Abstract: Rounding errors in finite element computations can lead to a complete loss of accuracy, stalled convergence, and incorrect results. Moreover, the effects of rounding errors accumulated within automatically generated and compiled kernels are difficult to analyze a priori. We present the first software framework for automated rounding error estimation within finite element kernels. The proposed methodology is based on an a posteriori technique called Running Error Analysis (REA), where a forward error estimate is automatically computed concurrently with the value. An open-source implementation is provided for the FEniCS Form Compiler (FFCx), based on a C++ backend for generating type-generic templated kernels over a custom arithmetic type that tracks both the value and its error estimate. We demonstrate REA on two examples. First, we use it to detect catastrophic cancellation in the assembly of a Neo-Hooke hyperelastic model in the small deformation regime. A series expansion circumvents the cancellation problem and the computed error estimates show this. Second, we study the assembly of the Laplace operator on a near-degenerate mesh. We demonstrate that our REA implementation typically incurs only 2-4x performance overhead. Applications of this work include robust reduced-precision computations in embedded systems, numerical debugging of new, possibly ill-conditioned or unstable PDE formulations, and guiding the design of mixed-precision kernels.