·redefined·in·the·user's·copy,·so·the·values·of·the·global·file·take·effect.·Joe·also·defined·<code·class="varname">username</code>·(which·happens·✂	14	» </pre><p>As·you·can·see·our·hypothetical·system·administrator·configured·the·IP·address·(<code·class="varname">serverip</code>)·and·the·<code·class="varname">port</code>·where·refdbd·listens·to·the·client·requests.·This·value·is·most·likely·the·same·for·all·users·on·the·system,·so·this·is·nothing·to·worry·about·for·the·users.·<code·class="filename">more</code>·is·defined·as·the·default·<code·class="varname">pager</code>,·and·the·<code·class="varname">timeout</code>·is·set·to·3 minutes.</p><p>Joe·Sixpack,·our·reckless·user,·does·not·like·<code·class="filename">more</code>·as·a·pager·and·prefers·to·use·<code·class="filename">less</code>·instead.·He·also·thinks·that·half·a·minute·as·a·timeout·should·be·enough.·Both·of·these·settings·override·the·corresponding·values·in·the·global·file.·<code·class="varname">serverip</code>·and·<code·class="varname">port</code>·are·not·redefined·in·the·user's·copy,·so·the·values·of·the·global·file·take·effect.·Joe·also·defined·<code·class="varname">username</code>·(which·happens·✂
15	» ····<code·class="filename">/usr/local/bin</code>	15	» ····<code·class="filename">/usr/local/bin</code>
16	» ··</span></dt><dd><p>This·directory·will·receive·all·binary·files·and·shell·scripts.</p></dd><dt><span·class="term">	16	» ··</span></dt><dd><p>This·directory·will·receive·all·binary·files·and·shell·scripts.</p></dd><dt><span·class="term">
17	» ····<code·class="filename">/usr/local/etc/refdb</code>	17	» ····<code·class="filename">/usr/local/etc/refdb</code>
18	» ··</span></dt><dd><p>All·global·RefDB·configuration·files·end·up·in·this·directory.</p></dd><dt><span·class="term">	18	» ··</span></dt><dd><p>All·global·RefDB·configuration·files·end·up·in·this·directory.</p></dd><dt><span·class="term">
19	» ····<code·class="filename">/usr/local/share/refdb</code>	19	» ····<code·class="filename">/usr/local/share/refdb</code>
20	» ··</span></dt><dd><p>This·directory·contains·shareable,·operating·system·independent·files.·The·files·are·organized·in·a·couple·of·subdirectories:</p><div·class="itemizedlist"><ul·class="itemizedlist"·type="disc"><li·class="listitem"><p><code·class="filename">css</code>·contains·a·cascading·stylesheet·suitable·for·the·HTML·output·of·the·<a·class="link"·href="re11.html#app-c-command-getref"·title="getref"><span·class="command"><strong>getref</strong></span></a>·command.</p></li><li·class="listitem"><p><code·class="filename">declarations</code>·contains·the·default·SGML·declarations.</p></li><li·class="listitem"><p><code·class="filename">dsssl</code>·contains·DSSSL·stylesheets.</p></li><li·class="listitem"><p><code·class="filename">dtd</code>·contains·the·document·type·definitions·used·by·RefDB.</p></li><li·class="listitem"><p><code·class="filename">examples</code>·contains·a·few·example·reference·data·files·as·well·as·SGML·and·XML·test·documents·using·RefDB·citations.</p></li><li·class="listitem"><p><code·cla·✂	20	» ··</span></dt><dd><p>This·directory·contains·shareable,·operating·system·independent·files.·The·files·are·organized·in·a·couple·of·subdirectories:</p><div·class="itemizedlist"><ul·class="itemizedlist"·type="disc"><li·class="listitem"><p><code·class="filename">css</code>·contains·a·cascading·stylesheet·suitable·for·the·HTML·output·of·the·<a·class="link"·href="re11.html#app-c-command-getref"·title="getref"><span·class="command"><strong>getref</strong></span></a>·command.</p></li><li·class="listitem"><p><code·class="filename">declarations</code>·contains·the·default·SGML·declarations.</p></li><li·class="listitem"><p><code·class="filename">dsssl</code>·contains·DSSSL·stylesheets.</p></li><li·class="listitem"><p><code·class="filename">dtd</code>·contains·the·document·type·definitions·used·by·RefDB.</p></li><li·class="listitem"><p><code·class="filename">examples</code>·contains·a·few·example·reference·data·files·as·well·as·SGML·and·XML·test·documents·using·RefDB·citations.</p></li><li·class="listitem"><p><code·cla·✂
21	» ····<code·class="filename">/usr/local/var/lib/refdb/db</code>	21	» ····<code·class="filename">/usr/local/var/lib/refdb/db</code>

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2	<!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>Installation·on·Windows NT/2000/XP</title><link·rel="stylesheet"·type="text/css"·href="manual.css"·/><meta·name="generator"·content="DocBook·XSL·Stylesheets·V1.76.1"·/><link·rel="home"·href="index.html"·title="RefDB·handbook"·/><link·rel="up"·href="ch04.html"·title="Chapter 4. Installation"·/><link·rel="prev"·href="ch04s04.html"·title="Installation·on·Linux·and·other·Unix·variants"·/><link·rel="next"·href="ch04s06.html"·title="Installation·on·Windows 95/98/ME"·/></head><body><div·class="navheader"><table·width="100%"·summary="Navigation·header"><tr><th·colspan="3"·align="center">Installation·on·Windows NT/2000/XP</th></tr><tr><td·width="20%"·align="left"><a·accesskey="p"·href="ch04s04.html">Prev</a> </td><th·width="60%"·align="center">Chapter 4. Installation</th><td·w·✂	2	<!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>Installation·on·Windows NT/2000/XP</title><link·rel="stylesheet"·type="text/css"·href="manual.css"·/><meta·name="generator"·content="DocBook·XSL·Stylesheets·V1.76.1"·/><link·rel="home"·href="index.html"·title="RefDB·handbook"·/><link·rel="up"·href="ch04.html"·title="Chapter 4. Installation"·/><link·rel="prev"·href="ch04s04.html"·title="Installation·on·Linux·and·other·Unix·variants"·/><link·rel="next"·href="ch04s06.html"·title="Installation·on·Windows 95/98/ME"·/></head><body><div·class="navheader"><table·width="100%"·summary="Navigation·header"><tr><th·colspan="3"·align="center">Installation·on·Windows NT/2000/XP</th></tr><tr><td·width="20%"·align="left"><a·accesskey="p"·href="ch04s04.html">Prev</a> </td><th·width="60%"·align="center">Chapter 4. Installation</th><td·w·✂
3	» ····<span·class="command"><strong>./configure·--help</strong></span>	3	» ····<span·class="command"><strong>./configure·--help</strong></span>
