NAME
bibclean - prettyprint and syntax check BibTeX and Scribe bibliography data base filesSYNOPSIS
bibclean
[ -author ] [
-error-log filename ] [
-help ] [ -? ] [
-init-file filename ] [
-long-field fieldname ] [
-max-width nnn ] [
-[no-]align-equals ] [
-[no-]check-values ] [
-[no-]delete-empty-values ] [
-[no-]file-position ] [
-[no-]fix-font-changes ] [
-[no-]fix-initials ] [ -[no-]fix-names ]
[ -[no-]German-style ] [
-[no-]keep-linebreaks ] [
-[no-]keep-parbreaks ] [
-[no-]keep-preamble-spaces ] [
-[no-]keep-spaces ] [
-[no-]keep-string-spaces ] [
-[no-]parbreaks ] [ -[no-]prettyprint ]
[ -[no-]print-patterns ] [
-[no-]read-init-files ] [
-[no-]remove-OPT-prefixes ] [
-[no-]scribe ] [
-[no-]trace-file-opening ] [
-[no-]warnings ] [ -version ] (
<infile | bibfile1 bibfile2 bibfile3 ... )
>outfile
All options can be abbreviated to a unique leading prefix.
An explicit file name of ``-'' represents standard input; it is assumed if no
input files are specified.
DESCRIPTION
bibclean prettyprints input BibTeX files to stdout, and checks the brace balance and bibliography entry syntax as well. It can be used to detect problems in BibTeX files that sometimes confuse even BibTeX itself, and importantly, can be used to normalize the appearance of collections of BibTeX files. Here is a summary of the formatting actions:- •
- BibTeX items are formatted into a consistent structure with one field = "value" pair per line, and the initial @ and trailing right brace in column 1.
- •
- Tabs are expanded into blank strings; their use is discouraged because they inhibit portability, and can suffer corruption in electronic mail.
- •
- Long string values are split at a blank and continued onto the next line with leading indentation.
- •
- A single blank line separates adjacent bibliography entries.
- •
- Text outside BibTeX entries is passed through verbatim.
- •
- Outer parentheses around entries are converted to braces.
- •
- Personal names in author and editor field values are normalized to the form ``P. D. Q. Bach'', from ``P.D.Q. Bach'' and ``Bach, P.D.Q.''.
- •
- Hyphen sequences in page numbers are converted to en-dashes.
- •
- Month values are converted to standard BibTeX string abbreviations.
- •
- In titles, sequences of upper-case characters at brace level zero are braced to protect them from being converted to lower-case letters by some bibliography styles.
- •
- CODEN, ISBN (International Standard Book Number) and ISSN (International Standard Serial Number) entry values are examined to verify the checksums of each listed number, and correct ISBN hyphenation is automatically supplied.
OPTIONS
Command-line switches may be abbreviated to a unique leading prefix, and letter case is not significant. All options are parsed before any input bibliography files are read, no matter what their order on the command line. Options that correspond to a yes/no setting of a flag have a form with a prefix "no-" to set the flag to no. For such options, the last setting determines the flag value used. This is significant when options are also specified in initialization files (see the INITIALIZATION FILES manual section). The leading hyphen that distinguishes an option from a filename may be doubled, for compatibility with GNU and POSIX conventions. Thus, -author and --author are equivalent. To avoid confusion with options, if a filename begins with a hyphen, it must be disguised by a leading absolute or relative directory path, e.g., /tmp/-foo.bib or ./-foo.bib.- -author
- Display an author credit on the standard error unit, stderr, and then exit with a success return code. Sometimes an executable program is separated from its documentation and source code; this option provides a way to recover from that.
- -error-log filename
- Redirect stderr to the indicated file, which will then contain all of the error and warning messages. This option is provided for those systems that have difficulty redirecting stderr.
- -help or -?
- Display a help message on stderr, giving a usage description, similar to this section of the manual pages, and then exit with a success return code.
- -init-file filename
- Provide an explicit value pattern initialization file. It will be processed after any system-wide and job-wide initialization files, and may override them. It in turn may be overridden by a subsequent file-specific initialization file. For further details, see the INITIALIZATION FILES manual section.
- -long-field fieldname
- Suppress warnings that field named fieldname have lenghts exceeding the standard BibTeX limits. NB! This is a Debian-specific extension!
