A couple weeks ago I didn't have any issue when using Bibtex on a document where the different parts were included with \include commands, but today I updated Miktex, and now it seems not to work anymore. Now when I compile the main document I get an error message that says

I couldn't open auxiliary file section.aux

---line 3 of file test.aux

: @input{section.aux

: }

I'm skipping whatever remains of this command

Here's a minimal (non)working example : my main file "test.tex" is just


where the file "section.tex" is just

\section{My section}
I need to test the citations, so see \cite{A}.

and the file "reference.bib" just contains one reference. It works like a charm if I add the section directly or if I \input it, but with \include it just gives the error message as above. I tried with different editors (Texniccenter, Texmaker, Texstudio and Texworks) and it seemed to have the same issue each time. What is causing this problem ?

P.S. I've looked at an old version of my document that used to work, and I've noticed a difference in the .aux files : the old version has, near the beginning, a line


whereas in the newer versions it seems that this line has become


I'm not sure it's related or if it makes any sense, but I thought I'd add it in case it made a difference.


This was a short-lived bug in MikTeX 7440 that came as a result of the changes for https://github.com/MiKTeX/miktex/issues/541. See https://github.com/MiKTeX/miktex/issues/546 for the bug report.

The issue was resolved with the MikTeX updates from 2020-05-19. An updated BibTeX that does not have the bug any more identifies as

MiKTeX-BibTeX 2.9.7444 (0.99d) (MiKTeX 2.9.7440 64-bit)

when you call bibtex --version.

| improve this answer | |
  • Great, thanks for reporting the bug ! – Arnaud D. May 20 at 8:22

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