4	» ··</p><p>This·command·will·display·a·list·of·things·you·can·customize.·If·you·build·in·a·separate·directory,·use·the·relative·path·to·<code·class="filename">configure</code>·in·the·source·directory.·Some·important·options·are:</p><div·class="note"·title="Note"·style="margin-left:·0.5in;·margin-right:·0.5in;"><h3·class="title">Note</h3><p>All·paths·and·URLs·in·the·following·options·should·be·entered·without·a·trailing·slash.</p></div><div·class="variablelist"><dl><dt><span·class="term">--prefix=PREFIX</span></dt><dd><p>By·default,·all·files·will·be·installed·in·the·<code·class="filename">/usr/local</code>·tree.·Use·this·option·to·use·a·different·install·root,·e.g.·<code·class="filename">/usr</code>·or·<code·class="filename">/opt</code>.</p></dd><dt><span·class="term">--datadir=DIR</span></dt><dd><p>The·data·files·will·be·installed·in·<code·class="filename">/usr/local/share/refdb</code>·unless·you·use·this·option.·The·data·will·be·installed·in·the·directory·<code·class="filename">DIR/refdb</code>.·That·is,·spe·✂	4	» ··</p><p>This·command·will·display·a·list·of·things·you·can·customize.·If·you·build·in·a·separate·directory,·use·the·relative·path·to·<code·class="filename">configure</code>·in·the·source·directory.·Some·important·options·are:</p><div·class="note"·title="Note"·style="margin-left:·0.5in;·margin-right:·0.5in;"><h3·class="title">Note</h3><p>All·paths·and·URLs·in·the·following·options·should·be·entered·without·a·trailing·slash.</p></div><div·class="variablelist"><dl><dt><span·class="term">--prefix=PREFIX</span></dt><dd><p>By·default,·all·files·will·be·installed·in·the·<code·class="filename">/usr/local</code>·tree.·Use·this·option·to·use·a·different·install·root,·e.g.·<code·class="filename">/usr</code>·or·<code·class="filename">/opt</code>.</p></dd><dt><span·class="term">--datadir=DIR</span></dt><dd><p>The·data·files·will·be·installed·in·<code·class="filename">/usr/local/share/refdb</code>·unless·you·use·this·option.·The·data·will·be·installed·in·the·directory·<code·class="filename">DIR/refdb</code>.·That·is,·spe·✂
5	» ····<code·class="prompt">$~·</code>	5	» ····<code·class="prompt">$~·</code>
6	» ····<strong·class="userinput"><code>./configure·--with-refdb-url=http://yourbox.com/refdb·--with-db-server=pgsql·--with-var-dir=/var/run·\	6	» ····<strong·class="userinput"><code>./configure·--with-refdb-url=http://yourbox.com/refdb·--with-db-server=pgsql·--with-var-dir=/var/run·\
7	» ····--with-log-dir=/var/log·--with-libdbi-dir=/uar/local/lib·--with-docbook-xsl=/usr/local/share/sgml/stylesheets/docbook·\	7	» ····--with-log-dir=/var/log·--with-libdbi-dir=/uar/local/lib·--with-docbook-xsl=/usr/local/share/sgml/stylesheets/docbook·\
8	» ····--with-tei-xsl=/usr/local/share/xsl/tei</code></strong>	8	» ····--with-tei-xsl=/usr/local/share/xsl/tei</code></strong>
9	» ··</pre></li><li·class="step"·title="Step·5"><p>Run·<span·class="command"><strong>make</strong></span>.·This·will·create·the·executables·and·adapt·scripts·and·other·files·to·your·local·installation.</p></li><li·class="step"·title="Step·6"><p><span·class="command"><strong>make·install</strong></span>·will·copy·the·application·server·and·the·clients·to·<code·class="filename">/usr/local/bin</code>·and·the·data·files·to·<code·class="filename">/usr/local/share/refdb</code>·unless·you·chose·different·directories·in·the·configure·step.</p></li><li·class="step"·title="Step·7"><p>To·finish·the·installation,·please·follow·the·instructions·in·the·section·<a·class="link"·href="ch04s08.html"·title="Finishing·the·RefDB·installation">Finishing·the·RefDB·installation</a>·below.</p></li></ol></div><p>Now·you·have·everything·in·place·to·use·the·RefDB·clients·and·the·application·server·from·the·command·line.·To·install·the·application·server·as·a·service,·the·following·additional·steps·are·necessary:</p><div·class="procedure">·✂	9	» ··</pre></li><li·class="step"·title="Step·5"><p>Run·<span·class="command"><strong>make</strong></span>.·This·will·create·the·executables·and·adapt·scripts·and·other·files·to·your·local·installation.</p></li><li·class="step"·title="Step·6"><p><span·class="command"><strong>make·install</strong></span>·will·copy·the·application·server·and·the·clients·to·<code·class="filename">/usr/local/bin</code>·and·the·data·files·to·<code·class="filename">/usr/local/share/refdb</code>·unless·you·chose·different·directories·in·the·configure·step.</p></li><li·class="step"·title="Step·7"><p>To·finish·the·installation,·please·follow·the·instructions·in·the·section·<a·class="link"·href="ch04s08.html"·title="Finishing·the·RefDB·installation">Finishing·the·RefDB·installation</a>·below.</p></li></ol></div><p>Now·you·have·everything·in·place·to·use·the·RefDB·clients·and·the·application·server·from·the·command·line.·To·install·the·application·server·as·a·service,·the·following·additional·steps·are·necessary:</p><div·class="procedure">·✂

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2	<!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>Add·or·remove·a·user</title><link·rel="stylesheet"·type="text/css"·href="manual.css"·/><meta·name="generator"·content="DocBook·XSL·Stylesheets·V1.76.1"·/><link·rel="home"·href="index.html"·title="RefDB·handbook"·/><link·rel="up"·href="ch05.html"·title="Chapter 5. refdbd·administration"·/><link·rel="prev"·href="ch05s02.html"·title="Delete·a·database"·/><link·rel="next"·href="ch05s04.html"·title="Configure·the·application·server"·/></head><body><div·class="navheader"><table·width="100%"·summary="Navigation·header"><tr><th·colspan="3"·align="center">Add·or·remove·a·user</th></tr><tr><td·width="20%"·align="left"><a·accesskey="p"·href="ch05s02.html">Prev</a> </td><th·width="60%"·align="center">Chapter 5. refdbd·administration</th><td·width="20%"·align="right"> <a·accesskey·✂	2	<!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>Add·or·remove·a·user</title><link·rel="stylesheet"·type="text/css"·href="manual.css"·/><meta·name="generator"·content="DocBook·XSL·Stylesheets·V1.76.1"·/><link·rel="home"·href="index.html"·title="RefDB·handbook"·/><link·rel="up"·href="ch05.html"·title="Chapter 5. refdbd·administration"·/><link·rel="prev"·href="ch05s02.html"·title="Delete·a·database"·/><link·rel="next"·href="ch05s04.html"·title="Configure·the·application·server"·/></head><body><div·class="navheader"><table·width="100%"·summary="Navigation·header"><tr><th·colspan="3"·align="center">Add·or·remove·a·user</th></tr><tr><td·width="20%"·align="left"><a·accesskey="p"·href="ch05s02.html">Prev</a> </td><th·width="60%"·align="center">Chapter 5. refdbd·administration</th><td·width="20%"·align="right"> <a·accesskey·✂
3	local·refdb····························crypt	3	local·refdb····························crypt
4	local·refs······························crypt	4	local·refs······························crypt

5	host··refdb··192.168.1.0·255.255.255.0·crypt	5	host··refdb··192.168.1.0·255.255.255.0·crypt
6	host··refs····192.168.1.0·255.255.255.0·crypt	6	host··refs····192.168.1.0·255.255.255.0·crypt
