The following describe how to install external tools for ISOWN.
Download and uncompress tabix
wget https://sourceforge.net/projects/samtools/files/tabix/tabix-0.2.5.tar.bz2 --no-check-certificate
tar xvjf tabix-0.2.5.tar.bz2
Compile tabix
cd tabix-0.2.5
make
Once compiled, add tabix to PATH ( where path_to_tabix is the folder directory where tabix is installed ).
export PATH=$PATH:/path_to_tabix/tabix-0.2.5
Download weka and uncompress it
wget https://sourceforge.net/projects/weka/files/weka-3-6/3.6.13/weka-3-6-13.zip
unzip weka-3-6-13.zip
Copy weka.jar into bin ${ISOWN_HOME}/bin
cp weka-3-6-13/weka.jar ${ISOWN_HOME}/bin
Download ANNOVAR from http://annovar.openbioinformatics.org/en/latest/user-guide/download/ and uncompress it. Note: ANNOVAR requires user registration.
tar xvf annovar.latest.tar.gz
Add ANNOVAR to PATH
export PATH=$PATH:/path_to_annovar
Run the following command to check to make sure all dependencies are installed:
perl ${ISOWN_HOME}/bin/check_dependencies.pl