So you want to set up a lab: Difference between revisions

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* Passwords.  
* Passwords.  
* SGE
* SGE
== Set up a database server ==
== Add a new node to the cluster ==
== Add new disk to the cluster ==
== Deploy a workstation ==


= Tier 3 - "Middleware" level =
= Tier 3 - "Middleware" level =
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*CCP4
*CCP4
*Chimera and PyMol
*Chimera and PyMol
= Set up psql/rdkit from scratch =




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[[ZINC]]
[[ZINC]]
== Using git and github ==


= Tier 5 - Compuational Pharmacology Application Software - Client side =
= Tier 5 - Compuational Pharmacology Application Software - Client side =
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[[Software upgrades]]
[[Software upgrades]]


=== CCP4 ===
=== CCP4 ===
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[[Category:Internal]]
[[Category:Sysadmin]]
[[Category:Sysadmin]]
[[Category:Tutorial]]
[[Category:Tutorial]]
[[Category:Tutorial]]

Revision as of 18:32, 12 March 2014

Here is how I would set up a computational lab, one that could join the worldwide docking.org network.

      • DRAFT IN PROGRESS***

Tier 0 - Requirements and assumptions

This page describes setting up a full 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. You need someone with system administration experience for 100 hours (3 weeks) for the initial set up, and then 1 day a month for maintenance.

Tier 1 - Physical level

We describe an entry level system that can be easily expanded.


Tier 2 - Operating System level

  • Centos 6.3.
  • configure network
  • DNS
  • Foreman
  • Perimeter security.
  • Passwords.
  • SGE


Set up a database server

Add a new node to the cluster

Add new disk to the cluster

Deploy a workstation

Tier 3 - "Middleware" level

Set up middleware for a computational drug discovery lab.

  • SGE
  • CCP4
  • Chimera and PyMol

Set up psql/rdkit from scratch

Tier 4 - Computational Pharmacology Application Software - Server side

DOCK 3.7

SEA

DOCK Blaster

ZINC

Using git and github

Tier 5 - Compuational Pharmacology Application Software - Client side

PyMol

Chimera

Knime

Marvin

InstantJChem

Tier 6 - Operations

Monthly maintenance tasks.

Backups

Security Review

Software upgrades

CCP4

Chimera

H. acquire and install docking.org software

dockenv

I. configure docking.org software

Retrieved from "http://wiki.docking.org/index.php?title=So_you_want_to_set_up_a_lab&oldid=6797"