这里有一个答案：
[https://tex.stackexchange.com/questions/7265/need-aux-file-in-separate-folder](https://tex.stackexchange.com/questions/7265/need-aux-file-in-separate-folder "https://tex.stackexchange.com/questions/7265/need-aux-file-in-separate-folder")
> With MiKTeX and TeX Live you can use --output-directory=dir. This will put all output files including .log and .pdf/.dvi in this directory (and append it to the search path so that auxiliary files are found).
> In MiKTeX you can additionally set --aux-directory=dir which will put only the auxiliary files in this directory.
经测试，TeXLive没有问题，MiKTeX我没有，没有进行测试。
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