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• GPU DOCK
  ...GPU acceleration via CUDA. Currently (as of April 2023) GPU DOCK uses the GPU for parallel scoring and only supports Van der Waals, electrostatics, and s =Running and Building GPU DOCK=
  20 KB (3,437 words) - 20:50, 22 April 2023

Page text matches

• Gpus
  There is a separate queue gpu.q to manage jobs To log in interactively to the gpu queue:
  4 KB (552 words) - 22:30, 30 March 2023
• HP Computer Startup Issues
  6 Beeps - GPU Issue
  437 bytes (70 words) - 00:05, 9 September 2016
• FastROCS
  ...tically split the search into many parallel searches depending on how many GPU are there. '''This needs to take place in a GPU-enabled computer'''
  2 KB (228 words) - 20:23, 7 October 2022
• GPU DOCK
  ...GPU acceleration via CUDA. Currently (as of April 2023) GPU DOCK uses the GPU for parallel scoring and only supports Van der Waals, electrostatics, and s =Running and Building GPU DOCK=
  20 KB (3,437 words) - 20:50, 22 April 2023
• How to Install a Desktop on Cluster 2
  ...ror with puppet script?). If so, then you must install them manually (see GPU Issues in 'Troubleshooting installation issues' below). ===GPU Issues===
  10 KB (1,446 words) - 23:37, 19 November 2018
• Set up a Server
  == GPU == | GPU Name Persistence-M| Bus-Id Disp.A | Volatile Uncorr. ECC |
  11 KB (1,504 words) - 03:03, 8 July 2022
• Minimize protein-ligand complex with AMBER
  ==Step 4. Run minimization using the amber program PMEMD.cuda on a GPU machine == #\$ -q gpu.q
  7 KB (1,147 words) - 01:34, 15 December 2018
• Schrodinger
  qargs: -q gpu.q -pe local %NPROC% -l gpu=1 qargs: -q gpu.q -pe local %NPROC% -l gpu=1
  15 KB (2,301 words) - 19:07, 18 March 2024
• AutoQSAR/DeepChem for billions of molecules
  Model training requires GPU thus will be on gimel5 #SBATCH --partition=gimel5.gpu
  6 KB (988 words) - 19:12, 12 March 2021
• PuppetTricks
  ...host group. Then, all nodes now have the proper SELinux permission to run GPU jobs!
  8 KB (1,165 words) - 00:45, 28 April 2022
• Tutorial on running Molecular Dynamics for GIST grid generation with scripts 2
  # CUDA for GPU
  5 KB (793 words) - 16:26, 3 May 2017
• Tutorial on running Molecular Dynamics for GIST grid generation
  #$ -q gpu.q # on-one-gpu is a used in the Shoichet lab for managing our gpus and may be removed.
  26 KB (4,023 words) - 00:21, 5 March 2019
• FEP+ for GPCR
  * Replace the gimel-biggpu in the written out simulation job with the correct gpu location, gimel5.heavygpu then transfer (scp) the simulation job to gimel2,
  5 KB (754 words) - 19:55, 8 February 2024
• SELinux notes
  Around Spring of 2019, I had a huge amount of issues with Schrodinger GPU jobs failing for apparently little reason. The failures occurred on the co
  5 KB (898 words) - 18:08, 1 July 2019
• Slurm
  Reminder: If a GPU Node, add nvidia packages in foreman's puppet classes.
  11 KB (1,517 words) - 23:06, 7 February 2023
• Tutorial on running Molecular Dynamics for GIST grid generation with scripts
  # CUDA for GPU # This script writes a submission script to run amber MD on a GPU cluster.
  49 KB (7,168 words) - 00:18, 9 November 2017