AUX file problems.

[Murat Yildizoglu]

> On 21 Jul 2024, at 17:48, Murat Yildizoglu <myildi at gmail.com> wrote:
> 
> Dear friends, 
> 
> I am importing a LaTeX file from an old LyX file after Claude translated it to English from French (a very good translation of all text in French while preserving the LaTeX instructions). 
> 
> The LaTeX file looks good and I can typeset it manually with pdflatex. But, I want to re-edit it in LyX, and I am meeting a problem with the last version of LyX 2.4.1 and MacTeX 2024 (they are not necessarily the culprit but I have just updated them before doing these operations so they may be relevant in my problem):
> 
> When I compile my imported file, some elements get duplicated in the LaTeX file in the temp folder. In particular, I find duplicated references and bibdata and bibstyle commands in the AUX file. My LyX file has only one bibliography field at the end of the document. Latex generates warnings about these duplications but when I click « Show the output anyway », I get a readable PDF.
> 
> Do you know why compilation duplicates (in fact, triplicates) these elements in the AUX file?
> 
> Thank you very much!
> 
> Murat

I have solved this problem: The source was the default overlay configuration in my preamble. For the slide containing the Bibliography, I changed it to <1>, and the duplication problem has been solved, but now I have another problem: all references point to one of the documents I cite. 

FTI: I use natbib andthe  authordate3 style

I tried to locate the problem by hand: 

0/ I delete AUX and bbl files (also the blg one)
1/ I pdflatex the first time: no strange errors on the logs, I get the standard "Package natbib Warning: Citation `XXX' on page 70 undefined on input line
 377 errors and Package natbib Warning: There were undefined citations..
The AUX file contains:
\citation{Binmore99} 
\citation{Giraud00}
\citation{Umbhauer02}
and also \bibcite{} commands for them (is this normal?)

2/ I run bibtex: no errors in the blg and the bbl contains the correct references
3/ I run pdflatex again: 
Now I continue to have the citation commands but all bibcite commands point to the same reference:
\bibcite{Binmore99}{{1}{1999}{{Binmore}}{{}}}
\bibcite{Giraud00}{{2}{1999}{{Binmore}}{{}}}
\bibcite{Umbhauer02}{{3}{1999}{{Binmore}}{{}}}

and I only get this reference in the PDF of course, instead of full reference set.

I am quite perplexed now about the potential origin of this problem and I am a rather obsessive guy :)

Have you met this problem or do you have any idea about it?

FYI information: when I switch the presentation to beamer Koma script document class, the references are compiled correctly.

My preamble contains (but I have been using it for some time in other documents, but not very recently):

\mode<presentation>
{
\usetheme{Warsaw}
\usecolortheme{lily}
\setbeamercovered{invisible}
\setbeamertemplate{navigation symbols}{}
}
\beamerdefaultoverlayspecification{<+->}
\AtBeginSection[]
{
\begin{frame}<beamer>
\frametitle{Sections :}
\tableofcontents[currentsection]
\end{frame}
}

and the slides with references and the bibliography have the overlay specification <1> in Lyx.


>