GROMACS is an important molecular simulation kit, which can do all kinds of “soft matter” simulations like nanotubes, polymer chemistry, zeolites, adsorption studies, proteins, etc. It is being used by researches worldwide and is one of the bigger bio-informatics softwares around. To speed up the computations, GPUs can be used. The big problem is that
We ported GROMACS from CUDA to OpenCL Read More »
A while ago macresearch.com stopped from existing, as David Gohara pulled the plug. Luckily the sources of a very nice tutorial were not lost, and David gave us permission to share his material. Even if you don’t have a MAC, then these almost 5 year old materials are very helpful to understand the basics (and
OpenCL tutorial videos from Mac Research Read More »
We have some embedded devices here, which badly need attention. Some have gotten some private time on the bench, but we did not share anything on the blog yet with our readers. We simply need some extra hands to do this. Because it’s actually cool to do, but admittedly a bit boring when doing several
We’re looking for an intern to do the cool stuff: benchmarking and Linux wizarding Read More »
The research lab LaSEEB (Lisboa, Portugal) is active in the areas of Biomedical Engineering, Computational Intelligence and Evolutionary Systems. They create software using OpenCL and CUDA to speed-up their research and simulations. They were one of the first groups to try out OpenCL, even before StreamHPC existed. To simplify the research at the lab, Nuno
A short story: OpenCL at LaSEEB (Lisboa, Portugal) Read More »
Altera has just released the free ebook FPGAs for dummies. One part of the book is devoted to OpenCL, so we’ll quote some extracts here from one of the chapters. The rest of the book is worth a read, so if you want to check the rest of the text, just fill in the form on Altera’s webpage. In StreamHPC
Why use OpenCL on FPGAs? Read More »
The below table shows the current state of OpenCL, SPIR and HSA for each vendor. [table id=6 /] EP = Embedded Profile, FP = Full Profile.
OpenCL support levels Read More »
The embedded world is so extremely flexible, because it is full of open standards. We therefore expect that big processor vendors will push harder than Google can push back. OpenCL-support is very important for GPGPU-libraries like ArrayFire, VexCL, ViennaCL – these can be ported to Android in less time. Apple now has introduced Metal on
OpenCL support on recent Android smartphones Read More »
When copying data from global to local memory, you often see code like below (1D data): [raw] if (get_group_id(0)==0) { for (int i=0; i < N; i++) { data_local[i] = data_global[offset+i] } } mem_fence(CLK_LOCAL_MEM_FENCE); [/raw] This can be replaced this with an asynchronous copy with the function async_work_group_copy, which results in more manageable and cleaner code. The
Using async_work_group_copy() on 2D data Read More »
When compute became possible on GPUs, it was first presented as an extra feature and did not change much to the positioning of the products by AMD/ATI and Nvidia. NVidia started with positioning server-compute (described as “the GPU without a monitor-connector”), where AMD and Intel followed. When the expensive Geforce GTX Titan and Titan Z
Market Positioning of Graphics and Compute solutions Read More »
Valgrind is a great tool for finding possible memory leaks in code written in C, C++, Java, Perl, Python, assembly code, Fortran, Ada, etc. I use it to check out if the provided code is ok, before I start porting it to GPU-code. It finds one of those devils in the details. But also for
Valgrind suppression file for AMD64 on Linux Read More »