Difference between revisions of "So you want to set up a lab"

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= Requirements and assumptions =
 
= Requirements and assumptions =
This page describes setting up a full computational pharmacology research lab. We describe the minimum setup, plus options for expansion. The entry level assumes you can spend $20K on servers and $2K on a workstation, or you already own equivalent or better hardware. You'll need an acoustically insulated air conditioned room.  It would help to have someone with system administration experience for 100 hours (3 weeks) for the initial set up, and then 1 day/month for maintenance.
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This page describes setting up a full computational pharmacology research lab. We describe the minimum setup, plus options for expansion. The entry level assumes you can spend $20K on servers and $2K on a workstation, or you already own equivalent or better hardware. You'll need an acoustically insulated air conditioned room.  It would help to have someone with system administration experience for 100 hours (3 weeks) for the purchase, acquisition and deployment of the hardware and installation of the operating system and software components.  Once running, as a guideline plan for the equivalent of 1 day/month of expert sysadmin time for each 10 computer enclosures to keep your cluster running smoothly.  
  
When you have all the software and hardware, you can get a docking lab up and running at a basic level in less than a day. If you do not have all the software and hardware, it will take longer. If you've never run a molecular docking lab, allow a week to learn the basics.
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When you have all the software and hardware, you can get a docking lab up and running in less than a day. If you have not administered a molecular docking lab before, allow a few months to learn how to take care of it.
  
 
= Physical level =
 
= Physical level =

Revision as of 17:41, 17 March 2014

Here is how I would set up a computational lab, one that could join the Worldwide ZINC network.

Requirements and assumptions

This page describes setting up a full computational pharmacology research lab. We describe the minimum setup, plus options for expansion. The entry level assumes you can spend $20K on servers and $2K on a workstation, or you already own equivalent or better hardware. You'll need an acoustically insulated air conditioned room. It would help to have someone with system administration experience for 100 hours (3 weeks) for the purchase, acquisition and deployment of the hardware and installation of the operating system and software components. Once running, as a guideline plan for the equivalent of 1 day/month of expert sysadmin time for each 10 computer enclosures to keep your cluster running smoothly.

When you have all the software and hardware, you can get a docking lab up and running in less than a day. If you have not administered a molecular docking lab before, allow a few months to learn how to take care of it.

Physical level

We discuss options for acquiring hardware in Cluster Theory. More thoughts: Acquire and deploy hardware

Operating System level

We use Operating system to describe all software components that are not particular to our field. Install operating system

Middleware level

We use middleware to mean 3rd party software required by our software, specific to our field. Set up middleware for a computational drug discovery lab.

Server Application Software

Each product is licensed and distributed separately.

Client Application Software

PyMol

Chimera

Knime

Marvin

InstantJChem

Operations

Monthly maintenance tasks.

Backups

Security review

Software upgrades