\documentclass{scrbook}

\usepackage[T1]{fontenc}
\usepackage{lmodern}
\usepackage[american]{babel}
\usepackage{blindtext}
\usepackage{amsmath}
\usepackage{hyperref}
\usepackage{fancyvrb}
\usepackage{Sweave}

\fvset{listparameters={\setlength{\topsep}{0pt}}}
\renewenvironment{Schunk}{\vspace{\topsep}}{\vspace{\topsep}}

\begin{document}

\input{chapter}

\end{document}