7	» </pre><p>The·default·<code·class="filename">pg_hba.conf</code>·file·allows·local·access·to·all·databases·without·password·protection.·This·may·not·be·what·you·want.·The·file·contains·a·bunch·of·helpful·comments,·though.·You·may·also·want·to·peruse·the·PostgreSQL·documentation·for·more·information·about·host-based·access·control.</p></div></div><div·class="sect2"·title="Remove·users"><div·class="titlepage"><div><div><h3·class="title"><a·id="idp59249464"></a>Remove·users</h3></div></div></div><p>This·is·done·with·the·<a·class="link"·href="re06.html#app-a-command-deleteuser"·title="deleteuser">deleteuser</a>·command.·The·access·rights·will·be·revoked·for·the·specified·username·and·database.·No·other·access·rights·will·be·modified.·The·following·command·will·revoke·the·access·rights·of·user·"jack"·on·the·database·"foo".</p><pre·class="screen"><code·class="prompt">refdba:·</code>deleteuser·-d·foo·jack</pre><p>Keep·in·mind·that·user·"jack"·still·can·access·the·refdb·main·database·<code·class="filename">refdb</code·✂	7	» </pre><p>The·default·<code·class="filename">pg_hba.conf</code>·file·allows·local·access·to·all·databases·without·password·protection.·This·may·not·be·what·you·want.·The·file·contains·a·bunch·of·helpful·comments,·though.·You·may·also·want·to·peruse·the·PostgreSQL·documentation·for·more·information·about·host-based·access·control.</p></div></div><div·class="sect2"·title="Remove·users"><div·class="titlepage"><div><div><h3·class="title"><a·id="idp59294520"></a>Remove·users</h3></div></div></div><p>This·is·done·with·the·<a·class="link"·href="re06.html#app-a-command-deleteuser"·title="deleteuser">deleteuser</a>·command.·The·access·rights·will·be·revoked·for·the·specified·username·and·database.·No·other·access·rights·will·be·modified.·The·following·command·will·revoke·the·access·rights·of·user·"jack"·on·the·database·"foo".</p><pre·class="screen"><code·class="prompt">refdba:·</code>deleteuser·-d·foo·jack</pre><p>Keep·in·mind·that·user·"jack"·still·can·access·the·refdb·main·database·<code·class="filename">refdb</code·✂

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3	» <code·class="prompt">refdbc:·</code>	3	» <code·class="prompt">refdbc:·</code>
4	» <strong·class="userinput"><code>getref·-t·risx·-s·NOHOLES·-o·all.ris·:ID:>0</code></strong>	4	» <strong·class="userinput"><code>getref·-t·risx·-s·NOHOLES·-o·all.ris·:ID:>0</code></strong>
5	······</pre><p>The·<code·class="option">-s·NOHOLES</code>·option·will·dump·skeleton·references·for·references·that·you·deleted·from·the·database.·This·simplifies·re-creating·the·same·ID·values·in·a·new·database.</p></div><div·class="sect2"·title="Creating·a·SQL·dump"><div·class="titlepage"><div><div><h3·class="title"><a·id="idp59~~377080~~"></a>Creating·a·SQL·dump</h3></div></div></div><p>This·is·best·done·with·the·command·line·tools·shipped·with·you·database·server.·You·should·consult·the·manual·of·your·database·server,·but·the·following·commands·should·be·all·it·takes:</p><p>If·you·run·MySQL·as·your·database·server,·run:</p><pre·class="screen">	5	······</pre><p>The·<code·class="option">-s·NOHOLES</code>·option·will·dump·skeleton·references·for·references·that·you·deleted·from·the·database.·This·simplifies·re-creating·the·same·ID·values·in·a·new·database.</p></div><div·class="sect2"·title="Creating·a·SQL·dump"><div·class="titlepage"><div><div><h3·class="title"><a·id="idp59024824"></a>Creating·a·SQL·dump</h3></div></div></div><p>This·is·best·done·with·the·command·line·tools·shipped·with·you·database·server.·You·should·consult·the·manual·of·your·database·server,·but·the·following·commands·should·be·all·it·takes:</p><p>If·you·run·MySQL·as·your·database·server,·run:</p><pre·class="screen">
6	» <code·class="prompt">$·</code>	6	» <code·class="prompt">$·</code>
7	» <strong·class="userinput"><code>mysqldump·-u·root·-p·--opt·dbname·>·dbname.dump</code></strong>	7	» <strong·class="userinput"><code>mysqldump·-u·root·-p·--opt·dbname·>·dbname.dump</code></strong>
8	······</pre><p>This·assumes·that·"root"·is·the·name·of·your·database·administrator·account·and·"dbname"·is·the·name·of·your·database.</p><p>If·you·run·PostgreSQL·instead,·use·this·command:</p><pre·class="screen">	8	······</pre><p>This·assumes·that·"root"·is·the·name·of·your·database·administrator·account·and·"dbname"·is·the·name·of·your·database.</p><p>If·you·run·PostgreSQL·instead,·use·this·command:</p><pre·class="screen">
9	» <code·class="prompt">$·</code>	9	» <code·class="prompt">$·</code>
10	» <strong·class="userinput"><code>pg_dump·-u·pgsql·-C·dbname·>·dbname.dump</code></strong>	10	» <strong·class="userinput"><code>pg_dump·-u·pgsql·-C·dbname·>·dbname.dump</code></strong>
11	······</pre><p>This·assumes·that·"pgsql"·is·the·name·of·your·database·administrator·account·and·"dbname"·is·the·name·of·your·database.</p><p>To·restore·a·database·from·a·dump,·use·the·command·line·clients·shipped·with·your·database·server.·For·MySQL,·the·required·sequence·is:</p><pre·class="screen">	11	······</pre><p>This·assumes·that·"pgsql"·is·the·name·of·your·database·administrator·account·and·"dbname"·is·the·name·of·your·database.</p><p>To·restore·a·database·from·a·dump,·use·the·command·line·clients·shipped·with·your·database·server.·For·MySQL,·the·required·sequence·is:</p><pre·class="screen">
12	» <code·class="prompt">$·</code>	12	» <code·class="prompt">$·</code>

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2	<!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>The·non-interactive·mode·of·refdba·and·refdbc</title><link·rel="stylesheet"·type="text/css"·href="manual.css"·/><meta·name="generator"·content="DocBook·XSL·Stylesheets·V1.76.1"·/><link·rel="home"·href="index.html"·title="RefDB·handbook"·/><link·rel="up"·href="ch06.html"·title="Chapter 6. Overview·of·the·RefDB·command-line·clients"·/><link·rel="prev"·href="ch06s02.html"·title="The·interactive·mode·of·refdba·and·refdbc"·/><link·rel="next"·href="ch06s04.html"·title="The·non-interactive·mode·of·refdbib"·/></head><body><div·class="navheader"><table·width="100%"·summary="Navigation·header"><tr><th·colspan="3"·align="center">The·non-interactive·mode·of·refdba·and·refdbc</th></tr><tr><td·width="20%"·align="left"><a·accesskey="p"·href="ch06s02.html">Prev</a> </td><th·width="60·✂	2	<!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>The·non-interactive·mode·of·refdba·and·refdbc</title><link·rel="stylesheet"·type="text/css"·href="manual.css"·/><meta·name="generator"·content="DocBook·XSL·Stylesheets·V1.76.1"·/><link·rel="home"·href="index.html"·title="RefDB·handbook"·/><link·rel="up"·href="ch06.html"·title="Chapter 6. Overview·of·the·RefDB·command-line·clients"·/><link·rel="prev"·href="ch06s02.html"·title="The·interactive·mode·of·refdba·and·refdbc"·/><link·rel="next"·href="ch06s04.html"·title="The·non-interactive·mode·of·refdbib"·/></head><body><div·class="navheader"><table·width="100%"·summary="Navigation·header"><tr><th·colspan="3"·align="center">The·non-interactive·mode·of·refdba·and·refdbc</th></tr><tr><td·width="20%"·align="left"><a·accesskey="p"·href="ch06s02.html">Prev</a> </td><th·width="60·✂