- -max-width nnn
- bibclean normally limits output line widths to 72 characters, and in the interests of consistency, that value should not be changed. Occasionally, special-purpose applications may require different maximum line widths, so this option provides that capability. The number following the option name can be specified in decimal, octal (starting with 0), or hexadecimal (starting with 0x). A zero or negative value is interpreted to mean unlimited, so -max-width 0 can be used to ensure that each field/value pair appears on a single line.
- When -no-prettyprint requests bibclean to act as a lexical analyzer, the default line width is unlimited, unless overridden by this option.
- When bibclean is prettyprinting, line wrapping will be done only at a space. Consequently, a long non-blank character sequence may result in the output exceeding the requested line width.
- When bibclean is lexing, line wrapping is done by inserting a backslash-newline pair when the specified maximum is reached, so no line length will ever exceed the maximum.
- -[no-]align-equals
- With the positive form, align the equals sign in key/value assignments at the same column, separated by a single space from the value string. Otherwise, the equals sign follows the key, separated by a single space. Default: no.
- -[no-]check-values
- With the positive form, apply heuristic pattern matching to field values in order to detect possible errors (e.g., `` year = "192"'' instead of `` year = "1992"''), and issue warnings when unexpected patterns are found.
- This checking is usually beneficial, but if it produces too many bogus warnings for a particular bibliography file, you can disable it with the negative form of this option. Default: yes.
- -[no-]delete-empty-values
- With the positive form, remove all field/value pairs for which the value is an empty string. This is helpful in cleaning up bibliographies generated from text editor templates. Compare this option with -[no-]remove-OPT-prefixes described below. Default: no.
- -[no-]file-position
- With the positive form, give detailed file position information in warning and error messages. Default: no.
- -[no-]fix-font-changes
- With the positive form, supply an additional brace level around font changes in titles to protect against downcasing by some BibTeX styles. Font changes that already have more than one level of braces are not modified.
- For example, if a title contains the Latin phrase {\em Dictyostelium Discoideum} or {\em {D}ictyostelium {D}iscoideum}, then downcasing will incorrectly convert the phrase to lower-case letters. Most BibTeX users are surprised that bracing the initial letters does not prevent the downcase action. The correct coding is {{\em Dictyostelium Discoideum}}. However, there are also legitimate cases where an extra level of bracing wrongly protects from downcasing. Consequently, bibclean will normally not supply an extra level of braces, but if you have a bibliography where the extra braces are routinely missing, you can use this option to supply them.
- If you think that you need this option, it is strongly recommended that you apply bibclean to your bibliography file with and without -fix-font-changes, then compare the two output files to ensure that extra braces are not being supplied in titles where they should not be present. You will have to decide which of the two output files is the better choice, then repair the incorrect title bracing by hand.
- Since font changes in titles are uncommon, except for cases of the type which this option is designed to correct, it should do more good than harm. Default: no.
- -[no-]fix-initials
- With the positive form, insert a space after a period following author initials. Default: yes.
- -[no-]fix-names
- With the positive form, reorder author and editor name lists to remove commas at brace level zero, placing first names or initials before last names. Default: yes.
- -[no-]German-style
- With the positive form, interpret quote characters ["] inside braced value strings at brace level 1 according to the conventions of the TeX style file german.sty, which overloads quote to simplify input and representation of German umlaut accents, sharp-s (es-zet), ligature separators, invisible hyphens, raised/lowered quotes, French guillemets, and discretionary hyphens. Recognized character combinations will be braced to prevent BibTeX from interpreting the quote as a string delimiter.
- Quoted strings receive no special handling from this option, and since German nouns in titles must anyway be protected from the downcasing operation of most BibTeX bibliography styles, German value strings that use the overloaded quote character can always be entered in the form "{...}", without the need to specify this option at all.
- Default: no.
- -[no-]keep-linebreaks
- Normally, line breaks inside value strings are collapsed into a single space, so that long value strings can later be broken to provide lines of reasonable length.
- With the positive form, linebreaks are preserved in value strings. If -max-width is set to zero, this preserves the original line breaks. Spacing outside value strings remains under bibclean's control, and is not affected by this option.
- Default: no.
