FastROCS: Difference between revisions

From DISI
Jump to navigation Jump to search
Line 14: Line 14:


===Running query on FastROCS server===
===Running query on FastROCS server===
Any computer
====1. Set up virtual environment====
====1. Set up virtual environment====
  cd /nfs/home/khtang/ex9/openeye/FastROCS
  cd /nfs/home/khtang/ex9/openeye/FastROCS

Revision as of 19:11, 20 March 2019

Overview

FastROCS is an virtual screening tool using shape comparison for potential actives discovery. It is vastly improved of ROCS in term of speed. It could automatically split the search into many parallel searches depending on how many GPU are there.

Tutorials

Install FastROCS

See Openeye python libraries There is also an installation guide on OpenEye website for alternatives. Click here

(Admin-only) Setting up FastROCS server

This needs to take place in a GPU-enabled computer

 View FastROCS Server

Running query on FastROCS server

Any computer

1. Set up virtual environment

cd /nfs/home/khtang/ex9/openeye/FastROCS
source ./source_venv

2. Run search

ShapeDatabaseClient.py [-h] [--tversky] [--shapeOnly]
                             [--alternativeStarts {random,subrocs,inertialAtHeavyAtoms,inertialAtColorAtoms}]
                             server:port query results [nHits]
example: ShapeDatabaseClient.py n-9-34.cluster.ucsf.bkslab.org:8080 ZINC000000002837.sdf result.sdf