Monday, February 21, 2011

Compile BLAT on x86_64 Ubuntu 10.04

Recently I needed to compile BLAT for x86_64 on Ubuntu 10.04 server. The BLAT pre-compiled binaries for linux are 32-bit. Here is how you do it:

  1. apt-get install build-essential
  2. Download  BLAT source
  3. remove the -Werror compiler flag to treat warnings as errors
  4. mkdir -p ~/bin/x86_64
  5. export MACHTYPE=x86_64
  6. make
Step (3) above requires editing the /inc/ file, line 17 goes from     

HG_WARN_ERR = -DJK_WARN -Wall -Werror



Make places the executables into ~/bin/x86_64 directory. Either add this to $PATH or copy the files to /usr/local/bin