Automatic Test Case Reduction for OpenCL

ABSTRACT We report on an extension to the C-Reduce tool, for automatic reduction of C test cases, to handle OpenCL kernels. This enables an automated method for detecting bugs in OpenCL compilers, by generating large random kernels using the CLsmith generator, identifying kernels that yield result differences across OpenCL platforms and optimisation levels, and using our novel extension to C-Reduce to automatically reduce such kernels to minimal forms that can be filed as bug reports. A major part of our effort involved the design of ShadowKeeper, a new plugin for the Oclgrind simulator that provides accurate detection of accesses to uninitialised data. We present experimental results showing the effectiveness of our method for finding bugs in a number of OpenCL compilers

FPGA Acceleration of Reference-Based Compression for Genomic Data

Abstract-One of the key challenges facing genomics today is efficiently storing the massive amounts of data generated by nextgeneration sequencing platforms. Reference-based compression is a popular strategy for reducing the size of genomic data, whereby sequence information is encoded as a mapping to a known reference sequence. Determining the mapping is a computationally intensive problem, and is the bottleneck of most referencebased compression tools currently available. This paper presents the first FPGA acceleration of reference-based compression for genomic data. We develop a new mapping algorithm based on the FM-index search operation which includes optimisations targeting the compression ratio and speed. Our hardware design is implemented on a Maxeler MPC-X2000 node comprising 8 Altera Stratix V FPGAs. When evaluated against compression tools currently available, our tool achieves a superior compression ratio, compression time, and energy consumption for both FASTA and FASTQ formats. For example, our tool achieves a 30% higher compression ratio and is 71.9 times faster than the fastqz tool

BeauJoh/Oclgrind: Adding AIWC -- An Architecture Independent Workload Characterisation Plugin

This release adds the AIWC -- Architecture Independent Workload Characterisation -- tool as a plugin