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The warning indeed comes from the amsmath package. The \over syntax causes technical difficulties for writers of math packages, so the amsmath folks are venting their frustration by redefining \over to print a message, and then act normal. The simplest way to stop this warning from appearing in the output is restore the original definition of \over. ...


Another option is to use LaTeXing plugin, which prints Errors, Warnings and BadBoxes to the console when you build. It is not free and not open source as LaTeXTools, but it offers a free unlimited trial. This question offers some comparison between the two.


beamer adds center to figure which causes nag to complain whatever you do. You could not load nag or if you want to load it you can stop it messing with center \let\zcenter\center \let\zendcenter\endcenter \RequirePackage[l2tabu,orthodox]{nag} \documentclass[aspectratio=43]{beamer} \usepackage{mwe} \usepackage{lmodern} \begin{document} \let\center\zcenter ...

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