- -[no-]keep-parbreaks
- With the positive form, preserve paragraph breaks (either formfeeds, or lines containing only spaces) in value strings. Normally, paragraph breaks are collapsed into a single space. Spacing outside value strings remains under bibclean's control, and is not affected by this option. Default: no.
- -[no-]keep-preamble-spaces
- With the positive form, preserve all whitespace in @Preamble{...} entries. Default: no.
- -[no-]keep-spaces
- With the positive form, preserve all spaces in value strings. Normally, multiple spaces are collapsed into a single space. This option can be used together with -keep-linebreaks, -keep-parbreaks, and -max-width 0 to preserve the form of value strings while still providing syntax and value checking. Spacing outside value strings remains under bibclean's control, and is not affected by this option. Default: no.
- -[no-]keep-string-spaces
- With the positive form, preserve all whitespace in @String{...} entries. Default: no.
- -[no-]parbreaks
- With the negative form, a paragraph break (either a formfeed, or a line containing only spaces) is not permitted in value strings, or between field/value pairs. This may be useful to quickly trap runaway strings arising from mismatched delimiters. Default: yes.
- -[no-]prettyprint
- Normally, bibclean functions as a prettyprinter. However, with the negative form of this option, it acts as a lexical analyzer instead, producing a stream of lexical tokens. See the LEXICAL ANALYSIS manual section for further details. Default: yes.
- -[no-]print-patterns
- With the positive form, print the value patterns read from initialization files as they are added to internal tables. Use this option to check newly-added patterns, or to see what patterns are being used.
- These patterns are the ones that will be used in checking value strings for valid syntax, and all of them are specified in initialization files, rather than hard-coded into the program. For further details, see the INITIALIZATION FILES manual section. Default: no.
- -[no-]read-init-files
- With the negative form, suppress loading of system-, user-, and file-specific initialization files. Initializations will come only from those files explicitly given by -init-file filename options. Default: yes.
- -[no-]remove-OPT-prefixes
- With the positive form, remove the ``OPT'' prefix from each field name where the corresponding value is not an empty string. The prefix ``OPT'' must be entirely in upper-case to be recognized.
- This option is for bibliographies generated with the help of the GNU Emacs BibTeX editing support, which generates templates with optional fields identified by the ``OPT'' prefix. Although the function M-x bibtex-remove-OPT normally bound to the keystrokes C-c C-o does the job, users often forget, with the result that BibTeX does not recognize the field name, and ignores the value string. Compare this option with -[no-]delete-empty-values described above. Default: no.
- -[no-]scribe
- With the positive form, accept input syntax conforming to the Scribe document system. The output will be converted to conform to BibTeX syntax. See the SCRIBE BIBLIOGRAPHY FORMAT manual section for further details. Default: no.
- -[no-]trace-file-opening
- With the positive form, record in the error log file the names of all files which bibclean attempts to open. Use this option to identify where initialization files are located. Default: no.
- -[no-]warnings
- With the positive form, allow all warning messages. The negative form is not recommended since it may mask problems that should be repaired. Default: yes.
- -version
- Display the program version number on stderr, and then exit with a success return code. This will also include an indication of who compiled the program, the host name on which it was compiled, the time of compilation, and the type of string-value matching code selected, when that information is available to the compiler.
ERROR RECOVERY AND WARNINGS
When bibclean detects an error, it issues an error message to both stderr and stdout. That way, the user is clearly notified, and the output bibliography also contains the message at the point of error. Error messages begin with a distinctive pair of queries, ??, beginning in column 1, followed by the input file name and line number. If the -file-position option was specified, they also contain the input and output positions of the current file, entry, and value. Each position includes the file byte number, the line number, and the column number. In the event of a runaway string argument, the entry and value positions should precisely pinpoint the erroneous bibliography entry, and the file positions will indicate where it was detected, which may be rather later in the files. Warning messages identify possible problems, and are therefore sent only to stderr, and not to stdout, so they never appear in the output file. They are identified by a distinctive pair of percents, %%, beginning in column 1, and as with error messages, may be followed by file position messages if the -file-position option was specified. For convenience, the first line of each error and warning message sent to stderr is formatted according to the expectations of the GNU Emacs next-error command. You can invoke bibclean with the Emacs M-x compile<RET>bibclean filename.bib >filename.new command, then use the next-error command, normally bound to C-x ` (that's a grave, or back, accent), to move to the location of the error in the input file. If error messages are ignored, and left in the output bibliography file, they will precipitate an error when the bibliography is next processed with BibTeX. After issuing an error message, bibclean then resynchronizes its input by copying it verbatim to stdout until a new bibliography entry is recognized on a line in which the first non-blank character is an at-sign (@). This ensures that nothing is lost from the input file(s), allowing corrections to be made in either the input or the output files. However, if bibclean detects an internal error in its data structures, it will terminate abruptly without further input or output processing; this kind of error should never happen, and if it does, it should be reported immediately to the author of the program. Errors in initialization files, and running out of dynamic memory, will also immediately terminate bibclean.INITIALIZATION FILES
bibclean can be compiled with one of three different types of pattern matching; the choice is made by the installer at compile time:- •
- The original version uses explicit hand-coded tests of value-string syntax.