3	» <code·class="prompt">~$·</code>	3	» <code·class="prompt">~$·</code>
4	» <strong·class="userinput"><code>refdbc·-d·refs·-t·ris·-s·AB·-C·getref·:AU:=Miller</code></strong>	4	» <strong·class="userinput"><code>refdbc·-d·refs·-t·ris·-s·AB·-C·getref·:AU:=Miller</code></strong>
5	······</pre></div></div><div·class="navfooter"><hr·/><table·width="100%"·summary="Navigation·footer"><tr><td·width="40%"·align="left"><a·accesskey="p"·href="ch06s02.html">Prev</a> </td><td·width="20%"·align="center"><a·accesskey="u"·href="ch06.html">Up</a></td><td·width="40%"·align="right"> <a·accesskey="n"·href="ch06s04.html">Next</a></td></tr><tr><td·width="40%"·align="left"·valign="top">The·interactive·mode·of·refdba·and·refdbc </td><td·width="20%"·align="center"><a·accesskey="h"·href="index.html">Home</a></td><td·width="40%"·align="right"·valign="top"> The·non-interactive·mode·of·refdbib</td></tr></table></div></body></html>	5	······</pre></div></div><div·class="navfooter"><hr·/><table·width="100%"·summary="Navigation·footer"><tr><td·width="40%"·align="left"><a·accesskey="p"·href="ch06s02.html">Prev</a> </td><td·width="20%"·align="center"><a·accesskey="u"·href="ch06.html">Up</a></td><td·width="40%"·align="right"> <a·accesskey="n"·href="ch06s04.html">Next</a></td></tr><tr><td·width="40%"·align="left"·valign="top">The·interactive·mode·of·refdba·and·refdbc </td><td·width="20%"·align="center"><a·accesskey="h"·href="index.html">Home</a></td><td·width="40%"·align="right"·valign="top"> The·non-interactive·mode·of·refdbib</td></tr></table></div></body></html>

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1	<?xml·version="1.0"·encoding="UTF-8"·standalone="no"?>	1	<?xml·version="1.0"·encoding="UTF-8"·standalone="no"?>
2	<!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 7. Data·input</title><link·rel="stylesheet"·type="text/css"·href="manual.css"·/><meta·name="generator"·content="DocBook·XSL·Stylesheets·V1.76.1"·/><link·rel="home"·href="index.html"·title="RefDB·handbook"·/><link·rel="up"·href="pt03.html"·title="Part III. User·manual"·/><link·rel="prev"·href="ch06s05.html"·title="Common·command-line·options·for·all·clients"·/><link·rel="next"·href="ch07s02.html"·title="The·Emacs·helpers"·/></head><body><div·class="navheader"><table·width="100%"·summary="Navigation·header"><tr><th·colspan="3"·align="center">Chapter 7. Data·input</th></tr><tr><td·width="20%"·align="left"><a·accesskey="p"·href="ch06s05.html">Prev</a> </td><th·width="60%"·align="center">Part III. User·manual</th><td·width="20%"·align="right"> <a·accesskey="n"·href·✂	2	<!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 7. Data·input</title><link·rel="stylesheet"·type="text/css"·href="manual.css"·/><meta·name="generator"·content="DocBook·XSL·Stylesheets·V1.76.1"·/><link·rel="home"·href="index.html"·title="RefDB·handbook"·/><link·rel="up"·href="pt03.html"·title="Part III. User·manual"·/><link·rel="prev"·href="ch06s05.html"·title="Common·command-line·options·for·all·clients"·/><link·rel="next"·href="ch07s02.html"·title="The·Emacs·helpers"·/></head><body><div·class="navheader"><table·width="100%"·summary="Navigation·header"><tr><th·colspan="3"·align="center">Chapter 7. Data·input</th></tr><tr><td·width="20%"·align="left"><a·accesskey="p"·href="ch06s05.html">Prev</a> </td><th·width="60%"·align="center">Part III. User·manual</th><td·width="20%"·align="right"> <a·accesskey="n"·href·✂
3	TY··-·BOOK·················<a·id="type"></a><img·src="images/callouts/2.png"·alt="2"·border="0"·/>·	3	TY··-·BOOK·················<a·id="type"></a><img·src="images/callouts/2.png"·alt="2"·border="0"·/>·
4	AU··-·Hoenicka,M.··········<a·id="contents"></a><img·src="images/callouts/3.png"·alt="3"·border="0"·/>	4	AU··-·Hoenicka,M.··········<a·id="contents"></a><img·src="images/callouts/3.png"·alt="3"·border="0"·/>
5	TI··-·The·RefDB·manual	5	TI··-·The·RefDB·manual
6	PY··-·2001	6	PY··-·2001
7	ER··-······················<a·id="end"></a><img·src="images/callouts/4.png"·alt="4"·border="0"·/></pre><div·class="calloutlist"><table·border="0"·summary="Callout·list"><tr><td·width="5%"·valign="top"·align="left"><p><a·href="#newline"><img·src="images/callouts/1.png"·alt="1"·border="0"·/></a>·</p></td><td·valign="top"·align="left"><p>This·is·the·empty·line·generated·by·a·linefeed·character·(0x0A)·that·precedes·every·RIS·citation,·even·at·the·start·of·a·RIS·file.</p></td></tr><tr><td·width="5%"·valign="top"·align="left"><p><a·href="#type"><img·src="images/callouts/2.png"·alt="2"·border="0"·/></a>·</p></td><td·valign="top"·align="left"><p>This·is·the·mandatory·first·tag,·the·type·specifier.·In·this·case,·we're·looking·at·a·BOOK·entry.</p></td></tr><tr><td·width="5%"·valign="top"·align="left"><p><a·href="#contents"><img·src="images/callouts/3.png"·alt="3"·border="0"·/></a>·</p></td><td·valign="top"·align="left"><p>This·and·the·following·lines·are·the·contents·proper·of·the·citation.·All·additional·tags·would·go·✂	7	ER··-······················<a·id="end"></a><img·src="images/callouts/4.png"·alt="4"·border="0"·/></pre><div·class="calloutlist"><table·border="0"·summary="Callout·list"><tr><td·width="5%"·valign="top"·align="left"><p><a·href="#newline"><img·src="images/callouts/1.png"·alt="1"·border="0"·/></a>·</p></td><td·valign="top"·align="left"><p>This·is·the·empty·line·generated·by·a·linefeed·character·(0x0A)·that·precedes·every·RIS·citation,·even·at·the·start·of·a·RIS·file.</p></td></tr><tr><td·width="5%"·valign="top"·align="left"><p><a·href="#type"><img·src="images/callouts/2.png"·alt="2"·border="0"·/></a>·</p></td><td·valign="top"·align="left"><p>This·is·the·mandatory·first·tag,·the·type·specifier.·In·this·case,·we're·looking·at·a·BOOK·entry.</p></td></tr><tr><td·width="5%"·valign="top"·align="left"><p><a·href="#contents"><img·src="images/callouts/3.png"·alt="3"·border="0"·/></a>·</p></td><td·valign="top"·align="left"><p>This·and·the·following·lines·are·the·contents·proper·of·the·citation.·All·additional·tags·would·go·✂
8	TY··-·JOUR	8	TY··-·JOUR
9	T1··-·T-lymphocytes·from·normal·human·peritoneum·are·phenotypically·/	9	T1··-·T-lymphocytes·from·normal·human·peritoneum·are·phenotypically·/
10	different·from·their·counterparts·in·peripheral·blood·and·CD3-·lymphocyte·/	10	different·from·their·counterparts·in·peripheral·blood·and·CD3-·lymphocyte·/
11	subsets·contain·mRNA·for·the·recombination·activating·gene·RAG-1	11	subsets·contain·mRNA·for·the·recombination·activating·gene·RAG-1
