biblatex and autonum don't seem to work together in the newest version. Consider the following MWE:
\documentclass{article}
\usepackage[utf8]{inputenc}
\usepackage[backend=biber]{biblatex}
\usepackage{autonum}
\begin{document}
\end{document}
I get the following error messages:
0 File ended while scanning use of \ettl@for@do1
0 pdflatex: \pdfmatch: repetition-operator operand invalid pdfTeX warning: pdflatex: \pdfmatch: repetition-operator operand invalid)Runaway argument?{{\blx@bibdata@i {\blx@tempb }}\blx@bibfiles \eappto \blx@tempa {\blx@xml@comme
After commenting out either biblatex or autonum, the errors disappear.

autonumusesetextoolsthat takes the liberty of redefining\forlistloopin a way that is incompatible with whatbiblatexexpects. I don't recommend usingetextools, nor any package relying on it. – egreg Jan 01 '15 at 22:09autonum(and somemathtoolspackage option) are the only ways of achieving the desired automatic equation numbering, right? – Deniz Jan 01 '15 at 22:15