- •
- The second version uses regular-expression pattern-matching host library routines together with regular-expression patterns that come entirely from initialization files.
- •
- The third version uses special patterns that come entirely from initialization files.
% This is a small bibclean initialization file -init-file /u/math/bib/.bibcleanrc %% departmental patterns chapter = "\"D\"" %% 23 pages = "\"D--D\"" %% 23--27 volume = "\"D \\an\\d D\"" %% 11 and 12 year = \ "\"dddd, dddd, dddd\"" \ "Multiple years specified." %% 1989, 1990, 1991 -no-fix-names %% do not modify author/editor listsLong logical lines can be split into multiple physical lines by breaking at a backslash-newline pair; the backslash-newline pair is discarded. This processing happens while characters are being read, before any further interpretation of the input stream. Each logical line must contain a complete option (and its value, if any), or a complete field/pattern pair, or a field/pattern/message triple. Comments are stripped during the parsing of the field, pattern, and message values. The comment start symbol is not recognized inside quoted strings, so it can be freely used in such strings. Comments on logical lines that were input as multiple physical lines via the backslash-newline convention must appear on the last physical line; otherwise, the remaining physical lines will become part of the comment. Pattern strings must be enclosed in quotation marks; within such strings, a backslash starts an escape mechanism that is commonly used in UNIX software. The recognized escape sequences are:
- \a
- alarm bell (octal 007)
- \b
- backspace (octal 010)
- \f
- formfeed (octal 014)
- \n
- newline (octal 012)
- \r
- carriage return (octal 015)
- \t
- horizontal tab (octal 011)
- \v
- vertical tab (octal 013)
- \ooo
- character number octal ooo (e.g \012 is linefeed). Up to 3 octal digits may be used.
- \0xhh
- character number hexadecimal hh (e.g., \0x0a is linefeed). xhh may be in either letter case. Any number of hexadecimal digits may be used.
pages="\"D--D\"" pages:"\"D--D\"" pages "\"D--D\"" pages = "\"D--D\"" pages : "\"D--D\"" pages "\"D--D\""Each field name can have an arbitrary number of patterns associated with it; however, they must be specified in separate field/pattern assignments. An empty pattern string causes previously-loaded patterns for that field name to be forgotten. This feature permits an initialization file to completely discard patterns from earlier initialization files. Patterns for value strings are represented in a tiny special-purpose language that is both convenient and suitable for bibliography value-string syntax checking. While not as powerful as the language of regular-expression patterns, its parsing can be portably implemented in less than 3% of the code in a widely-used regular-expression parser (the GNU regexp package). The patterns are represented by the following special characters:
- <space>
- one or more spaces
- a
- exactly one letter
- A
- one or more letters
- d
- exactly one digit
- D
- one or more digits
- r
- exactly one Roman numeral
- R
- one or more Roman numerals (i.e. a Roman number)
- w
- exactly one word (one or more letters and digits)
- W
- one or more space-separated words, beginning and ending with a word
- .