12	A1··-·Hartmann,J.	12	A1··-·Hartmann,J.
13	A1··-·Maassen,V.	13	A1··-·Maassen,V.
14	A1··-·Rieber,P.	14	A1··-·Rieber,P.

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1	<?xml·version="1.0"·encoding="UTF-8"·standalone="no"?>	1	<?xml·version="1.0"·encoding="UTF-8"·standalone="no"?>
2	<!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 8. Reference·management</title><link·rel="stylesheet"·type="text/css"·href="manual.css"·/><meta·name="generator"·content="DocBook·XSL·Stylesheets·V1.76.1"·/><link·rel="home"·href="index.html"·title="RefDB·handbook"·/><link·rel="up"·href="pt03.html"·title="Part III. User·manual"·/><link·rel="prev"·href="ch07s06.html"·title="Input·data·mangling"·/><link·rel="next"·href="ch08s02.html"·title="Find·and·view·references"·/></head><body><div·class="navheader"><table·width="100%"·summary="Navigation·header"><tr><th·colspan="3"·align="center">Chapter 8. Reference·management</th></tr><tr><td·width="20%"·align="left"><a·accesskey="p"·href="ch07s06.html">Prev</a> </td><th·width="60%"·align="center">Part III. User·manual</th><td·width="20%"·align="right"> <a·accesskey="n"·h·✂	2	<!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 8. Reference·management</title><link·rel="stylesheet"·type="text/css"·href="manual.css"·/><meta·name="generator"·content="DocBook·XSL·Stylesheets·V1.76.1"·/><link·rel="home"·href="index.html"·title="RefDB·handbook"·/><link·rel="up"·href="pt03.html"·title="Part III. User·manual"·/><link·rel="prev"·href="ch07s06.html"·title="Input·data·mangling"·/><link·rel="next"·href="ch08s02.html"·title="Find·and·view·references"·/></head><body><div·class="navheader"><table·width="100%"·summary="Navigation·header"><tr><th·colspan="3"·align="center">Chapter 8. Reference·management</th></tr><tr><td·width="20%"·align="left"><a·accesskey="p"·href="ch07s06.html">Prev</a> </td><th·width="60%"·align="center">Part III. User·manual</th><td·width="20%"·align="right"> <a·accesskey="n"·h·✂
3	» ······<code·class="prompt">~#·</code>	3	» ······<code·class="prompt">~#·</code>
4	» ······<strong·class="userinput"><code>med2ris.pl·-o·foo.ris·pm*</code></strong>	4	» ······<strong·class="userinput"><code>med2ris.pl·-o·foo.ris·pm*</code></strong>
5	» ····</pre><p>We·could·now·open·<code·class="filename">foo.ris</code>·in·our·favourite·text·editor·and·make·a·few·changes.·We·could·enter·additional·keywords,·provide·personal·notes·(e.g.·why·we·currently·find·the·article·worth·the·paper·it·is·printed·on,·something·that·may·not·be·apparent·a·few·months·later),·or·specify·the·reprint·status·and·availability.</p></li><li·class="listitem"><p>Then·we·switch·to·(or·start)·the·refdbc·command·line·client·and·type·the·following·command·at·the·prompt·to·add·the·references·to·the·database·<code·class="filename">bar</code>·(use·the·full·path·to·<code·class="filename">foo.ris</code>·if·necessary):</p><pre·class="screen">	5	» ····</pre><p>We·could·now·open·<code·class="filename">foo.ris</code>·in·our·favourite·text·editor·and·make·a·few·changes.·We·could·enter·additional·keywords,·provide·personal·notes·(e.g.·why·we·currently·find·the·article·worth·the·paper·it·is·printed·on,·something·that·may·not·be·apparent·a·few·months·later),·or·specify·the·reprint·status·and·availability.</p></li><li·class="listitem"><p>Then·we·switch·to·(or·start)·the·refdbc·command·line·client·and·type·the·following·command·at·the·prompt·to·add·the·references·to·the·database·<code·class="filename">bar</code>·(use·the·full·path·to·<code·class="filename">foo.ris</code>·if·necessary):</p><pre·class="screen">
6	» ······<code·class="prompt">refdbc:·</code>	6	» ······<code·class="prompt">refdbc:·</code>
7	» ······<strong·class="userinput"><code>addref·-d·bar·foo.ris</code></strong>	7	» ······<strong·class="userinput"><code>addref·-d·bar·foo.ris</code></strong>
8	» ····</pre></li></ul></div></div><div·class="simplesect"·title="Example·2"><div·class="titlepage"><div><div><h4·class="title"><a·id="idp59113~~912~~"></a>Example·2</h4></div></div></div><p>You·feel·the·urge·to·import·MODS·data,·an·XML·data·format·developed·by·the·<a·class="ulink"·href="http://www.loc.gov"·target="_top">Library·of·Congress</a>.·RefDB·does·not·support·this·format·natively·or·via·converters·at·this·time,·so·you'll·have·to·resort·to·an·external·tool.·Chris·Putnam's·<a·class="ulink"·href="http://www.scripps.edu/~cdputnam/software/bibutils/bibutils.html"·target="_top">bibutils</a>·package·comes·to·the·rescue,·as·it·provides·a·set·of·command-line·tools·to·interconvert·a·number·of·bibliography·data·formats.·Both·RIS·and·MODS·are·supported,·so·we·have·all·it·takes.·The·following·command·imports·the·MODS·data·into·your·default·database·in·a·single·step,·although·you·may·first·want·to·check·the·output·of·the·converter·before·going·ahead:</p><pre·class="screen">	8	» ····</pre></li></ul></div></div><div·class="simplesect"·title="Example·2"><div·class="titlepage"><div><div><h4·class="title"><a·id="idp59163064"></a>Example·2</h4></div></div></div><p>You·feel·the·urge·to·import·MODS·data,·an·XML·data·format·developed·by·the·<a·class="ulink"·href="http://www.loc.gov"·target="_top">Library·of·Congress</a>.·RefDB·does·not·support·this·format·natively·or·via·converters·at·this·time,·so·you'll·have·to·resort·to·an·external·tool.·Chris·Putnam's·<a·class="ulink"·href="http://www.scripps.edu/~cdputnam/software/bibutils/bibutils.html"·target="_top">bibutils</a>·package·comes·to·the·rescue,·as·it·provides·a·set·of·command-line·tools·to·interconvert·a·number·of·bibliography·data·formats.·Both·RIS·and·MODS·are·supported,·so·we·have·all·it·takes.·The·following·command·imports·the·MODS·data·into·your·default·database·in·a·single·step,·although·you·may·first·want·to·check·the·output·of·the·converter·before·going·ahead:</p><pre·class="screen">
9	» ······<code·class="prompt">#·</code><strong·class="userinput"><code>xml2ris·modsdata.xml\|refdbc·-C·addref</code></strong>	9	» ······<code·class="prompt">#·</code><strong·class="userinput"><code>xml2ris·modsdata.xml\|refdbc·-C·addref</code></strong>
10	» ····</pre></div></div><div·class="sect2"·title="risx·datasets"><div·class="titlepage"><div><div><h3·class="title"><a·id="sect-add-risx-datasets"></a>risx·datasets</h3></div></div></div><p>If·you·prefer·the·XML·data·format·instead,·use·the·<a·class="link"·href="re11.html#app-c-command-addref"·title="addref"><span·class="command"><strong>addref</strong></span></a>·with·the·<code·class="option">-A·risx</code>·switch.·As·the·data·are·imported·using·a·non-validating·XML·parser·you·should·make·sure·the·documents·are·valid,·either·by·using·some·nifty·feature·of·your·XML·editor·or·by·running·the·document·through·a·suitable·tool·like·<span·class="command"><strong>xmllint</strong></span>.</p><p>Each·entry·in·a·risx·document·can·specify·a·numerical·ID·value·and·an·alphanumeric·citation·key.·The·ID·is·ignored·by·the·import·routines.·If·you·want·to·update·or·replace·an·entry·by·ID,·you·have·to·use·the·<a·class="link"·href="re11.html#app-c-command-updateref"·title="updateref"><span·class="command"><strong>updateref</stron·✂	10	» ····</pre></div></div><div·class="sect2"·title="risx·datasets"><div·class="titlepage"><div><div><h3·class="title"><a·id="sect-add-risx-datasets"></a>risx·datasets</h3></div></div></div><p>If·you·prefer·the·XML·data·format·instead,·use·the·<a·class="link"·href="re11.html#app-c-command-addref"·title="addref"><span·class="command"><strong>addref</strong></span></a>·with·the·<code·class="option">-A·risx</code>·switch.·As·the·data·are·imported·using·a·non-validating·XML·parser·you·should·make·sure·the·documents·are·valid,·either·by·using·some·nifty·feature·of·your·XML·editor·or·by·running·the·document·through·a·suitable·tool·like·<span·class="command"><strong>xmllint</strong></span>.</p><p>Each·entry·in·a·risx·document·can·specify·a·numerical·ID·value·and·an·alphanumeric·citation·key.·The·ID·is·ignored·by·the·import·routines.·If·you·want·to·update·or·replace·an·entry·by·ID,·you·have·to·use·the·<a·class="link"·href="re11.html#app-c-command-updateref"·title="updateref"><span·class="command"><strong>updateref</stron·✂
