Compiling Canu

Author:Brant C. Faircloth Copyright:This documentation is available under a Creative Commons (CC-BY) license.

Steps

1. Download a source release of canu to a directory like ~/project/src

   wget https://github.com/marbl/canu/archive/v1.8.tar.gz -O canu-v1.8.tar.gz
   

2. Unzip that sources release and load the gcc 6 module:

   tar -xzvf canu-v1.8.tar.gz
   module load gcc/6.4.0
   

3. Set the compiler to the correct values:

   export CC=`which gcc`
   export CXX=`which g++`
   

4. Change to the canu/src directory and compiler

   cd canu/src
   make
   

5. This places a binary in /project/brant/src/canu-1.8/Linux-amd64/bin/canu to which we can symlink in ~/project/shared/bin:

   cd $HOME/project/shared/bin
   ln -s ../src/canu-1.8/Linux-amd64/bin/canu ./