- one `special' character, one of the characters <space>!#()*+,-./:;?[]~, a subset of punctuation characters that are typically used in string values
- :
- one or more `special' characters
- X
- one or more `special'-separated words, beginning and ending with a word
- \x
- exactly one x (x is any character), possibly with an escape sequence interpretation given earlier
- x
- exactly the character x (x is anything but one of these pattern characters: aAdDrRwW.:<space>\)
number = "\"D\"" %% 23 number = "\"A AD\"" %% PN LPS5001 number = "\"A D(D)\"" %% RJ 34(49) number = "\"A D\"" %% XNSS 288811 number = "\"A D\\.D\"" %% Version 3.20 number = "\"A-A-D-D\"" %% UMIAC-TR-89-11 number = "\"A-A-D\"" %% CS-TR-2189 number = "\"A-A-D\\.D\"" %% CS-TR-21.7For a bibliography that contains only article entries, this list should probably be reduced to just the first pattern, so that anything other than a digit string fails the pattern-match test. This is easily done by keeping bibliography-specific patterns in a corresponding file with extension .ini, since that file is read automatically. You should be sure to use empty pattern strings in this pattern file to discard patterns from earlier initialization files. The value strings passed to the pattern matcher contain surrounding quotes, so the patterns should also. However, you could use a pattern specification like "\"D" to match an initial digit string followed by anything else; the omission of the final quotation mark \" in the pattern allows the match to succeed without checking that the next character in the value string is a quotation mark. Because the value strings are intended to be processed by TeX, the pattern matching ignores braces, and TeX control sequences, together with any space following those control sequences. Spaces around braces are preserved. This convention allows the pattern fragment A-AD-D to match the value string TN-K\slash 27-70, because the value is implicitly collapsed to TN-K27-70 during the matching operation. bibclean's normal action when a string value fails to match any of the corresponding patterns is to issue a warning message something like this: "Unexpected value in ``year = "192"''. In most cases, that is sufficient to alert the user to a problem. In some cases, however, it may be desirable to associate a different message with a particular pattern. This can be done by supplying a message string following the pattern string. Format items %% (single percent), %e (entry name), %f (field name), %k (citation key), and %v (string value) are available to get current values expanded in the messages. Here is an example:
chapter = "\"D:D\"" "Colon found in ``%f = %v''" %% 23:2To be consistent with other messages output by bibclean, the message string should not end with punctuation. If you wish to make the message an error, rather than just a warning, begin it with a query (?), like this:
chapter = "\"D:D\"" "?Colon found in ``%f = %v''" %% 23:2The query will not be included in the output message. Escape sequences are supported in message strings, just as they are in pattern strings. You can use this to advantage for fancy things, such as terminal display mode control. If you rewrite the previous example as
chapter = "\"D:D\"" \ "?\033[7mColon found in ``%f = %v''\033[0m" %% 23:2the error message will appear in inverse video on display screens that support ANSI terminal control sequences. Such practice is not normally recommended, since it may have undesirable effects on some output devices. Nevertheless, you may find it useful for restricted applications. For some types of bibliography fields, bibclean contains special-purpose code to supplement or replace the pattern matching:
- •
- CODEN, ISBN and ISSN field values are handled this way because their validation requires evaluation of checksums that cannot be expressed by simple patterns; no patterns are even used in these three cases.
- •
- chapter, number, pages, and volume values are checked only by pattern matching.
- •
- month values are first checked against the standard BibTeX month abbreviations, and only if no match is found are patterns then used.
- •
- year values are first checked against patterns, then if no match is found, the year numbers are found and converted to integer values for testing against reasonable bounds.
key = "A:Add" %% Knuth:TB86Notice that no quotation marks are included in the pattern, because the citation keys are not quoted. You can use such patterns to help enforce uniform naming conventions for citation keys, which is increasingly important as your bibliography data base grows.
LEXICAL ANALYSIS
When -no-prettyprint is specified, bibclean acts as a lexical analyzer instead of a prettyprinter, producing output in lines of the form<token-number><tab><token-name><tab>"<token-value>"
0 UNKNOWN 1 ABBREV 2 AT 3 COMMA 4 COMMENT 5 ENTRY 6 EQUALS 7 FIELD 8 INCLUDE 9 INLINE 10 KEY 11 LBRACE 12 LITERAL 13 NEWLINE 14 PREAMBLE 15 RBRACE 16 SHARP 17 SPACE 18 STRING 19 VALUE
# line 273 "texbook1.bib"
which record the line number and file name of the current input file.
If a -max-width nnn command-line option was specified, long output
lines will be wrapped at a backslash-newline pair, and consequently, software
that processes the lexical token stream should be prepared to collapse such
wrapped lines back into single lines.