11	» ······<code·class="prompt">~#·</code>	11	» ······<code·class="prompt">~#·</code>
12	» ······<strong·class="userinput"><code>onsgmls·-s·/usr/local/share/refdb/declarations/xml.dcl·foo.xml</code></strong>	12	» ······<strong·class="userinput"><code>onsgmls·-s·/usr/local/share/refdb/declarations/xml.dcl·foo.xml</code></strong>
13	» ······<code·class="prompt">~#·</code>	13	» ······<code·class="prompt">~#·</code>
14	» ······<strong·class="userinput"><code>xmllint·--noout·--dtdvalid·"http://refdb.sourceforge.net/dtd/risx/risx.dtd"·foo.xml</code></strong>	14	» ······<strong·class="userinput"><code>xmllint·--noout·--dtdvalid·"http://refdb.sourceforge.net/dtd/risx/risx.dtd"·foo.xml</code></strong>
15	» ····</pre><p>No·news·is·good·news·in·both·cases:·If·your·document·is·valid,·the·validator·will·not·output·anything.·If·you·do·get·some·error·messages,·go·back·to·your·editor·and·fix·the·problems.</p></li><li·class="listitem"><p>Now·switch·to·refdbc·and·run·the·following·command·to·add·the·references·in·<code·class="filename">foo.xml</code>·to·the·reference·database·<code·class="filename">bar</code>:</p><pre·class="screen">	15	» ····</pre><p>No·news·is·good·news·in·both·cases:·If·your·document·is·valid,·the·validator·will·not·output·anything.·If·you·do·get·some·error·messages,·go·back·to·your·editor·and·fix·the·problems.</p></li><li·class="listitem"><p>Now·switch·to·refdbc·and·run·the·following·command·to·add·the·references·in·<code·class="filename">foo.xml</code>·to·the·reference·database·<code·class="filename">bar</code>:</p><pre·class="screen">
16	» ······<code·class="prompt">refdbc:·</code>	16	» ······<code·class="prompt">refdbc:·</code>
17	» ······<strong·class="userinput"><code>addref·-A·risx·-d·bar·foo.xml</code></strong>	17	» ······<strong·class="userinput"><code>addref·-A·risx·-d·bar·foo.xml</code></strong>

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3	http://myserver.com/cgi-bin/refdbsru/foo?<query>	3	http://myserver.com/cgi-bin/refdbsru/foo?<query>
4	» </pre><p>The·first·URL·will·use·the·default·database.·The·second·URL·will·use·the·database·"foo"·instead.·The·database·name·goes·between·the·slash·that·follows·the·CGI·script·name·and·the·question·mark·that·opens·the·query·string.</p></div></div><div·class="sect2"·title="The·scan·operation"><div·class="titlepage"><div><div><h3·class="title"><a·id="sect-sru-scan"></a>The·scan·operation</h3></div></div></div><p>The·purpose·of·the·scan·operation·is·to·provide·a·matching·list·of·query·terms,·along·with·the·number·of·references·each·term·would·retrieve.·This·is·similar·to·browsing·through·a·stack·of·library·cards·with·subjects·or·author·names·on·them.·The·RefDB·SRU·service·allows·to·scan·the·following·database·fields:</p><div·class="itemizedlist"><ul·class="itemizedlist"·type="disc"><li·class="listitem"><p>keywords·(bib.subject)</p><p>http://mybox.com/cgi-bin/refdbsru/?operation=scan&version=1.1&scanClause=bib.subject%3d%22dichroism%22</p></li><li·class="listitem"><p>author·names·(bib.name)</p><p>http://m·✂	4	» </pre><p>The·first·URL·will·use·the·default·database.·The·second·URL·will·use·the·database·"foo"·instead.·The·database·name·goes·between·the·slash·that·follows·the·CGI·script·name·and·the·question·mark·that·opens·the·query·string.</p></div></div><div·class="sect2"·title="The·scan·operation"><div·class="titlepage"><div><div><h3·class="title"><a·id="sect-sru-scan"></a>The·scan·operation</h3></div></div></div><p>The·purpose·of·the·scan·operation·is·to·provide·a·matching·list·of·query·terms,·along·with·the·number·of·references·each·term·would·retrieve.·This·is·similar·to·browsing·through·a·stack·of·library·cards·with·subjects·or·author·names·on·them.·The·RefDB·SRU·service·allows·to·scan·the·following·database·fields:</p><div·class="itemizedlist"><ul·class="itemizedlist"·type="disc"><li·class="listitem"><p>keywords·(bib.subject)</p><p>http://mybox.com/cgi-bin/refdbsru/?operation=scan&version=1.1&scanClause=bib.subject%3d%22dichroism%22</p></li><li·class="listitem"><p>author·names·(bib.name)</p><p>http://m·✂

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2	<!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>Installation·on·Linux·and·other·Unix·variants</title><link·rel="stylesheet"·type="text/css"·href="manual.css"·/><meta·name="generator"·content="DocBook·XSL·Stylesheets·V1.76.1"·/><link·rel="home"·href="index.html"·title="RefDB·handbook"·/><link·rel="up"·href="ch04.html"·title="Chapter 4. Installation"·/><link·rel="prev"·href="ch04s03.html"·title="Things·to·know·before·you·start"·/><link·rel="next"·href="ch04s05.html"·title="Installation·on·Windows NT/2000/XP"·/></head><body><div·class="navheader"><table·width="100%"·summary="Navigation·header"><tr><th·colspan="3"·align="center">Installation·on·Linux·and·other·Unix·variants</th></tr><tr><td·width="20%"·align="left"><a·accesskey="p"·href="ch04s03.html">Prev</a> </td><th·width="60%"·align="center">Chapter 4. Installation·✂	2	<!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>Installation·on·Linux·and·other·Unix·variants</title><link·rel="stylesheet"·type="text/css"·href="manual.css"·/><meta·name="generator"·content="DocBook·XSL·Stylesheets·V1.76.1"·/><link·rel="home"·href="index.html"·title="RefDB·handbook"·/><link·rel="up"·href="ch04.html"·title="Chapter 4. Installation"·/><link·rel="prev"·href="ch04s03.html"·title="Things·to·know·before·you·start"·/><link·rel="next"·href="ch04s05.html"·title="Installation·on·Windows NT/2000/XP"·/></head><body><div·class="navheader"><table·width="100%"·summary="Navigation·header"><tr><th·colspan="3"·align="center">Installation·on·Linux·and·other·Unix·variants</th></tr><tr><td·width="20%"·align="left"><a·accesskey="p"·href="ch04s03.html">Prev</a> </td><th·width="60%"·align="center">Chapter 4. Installation·✂
3	» ······<span·class="command"><strong>make</strong></span>	3	» ······<span·class="command"><strong>make</strong></span>
4	» ····</p><div·class="note"·title="Note"·style="margin-left:·0.5in;·margin-right:·0.5in;"><h3·class="title">Note</h3><p>The·autotools-generated·Makefiles·apparently·prefer·(or·require?)·GNU·make.·If·<span·class="command"><strong>make</strong></span>·results·in·spurious·error·messages·<span·class="emphasis"><em>about·the·Makefile·syntax</em></span>,·try·to·run·<span·class="command"><strong>gmake</strong></span>·instead·as·your·regular·<code·class="filename">make</code>·is·apparently·not·the·GNU·version.</p></div></li><li·class="step"·title="Step·6"><p>	4	» ····</p><div·class="note"·title="Note"·style="margin-left:·0.5in;·margin-right:·0.5in;"><h3·class="title">Note</h3><p>The·autotools-generated·Makefiles·apparently·prefer·(or·require?)·GNU·make.·If·<span·class="command"><strong>make</strong></span>·results·in·spurious·error·messages·<span·class="emphasis"><em>about·the·Makefile·syntax</em></span>,·try·to·run·<span·class="command"><strong>gmake</strong></span>·instead·as·your·regular·<code·class="filename">make</code>·is·apparently·not·the·GNU·version.</p></div></li><li·class="step"·title="Step·6"><p>
