About the CULTURE IV Bioinformatics ServerCULTURE is a personal Bioinformatics server built on Ubuntu 16.04. Culture currently offers local BLAST analysis and EMBOSS. All databases are maintained locally and are updated periodically.
CULTURE IV is a Liquid-Cooled AMD FX-8350 8-core processor running at 4Mhz, with 16Gb RAM. Click here for current operational status.
- SCHEDULED UPDATES:
No Scheduled Updates
Past CULTURE Updates
- December 2013 - R-Studio Server
R-Studio was installed on CULTURE allowing authenticated users to run R
scripts. The ATLAS BLAS library is used for optimal performance.
- June 2013 - Yet Another 50% BLAST
CULTURE was migrated to an AMD FX-8350 8-core 16GB RAM system after
the CULTURE III motherboard died.
- March 2013 - Another 50% BLAST
CULTURE was migrated to a quad-core system with 6Gb RAM. Blast searches
now run approximately 50% faster. Databases were updated as well.
- Sept 3 2012 - Now with 50% more BLAST!
CULTURE's SequenceServer BLAST interface was updated to version 0.8.2
which supports multiprocessor BLASTing - which means BLAST results are now
returning up to 50% faster.
- Aug 22 2012
CULTURE's OS was updated to Ubuntu 12.04. SequenceServer was updated to version 0.8.0, which fixes the database listing issue and facilitates automatic algorithm selection.
- Dec 11 2011
CULTURE was migrated to a significantly faster Core2 Duo-based system on Dec 11 2011. This allowed updates to the OS and core bioinformatics applications. As a result BLAST is now easier and faster thanks to the SequenceServer GUI - and BLASTn is finally fully functional.
- March 22, 2011
- BLAST is now operational, with the exception of the NT database issue (SEGMENTATION FAULTS), which is being addressed
- March 19, 2011
- BLAST is now in test mode following installation of a 0.5Tb drive containing most of the NCBI BLAST databases
- March 14, 2011
- EMBOSS fdnapars and other molecular phylogenetic routines are now functional again thanks to the dedication of the EMBOSS team, who came through with brand-new binaries
- TRANSFAC databases was added; searching for transcription factor binding sites via TFSCAN now works
- March 7, 2011
Numerous updates, including:- Updated OS to Ubuntu 10.10
- Upgraded RAM to 2Gb
- Implemented additional security protocols
- Added REBASE database to EMBOSS (restriction algorithms now functional)
- Added PROSITE database to EMBOSS (protein pattern search algorithms now functional)
- Added PRINTS database to EMBOSS (pscan promotor search algorithms now functional)
- Installed BLAST services; BLAST2 is fully operational; standard BLAST is currently offline pending installation of an additional hard drive to house the NCBI BLAST databases.
- February 6, 2011
CULTURE moved to secure location.
- February 1, 2011
CULTURE first goes online. Initial configuration: ECS RS482-M754 System Board, AMD ATHLON 1.8GHZ processor, 1GB RAM, 30Gb HD. OS: Ubuntu 10.4.2.