As an example of the use of -no-prettyprint, the UNIX command pipeline
bibclean -no-prettyprint mylib.bib | \ awk '$2 == "KEY" {print $3}' | \ sed -e 's/"//g' | \ sort
SCRIBE BIBLIOGRAPHY FORMAT
bibclean's support for the Scribe bibliography format is based on the syntax description in the Scribe Introductory User's Manual, 3rd Edition, May 1980. Scribe was originally developed by Brian Reid at Carnegie-Mellon University, and is now marketed by Unilogic, Ltd. The BibTeX bibliography format was strongly influenced by Scribe, and indeed, with care, it is possible to share bibliography files between the two systems. Nevertheless, there are some differences, so here is a summary of features of the Scribe bibliography file format:- (1)
- Letter case is not significant in field names and entry names, but case is preserved in value strings.
- (2)
- In field/value pairs, the field and value may be separated by one of three characters: =, /, or space. Space may optionally surround these separators.
- (3)
- Value delimiters are any of these seven pairs: { } [ ] ( ) < > ' ' " " ` `
- (4)
- Value delimiters may not be nested, even though with the first four delimiter pairs, nested balanced delimiters would be unambiguous.
- (5)
- Delimiters can be omitted around values that contain only letters, digits, sharp (#), ampersand (&), period (.), and percent (%).
- (6)
- Outside of delimited values, a literal at-sign (@) is represented by doubled at-signs (@@).
- (7)
- Bibliography entries begin with @name, as for BibTeX, but any of the seven Scribe value delimiter pairs may be used to surround the values in field/value pairs. As in (4), nested delimiters are forbidden.
- (8)
- Arbitrary space may separate entry names from the following delimiters.
- (9)
- @Comment is a special command whose delimited value is discarded. As in (4), nested delimiters are forbidden.
- (10)
- The special form
-
@Begin{comment} ... @End{comment}
- permits encapsulating arbitrary text containing any characters or delimiters, other than ``@End{comment}''. Any of the seven delimiter pairs may be used around the word ``comment'' following the ``@Begin'' or ``@End''; the delimiters in the two cases need not be the same, and consequently, ``@Begin{comment}''/``@End{comment}'' pairs may not be nested.
- (11)
- The key field is required in each bibliography entry.
- (12)
- A backslashed quote in a string will be assumed to be a TeX accent, and braced appropriately. While such accents do not conform to Scribe syntax, Scribe-format bibliographies have been found that appear to be intended for TeX processing.
ENVIRONMENT VARIABLES
- BIBCLEANEXT
- File extension of bibliography-specific initialization files. Default: .ini.
- BIBCLEANINI
- Name of bibclean initialization files. Default: .bibcleanrc.
- BIBINPUTS
- Search path for bibclean and BibTeX input files. This is a colon-separated list of directories that are searched in order from first to last. It is not an error for a specified directory to not exist.
FILES
- *.bib
- BibTeX and Scribe bibliography data base files.
- *.ini
- File-specific initialization files.
- /usr/share/bibcleanrc, /etc/bibcleanrc
- System-wide initialization files.
- .bibcleanrc
- User-specific initialization files.
SEE ALSO
bibcheck(1), bibdup(1), bibextract(1), bibindex(1), bibjoin(1), biblabel(1), biblex(1), biblook(1), biborder(1), bibparse(1), bibsort(1), bibtex(1), bibunlex(1), citefind(1), citesub(1), citetags(1), latex(1), scribe(1), tex(1).AUTHOR
Nelson H. F. Beebe Center for Scientific Computing University of Utah Department of Mathematics, 322 INSCC 155 S 1400 E RM 233 Salt Lake City, UT 84112-0090 USA Tel: +1 801 581 5254 FAX: +1 801 585 1640, +1 801 581 4148 Email: [email protected], [email protected], [email protected] (Internet) URL: http://www.math.utah.edu/~beebeThis Debianization of bibclean was done by Henning Makholm <[email protected]>, and differs from the upstream source in where it looks for the system-wide initialization file (vanilla bibclean expects to find it in $PATH), and has also been patched to ignore the built-in BibTeX field-length limit for abstract fields.
09 May 1998 | Version 2.11.4 |