We present a Python extension to the massively parallel HPC framework WALBERLA. WALBERLA is a framework for stencil based algorithms operating on block-structured grids, with the main application field being fluid simulations in complex geometries using the lattice Boltzmann method. Careful performance engineering results in good scalability to over 400,000 cores. To increase the usability and ...

— Over the years, large scientific code packages have been successfully developed using FORTRAN. Today, maintaining and extending these codes is a challenging task and often forbids several possibilities. Rewriting legacy code packages is almost prohibitive due to lacking resources and inertia against changing functional codes. One way of tackling these challenges is to integrate scripting lang...

The two language approach to software development has been investigated by several language designers. The primary hypothesis of such an approach being that both strong compile-time type checking and loose run-time type checking are desirable in evolutionary software development. Java is a strongly typed language which offers performance, robustness and modularity as such, while Python is a wea...

We present the SimCore parallel simulation library, an object-oriented framework for developing parallel distributed discrete-event simulation applications, implemented in C++ with a Python front-end. SimCore is designed to scale to thousands of processors but is simple enough to use for application programmers, an outcome of its fast C++ core and message passing routines integrated with the fu...

BACKGROUND Scripting languages such as Python are ideally suited to common programming tasks in cheminformatics such as data analysis and parsing information from files. However, for reasons of efficiency, cheminformatics toolkits such as the OpenBabel toolkit are often implemented in compiled languages such as C++. We describe Pybel, a Python module that provides access to the OpenBabel toolki...

In recent years, Python has made great inroads as an introductory language in computer science education, but few emphasize its object-oriented nature; it is most often introduced with a procedural paradigm. For those teaching object orientation in CS1, Java remains the predominant language. We suggest that Python is an excellent choice for teaching an object-oriented CS1. Based on our experien...

Computer-aided diagnosis of neural diseases from EEG signals (or other physiological signals that can be treated as time series, e.g., MEG) is an emerging field that has gained much attention in past years. Extracting features is a key component in the analysis of EEG signals. In our previous works, we have implemented many EEG feature extraction functions in the Python programming language. As...

Scientific computing is usually associated with compiled languages for maximum efficiency. However, in a typical application program, only a small part of the code is time–critical and requires the efficiency of a compiled language. It is often advantageous to use interpreted high–level languages for the remaining tasks, adopting a mixed–language approach. This will be demonstrated for Python, ...

This paper presents the design and implementation of a complete embedded Python run-time system for the ARM Cortex-M3 microcontroller. The Owl embedded Python run-time system introduces several key innovations, including a toolchain that is capable of producing relocatable memory images that can be utilized directly by the run-time system and a novel foreign function interface that enables the ...

Snake venom is a complex mixture of proteins, peptides, enzymes, carbohydrates, and minerals. They contain a variety of chemicals with pharmacological and toxicological properties. The innate immune system is the first line of defense against toxins and microbes. Antibacterial and anticancer proteins produced by snake venom have recently attracted significant attention due to their relevance to...