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So you’re submitting a manuscript to a journal?

You’ve got your fancy LaTeX project all set up nice, the way you like? Separate main, supplement, and bibliography? Cross-refs between them all?

Oh what’s that? You now need to submit a single compilable TeX file for the journal submission?…ugh.

…Annoying would be a generous description of the situation. Rather than manually copying the bib into the main.tex file, and hardening cross-refs between the main.tex and supp.tex, I created a (hacky) solution to generate the single submission file for me on-demand, so that I can still use Overleaf, version control, and modular tex files in development.

The solution is basically a set of tex template files which you fill out, and a Makefile which generates the submission files via some python scripts. Check it out here. The repo is arrogantly named nature-tex.

Once you’ve cloned the repo, you can simply run $ make and you’ll get a “submission” folder which contains the final files you can submit to the journal.

You can edit the template tex files to your liking and run $ make again to generate the files again. If for some reason the compiler runs into trouble or files aren’t updating, you can try $ make clean and hopefully that fixes any issues. More detailed documentation is in the repo.

Good luck with your submissions!