Category Archives: Compute Grids

SAGA Hadoop

Introduction Hadoop has become a fixture where big data is concerned but it has been difficult to use in HPC and HTC cluster environments. This is becoming unfortunate as an increasing number of new algorithms assume Hadoop’s an option. I … Continue reading

Posted in Compute Grids, Data Grids, Hadoop, High Throughput Computing (HTC), High Throughput Parallel Computing (HTPC) | 1 Comment

Protected: Grayson – Science Workflow on the Hybrid Grid

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Posted in Compute Grids, condor, Engage VO, GPGPU, grid, High Throughput Computing (HTC), High Throughput Parallel Computing (HTPC), multicore, OSG, RENCI, Uncategorized | Tagged

Amber11 – PMEMD for NVIDIA GPGPU

Molecular Dynamics Proteins are important and their structure complex.  And then they move. The way they move determines how organisms work … or fail. The shape of the protein determines its function so motion means its shape is in flux … Continue reading

Posted in Amber11, Compute Grids, Engage VO, GPGPU, High Throughput Computing (HTC), High Throughput Parallel Computing (HTPC), multicore, OSG, pmemd | Leave a comment

PMEMD for OSG Stats

PMEMD for OSG is live. Gratia statistics for January: All runs are 8-way parallel MPI jobs so we get eight hours of CPU time per hour of wall time.

Posted in Amber9, Compute Grids, condor, Engage VO, High Throughput Computing (HTC), High Throughput Parallel Computing (HTPC), multicore, OSG, pmemd, RENCI, Uncategorized | Leave a comment

On the Open Science Grid Trail

The open science grid is a distributed heterogeneous network of computing clusters. Its infrastructure and protocols allow members to submit high throughput compute jobs for remote execution. All use is authenticated and authorized via a PKI infrastructure which associates jobs … Continue reading

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Engage Submit Host Architecture

Engage users log in to the submit host to run jobs on the OSG. It needs to move to a platform with better administrative support. It’s time to do some archaeology to find out what’s there then build a new … Continue reading

Posted in Compute Grids, condor, Engage VO, Globus, grid, High Throughput Computing (HTC), High Throughput Parallel Computing (HTPC), OSG, RENCI | Leave a comment

High Throughput Parallel Molecular Dynamics on OSG

The Goal RENCI’s working with researchers interested in running high throughput parallel molecular dynamics simulations on OSG. Amber9 PMEMD The program we’d like to execute is called PMEMD (Particle Mesh Ewald Molecular Dynamics). PMEMD is a high-performance, parallel component of … Continue reading

Posted in Amber9, Compute Grids, condor, Continuous Integration (CI), Engage VO, grid, High Throughput Computing (HTC), High Throughput Parallel Computing (HTPC), multicore, OSG, pmemd, RENCI | Leave a comment