5	» ······<span·class="command"><strong>make·install</strong></span>	5	» ······<span·class="command"><strong>make·install</strong></span>
6	» ····</p><p>This·will·install·the·binaries·and·scripts·in·<code·class="filename">/usr/local/bin</code>·and·the·data·in·<code·class="filename">/usr/local/share/refdb</code>·unless·you·chose·different·directories·in·the·configure·step.·Again,·run·<span·class="command"><strong>gmake·install</strong></span>·instead·if·your·regular·<code·class="filename">make</code>·is·not·the·GNU·version.</p></li><li·class="step"·title="Step·7"><p>To·finish·the·installation,·please·follow·the·instructions·in·the·section·<a·class="link"·href="ch04s08.html"·title="Finishing·the·RefDB·installation">Finishing·the·RefDB·installation</a>·below.</p></li></ol></div><p>If·this·procedure·results·in·strange·error·messages,·you·probably·use·a·platform·that·is·not·supported·yet.·The·author·appreciates·a·porting·effort·or·a·description·of·the·problem·(in·this·particular·order).</p></div><div·class="sect3"·title="Living·on·the·bleeding·edge:·installing·a·SVN·version"><div·class="titlepage"><div><div><h4·class="title"><a·id="idp59735608"></a>Liv·✂	6	» ····</p><p>This·will·install·the·binaries·and·scripts·in·<code·class="filename">/usr/local/bin</code>·and·the·data·in·<code·class="filename">/usr/local/share/refdb</code>·unless·you·chose·different·directories·in·the·configure·step.·Again,·run·<span·class="command"><strong>gmake·install</strong></span>·instead·if·your·regular·<code·class="filename">make</code>·is·not·the·GNU·version.</p></li><li·class="step"·title="Step·7"><p>To·finish·the·installation,·please·follow·the·instructions·in·the·section·<a·class="link"·href="ch04s08.html"·title="Finishing·the·RefDB·installation">Finishing·the·RefDB·installation</a>·below.</p></li></ol></div><p>If·this·procedure·results·in·strange·error·messages,·you·probably·use·a·platform·that·is·not·supported·yet.·The·author·appreciates·a·porting·effort·or·a·description·of·the·problem·(in·this·particular·order).</p></div><div·class="sect3"·title="Living·on·the·bleeding·edge:·installing·a·SVN·version"><div·class="titlepage"><div><div><h4·class="title"><a·id="idp59715128"></a>Liv·✂
7	» ······<code·class="prompt">$~/build·</code>	7	» ······<code·class="prompt">$~/build·</code>
8	» ······<strong·class="userinput"><code>svn·co·https://svn.sourceforge.net/svnroot/refdb/refdb/trunk·refdb</code></strong>	8	» ······<strong·class="userinput"><code>svn·co·https://svn.sourceforge.net/svnroot/refdb/refdb/trunk·refdb</code></strong>
9	» ····</pre><p>Other·interesting·modules·to·check·out·are·<code·class="filename">perlmod</code>·(the·Perl·modules·and·the·Perl·client·library)·and·<code·class="filename">elisp</code>·(the·Emacs·support·files).</p><p>If·you·are·interested·in·a·particular·repository·version,·release,·or·branch,·use·commands·along·these·lines:</p><pre·class="screen">	9	» ····</pre><p>Other·interesting·modules·to·check·out·are·<code·class="filename">perlmod</code>·(the·Perl·modules·and·the·Perl·client·library)·and·<code·class="filename">elisp</code>·(the·Emacs·support·files).</p><p>If·you·are·interested·in·a·particular·repository·version,·release,·or·branch,·use·commands·along·these·lines:</p><pre·class="screen">
10	» ······<code·class="prompt">$~/build·</code>	10	» ······<code·class="prompt">$~/build·</code>
11	» ······<strong·class="userinput"><code>svn·co·--revision·324·https://svn.sourceforge.net/svnroot/refdb/refdb/trunk·refdb-324</code></strong>	11	» ······<strong·class="userinput"><code>svn·co·--revision·324·https://svn.sourceforge.net/svnroot/refdb/refdb/trunk·refdb-324</code></strong>
12	» ······<strong·class="userinput"><code>svn·co·https://svn.sourceforge.net/svnroot/refdb/refdb/tags/Release-0.9.7·refdb-0.9.7</code></strong>	12	» ······<strong·class="userinput"><code>svn·co·https://svn.sourceforge.net/svnroot/refdb/refdb/tags/Release-0.9.7·refdb-0.9.7</code></strong>
13	» ······<strong·class="userinput"><code>svn·co·https://svn.sourceforge.net/svnroot/refdb/refdb/branches/back-to-a-1-branch·refdb-a1-branch</code></strong>	13	» ······<strong·class="userinput"><code>svn·co·https://svn.sourceforge.net/svnroot/refdb/refdb/branches/back-to-a-1-branch·refdb-a1-branch</code></strong>
14	» ····</pre></li><li·class="step"·title="Step·3"><p>If·you·want·to·keep·track·of·the·latest·developments,·you'll·have·to·update·your·SVN·working·copy·once·in·a·while.·Run·this·command·from·within·the·top-level·source·directory:</p><pre·class="screen">	14	» ····</pre></li><li·class="step"·title="Step·3"><p>If·you·want·to·keep·track·of·the·latest·developments,·you'll·have·to·update·your·SVN·working·copy·once·in·a·while.·Run·this·command·from·within·the·top-level·source·directory:</p><pre·class="screen">
15	» ······<code·class="prompt">$~/build/refdb·</code>	15	» ······<code·class="prompt">$~/build/refdb·</code>
16	» ······<strong·class="userinput"><code>svn·update</code></strong>	16	» ······<strong·class="userinput"><code>svn·update</code></strong>
17	» ····</pre><p>Consider·subscribing·to·the·refdb-cvs·mailing·list·as·you'll·be·notified·about·each·SVN·checkin.</p></li><li·class="step"·title="Step·4"><p>The·SVN·version·lacks·all·autotool-generated·files.·You'll·have·to·create·them·with·your·local·autotools.·RefDB·contains·a·small·script·called·<code·class="filename">autogen.sh</code>·in·its·top-level·directory·which·performs·all·necessary·steps.</p><pre·class="screen">	17	» ····</pre><p>Consider·subscribing·to·the·refdb-cvs·mailing·list·as·you'll·be·notified·about·each·SVN·checkin.</p></li><li·class="step"·title="Step·4"><p>The·SVN·version·lacks·all·autotool-generated·files.·You'll·have·to·create·them·with·your·local·autotools.·RefDB·contains·a·small·script·called·<code·class="filename">autogen.sh</code>·in·its·top-level·directory·which·performs·all·necessary·steps.</p><pre·class="screen">
18	» ······<code·class="prompt">$~/build/refdb·</code>	18	» ······<code·class="prompt">$~/build/refdb·</code>
19	» ······<strong·class="userinput"><code>./autogen.sh</code></strong>	19	» ······<strong·class="userinput"><code>./autogen.sh</code></strong>
20	» ····</pre><div·class="note"·title="Note"·style="margin-left:·0.5in;·margin-right:·0.5in;"><h3·class="title">Note</h3><p>The·autotools·can·cause·severe·headaches·at·times.·If·the·above·command·causes·errors,·read·<code·class="filename">autogen.sh</code>·and·run·the·commands·manually,·substituting·different·versions·as·appropriate.·E.g.·substitute·<span·class="command"><strong>automake</strong></span>·with·<span·class="command"><strong>automake-1.8</strong></span>·if·this·gives·better·results.·The·native·autotools·shipped·with·FreeBSD·5.4·and·later·are·unusable·for·our·purposes,·you·have·to·install·the·gnu-autotools·package·instead.·You·have·to·modify·your·<code·class="envar">PATH</code>·to·pick·up·the·latter,·and·fiddle·with·the·m4·macro·paths·in·order·to·see·the·light.</p></div></li><li·class="step"·title="Step·5"><p>The·SVN·version·also·lacks·a·few·other·things·which·are·included·in·the·source·tarballs.·In·order·to·create·the·missing·stuff,·you'll·need·the·following·additional·tools:</p><div·class="itemized·✂	20	» ····</pre><div·class="note"·title="Note"·style="margin-left:·0.5in;·margin-right:·0.5in;"><h3·class="title">Note</h3><p>The·autotools·can·cause·severe·headaches·at·times.·If·the·above·command·causes·errors,·read·<code·class="filename">autogen.sh</code>·and·run·the·commands·manually,·substituting·different·versions·as·appropriate.·E.g.·substitute·<span·class="command"><strong>automake</strong></span>·with·<span·class="command"><strong>automake-1.8</strong></span>·if·this·gives·better·results.·The·native·autotools·shipped·with·FreeBSD·5.4·and·later·are·unusable·for·our·purposes,·you·have·to·install·the·gnu-autotools·package·instead.·You·have·to·modify·your·<code·class="envar">PATH</code>·to·pick·up·the·latter,·and·fiddle·with·the·m4·macro·paths·in·order·to·see·the·light.</p></div></li><li·class="step"·title="Step·5"><p>The·SVN·version·also·lacks·a·few·other·things·which·are·included·in·the·source·tarballs.·In·order·to·create·the·missing·stuff,·you'll·need·the·following·additional·tools:</p><div·class="itemized·✂
