BWA (Burrows-Wheeler Aligner) installation quickie

Download the latest / required version of BWA:
http://sourceforge.net/projects/bio-bwa/files/bwa-0.7.12.tar.bz2/download

Unzip the downloaded file and navigate to the resulting directory:

  • tar -xvf bwa-0.7.12.tar.bz2
  • cd bwa-0.7.12

BWA doesn’t come with a ./configure file so we can just run

  • make

Which should compile everything nicely and result in a executable bwa binary file in the bwa-0.7.12 directory.  Once you have made this binary file all of the other files in the unzipped directory are no longer needed, they’re sole purpose  in life was to make that binary…

From here you can either run the binary from the bwa-0.7.12 directory. e.g.:

…/bwa-0.7.12/bwa aln…

or  move / copy the binary into /usr/bin/ if that’s your kind of thing.