SBGrid provides comprehensive system administration support for all Linux computers in the Gaudet and D’Souza labs.
All computers are connected to a private section of the Harvard network.
To reach this network for access to local resources from an external location, please ssh to galactica.mcb.harvard.edu.
New lab members should contact email@example.com to complete their initial setup.
Networking is supported by FAS Research Computing on the Cambridge campus.
Linux computers share authentication and data directories and can only be accessed locally from within the lab.
Home directories are located at
/labdata/<lab initials>/<username> (example:
SBGrid's comprehensive collection of structural biology applications is located in the /programs directory.
Some systems are configured with Stereo 3D.
The cerberus cluster, a 64-core, 2-node compute cluster, runs OpenLava, can be accessed remotely, and is typically used for docking computations and data processing. To access cerberus, ssh to galactica.mcb.harvard.edu.
Please note that your home directories are only visible to your labmates and PI by default. Permissions vary depending on the nature of the directory or files in question. PIs can request modifications to file permissions to suit the lab's needs.
There are 2 printers available, one located in the hallway near room 305 (carmen), the other in the wet lab (vger). For printer problems, please contact firstname.lastname@example.org.
Snapshots of the Linux filesystems are taken every hour and kept for 24 hours on the file server. Additionally, 7 daily snapshots are kept, 8 weeks, and up to 12 months. Data is also replicated to a secondary server. If you need a file restored, please contact email@example.com.
To use nmrviewj you need the NMRViewj configuration files that Victoria created.
These are in
Do the following to copy the files to your home directory:
cp ~vdtest/NMRVIEWJ_CONFIG_FILES/.nvjrc ~/
cp -r ~vdtest/NMRVIEWJ_CONFIG_FILES/HHMI-tclJ ~/
Then start nmrviewj.
Licenses for HKL2000 are limited to one specific system per lab.
D'Souza Lab members can use the following system to run HKL2000:
Gaudet Lab members can use the following system to run HKL2000:
To report Harvard University network problems or for general computing support, contact the Harvard University help desk. If you need to activate a port in the lab for a new SBGrid-supported system, please contact Harvard research computing and cc SBGrid.
Last edited by Mick Timony, 2018-11-21 19:09:53