BLAST Ring Image Generator (BRIG)

Installing BRIG

BRIG will run from wherever the program is unzipped. No installation required, however, users will require NCBI BLAST+ or BLAST legacy, and Java 1.6 or greater to be installed.

To run BRIG users need to:

Users who wish to run BRIG from the command-line need to:

  • Navigate to the unpacked BRIG folder in a command-line interface (terminal, console, command prompt).
  • Run ‘java -Xmx1500M -jar BRIG.jar’. Where -Xmx specifies the amount of memory allocated to BRIG.

Installing BLAST

The latest version of BLAST+ can be downloaded from: ftp://ftp.ncbi.nlm.nih.gov/blast/executables/blast+/LATEST/

BLAST+ offers a number of improvements on the original BLAST implementation and comes as a bundled installer, which will walk users through the installation process. Please read the published paper on BLAST+: Camacho, C., G. Coulouris, et al. (2009). ‘BLAST+: architecture and applications.’ BMC Bioinformatics 10(1): 421

The latest version of BLAST legacy can be downloaded from: ftp://ftp.ncbi.nlm.nih.gov/blast/executables/release/LATEST/

BLAST legacy comes as a compressed package, which will unzip the BLAST binaries where ever the package is. We advise users to first create a BLAST directory (in either the home or applications directory), copy the downloaded BLAST package to that directory and unzip the package.

BRIG supports both BLAST+ & BLAST Legacy. If BRIG cannot find BLAST it will prompt users at runtime. Users can specify the location of their BLAST installation in the BRIG options menu which is: Main window > Preferences > BRIG options. N.B: If BOTH BLAST+ and legacy versions are in the same location, BRIG will prefer BLAST+

Licence

Copyright Nabil-Fareed Alikhan 2010-2012.

This program is free software: you can redistribute it and/or modify it under the terms of the GNU General Public License as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.

This program is distributed in the hope that it will be useful, but without any warranty; without even the implied warranty of merchantability or fitness for a particular purpose. See the GNU General Public License for more details. You should have received a copy of the GNU General Public License along with this program. If not, see <http://www.gnu.org/licenses/>.

Written by Nabil-Fareed Alikhan

July 9th, 2012 at 2:23 pm

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