MotionCor2 is a multi- GPU accelerated program which corrects anisotropic image motion at the single pixel level.Ī pipeline for particle detection in cryo-electron microscopy images using convolutional neural networks trained from positive and unlabeled examples. IMOD is a set of image processing, modeling and display programs used for tomographic reconstruction and for 3D reconstruction of EM serial sections and optical sections. As a flexible, multi-purpose application, it includes tools for structure prediction, design, and remodeling of proteins and nucleic acids.Ĭtffind is a program for finding CTFs of electron micrographs.ĮMAN2 is a broadly based greyscale scientific image processing suite with a primary focus on processing data from transmission electron microscopes. Rosetta is the premier software suite for modeling macromolecular structures. This module provides the svFSI (Fluid Solid Interaction) solver.īiopython is a set of freely available tools for biological computation written in Python. Simvascular is a blood flow simulation and analysis toolkit. versions marked with are the default version for the module.versions marked with support MPI parallel execution.versions marked with support GPU acceleration.Some of the modules listed below have been built to support specific architectures or parallel execution modes: Viz data, gis, graphs, imaging, molecular visualization, plotting, remote display System backup, benchmark, checkpointing, cloud interface, compiler, compression, containers, database, document management, document processing, file management, file transfer, framework, hardware, job management, language, libs, media, performance, resource monitoring, scm, shell, tools Physics astronomy, CFD, cliemate modeling, climate modeling, geophysics, geoscience, lib, materials science, micromagnetics, particle, photonics, quantum information science, quantum mechanics Math computational geometry, deep learning, linear algebra, machine learning, numerical analysis, numerical library, optimization, scientific computing, statistics, symbolic, topic modelling We currently provide 508 software modules, in 7 categories, covering 85 fields of science:īiology clinical science, computational biology, cryo-em, genomics, molecular biology, neurology, pathology, phylogenetics, population genetics, radiologyĬhemistry cheminformatics, computational chemistry, crystallography, electrostatics, molecular dynamics, quantum chemistry, toolsĭevel build, compiler, data, data analytics, debug, engine, framework, language, lib, mpi, networking, parser, profiling, runtime See the Modules page for further details and examples. The math and devel categories are loaded by default. It means that you will have to first load a category module before getting access to individual modules. Software modules on Sherlock are organized in categories, by scientific field or functional class. You probably don't need that last patch, since it's targeted at Southern Islands.Never want to miss a software update again? Stay up-to-date with new software updates by following the Sherlock software update RSS feed. The following are the only patches that I have applied that are not yet upstream: bfgminer is still working correctly for 5+ minutes without a single lock-up on my machine. I just retested on my CEDAR with fresh git mesa/llvm. Initialising kernel phatk121016.cl without bitalign, 2 vectors and worksize 128 CL Platform version: OpenCL 1.1 MESA 9.2.0-devel CL Platform 0 version: OpenCL 1.1 MESA 9.2.0-devel configure -libdir=/usr/lib64 -prefix=/usr -enable-, I just experiment OpenCL but I cannot make it with open source tools.Ĭompiled llvm, clang with. I am using OpenSUSE 12.3 x86_64 with 3.9 Kernel and ATI 6850HD GPU. Output of R600_DEBUG=trace_cs,nodma for bfgminer after lockupĭmesg lines that correspond to cs trace in previous attachment GPU Lockup with bfgminer -v1 -benchmark kernel messages
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