21	» » <span·class="command"><strong>ln·-s·/etc/init.d/refdb·/etc/rc0.d/K20refdb</strong></span>	21	» » <span·class="command"><strong>ln·-s·/etc/init.d/refdb·/etc/rc0.d/K20refdb</strong></span>
22	» ······</p><p>	22	» ······</p><p>
23	» » <span·class="command"><strong>ln·-s·/etc/init.d/refdb·/etc/rc6.d/K20refdb</strong></span>	23	» » <span·class="command"><strong>ln·-s·/etc/init.d/refdb·/etc/rc6.d/K20refdb</strong></span>
24	» ······</p></li><li·class="step"·title="Step·5"><p>Review·the·settings·in·the·script·<code·class="filename">refdbctl</code>·which·by·default·is·installed·in·<code·class="filename">/usr/local/bin/</code>.·Most·likely·the·script·was·properly·customized·for·your·system·in·the·build·step·so·you·don't·have·to·change·anything.</p></li></ol></div><p>When·you·boot,·halt,·or·reboot·the·system·you·should·see·messages·on·the·screen·telling·you·that·the·daemon·has·been·started·or·stopped·successfully.·If·you·don't,·please·check·again·all·paths·in·the·scripts,·the·file·permissions,·and·the·runlevels·you're·looking·at.·Try·to·run·the·control·script·from·the·command·line,·e.g.·<span·class="command"><strong>refdbctl·start</strong></span>,·to·distinguish·between·general·setup·problems·and·init-related·setup·problems.</p></div><div·class="sect4"·title="BSD-style"><div·class="titlepage"><div><div><h5·class="title"><a·id="idp597~~8437~~6"></a>BSD-style</h5></div></div></div><p>The·following·procedure·describes·the·installation·on·a··✂	24	» ······</p></li><li·class="step"·title="Step·5"><p>Review·the·settings·in·the·script·<code·class="filename">refdbctl</code>·which·by·default·is·installed·in·<code·class="filename">/usr/local/bin/</code>.·Most·likely·the·script·was·properly·customized·for·your·system·in·the·build·step·so·you·don't·have·to·change·anything.</p></li></ol></div><p>When·you·boot,·halt,·or·reboot·the·system·you·should·see·messages·on·the·screen·telling·you·that·the·daemon·has·been·started·or·stopped·successfully.·If·you·don't,·please·check·again·all·paths·in·the·scripts,·the·file·permissions,·and·the·runlevels·you're·looking·at.·Try·to·run·the·control·script·from·the·command·line,·e.g.·<span·class="command"><strong>refdbctl·start</strong></span>,·to·distinguish·between·general·setup·problems·and·init-related·setup·problems.</p></div><div·class="sect4"·title="BSD-style"><div·class="titlepage"><div><div><h5·class="title"><a·id="idp59763896"></a>BSD-style</h5></div></div></div><p>The·following·procedure·describes·the·installation·on·a··✂
25	» ····<code·class="prompt">#~·</code>	25	» ····<code·class="prompt">#~·</code>
26	» ····<strong·class="userinput"><code>./configure·--sysconfdir=/etc·\	26	» ····<strong·class="userinput"><code>./configure·--sysconfdir=/etc·\
27	» ····--with-docbook-xsl=/usr/share/sgml/docbook/stylesheet/xsl/nwalsh·\	27	» ····--with-docbook-xsl=/usr/share/sgml/docbook/stylesheet/xsl/nwalsh·\
28	» ····--with-tei-xsl=/usr/local/lib/sgml/stylesheet/xsl</code></strong>	28	» ····--with-tei-xsl=/usr/local/lib/sgml/stylesheet/xsl</code></strong>
29	» ··</pre></div></div><div·class="sect3"·title="FreeBSD"><div·class="titlepage"><div><div><h4·class="title"><a·id="idp59802808"></a>FreeBSD</h4></div></div></div><p>The·BSD·version·of·<span·class="command"><strong>make</strong></span>·cannot·handle·the·autotools-generated·Makefiles·correctly.·Use·gmake·instead,·and·set·CFLAGS=-I/usr/local/include·during·the·configuration·step.·The·full·configure·command,·using·the·default·installation·paths·for·the·accessory·files·and·programs,·looks·like·this:</p><pre·class="screen">	29	» ··</pre></div></div><div·class="sect3"·title="FreeBSD"><div·class="titlepage"><div><div><h4·class="title"><a·id="idp59782328"></a>FreeBSD</h4></div></div></div><p>The·BSD·version·of·<span·class="command"><strong>make</strong></span>·cannot·handle·the·autotools-generated·Makefiles·correctly.·Use·gmake·instead,·and·set·CFLAGS=-I/usr/local/include·during·the·configuration·step.·The·full·configure·command,·using·the·default·installation·paths·for·the·accessory·files·and·programs,·looks·like·this:</p><pre·class="screen">
30	» ··<code·class="prompt">#~·</code>	30	» ··<code·class="prompt">#~·</code>
31	» ··<strong·class="userinput"><code>CFLAGS=-I/usr/local/include·./configure·--with-expat-lib=/usr/local/lib·\	31	» ··<strong·class="userinput"><code>CFLAGS=-I/usr/local/include·./configure·--with-expat-lib=/usr/local/lib·\
32	» ··--with-classpath-root=/usr/local/share/java/classes·</code></strong>	32	» ··--with-classpath-root=/usr/local/share/java/classes·</code></strong>
33	» </pre><p>The·shared·data·end·up·in·<code·class="filename">/usr/local/share/refdb</code>,·the·configuration·files·will·be·in·<code·class="filename">/usr/local/etc/refdb</code>.</p></div><div·class="sect3"·title="NetBSD"><div·class="titlepage"><div><div><h4·class="title"><a·id="idp59~~828~~152"></a>NetBSD</h4></div></div></div><p>The·BSD·version·of·<span·class="command"><strong>make</strong></span>·cannot·handle·the·autotools-generated·Makefiles·correctly.·Use·gmake·instead,·and·set·the·following·environment·variables·before·running·<span·class="command"><strong>./configure</strong></span>:</p><pre·class="screen">	33	» </pre><p>The·shared·data·end·up·in·<code·class="filename">/usr/local/share/refdb</code>,·the·configuration·files·will·be·in·<code·class="filename">/usr/local/etc/refdb</code>.</p></div><div·class="sect3"·title="NetBSD"><div·class="titlepage"><div><div><h4·class="title"><a·id="idp59787192"></a>NetBSD</h4></div></div></div><p>The·BSD·version·of·<span·class="command"><strong>make</strong></span>·cannot·handle·the·autotools-generated·Makefiles·correctly.·Use·gmake·instead,·and·set·the·following·environment·variables·before·running·<span·class="command"><strong>./configure</strong></span>:</p><pre·class="screen">
34	» ··<code·class="prompt">#~·</code>	34	» ··<code·class="prompt">#~·</code>
35	» ··<strong·class="userinput"><code>setenv·CFLAGS·"-I/usr/pkg/include·-I/usr/local/include·-L/usr/pkg/lib"</code></strong>	35	» ··<strong·class="userinput"><code>setenv·CFLAGS·"-I/usr/pkg/include·-I/usr/local/include·-L/usr/pkg/lib"</code></strong>
36	» </pre><pre·class="screen">	36	» </pre><pre·class="screen">
37	» ··<code·class="prompt">#~·</code>	37	» ··<code·class="prompt">#~·</code>
38	» ··<strong·class="userinput"><code>setenv·LDFLAGS·"-L/usr/pkg/lib··-R/usr/pkg/lib·-R/usr/pkg/lib/mysql"</code></strong>	38	» ··<strong·class="userinput"><code>setenv·LDFLAGS·"-L/usr/pkg/lib··-R/usr/pkg/lib·-R/usr/pkg/lib/mysql"</code></strong>
39	» </pre><pre·class="screen">	39	» </pre><pre·class="screen">

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