rm -rf ~/software/PfamScan
cd ~/software
wget ftp://ftp.sanger.ac.uk/pub/databases/Pfam/Tools/PfamScan.tar.gz
tar -zxvf PfamScan.tar.gz
cd ~/software/PfamScan
rm -f *.hmm*
wget ftp://ftp.sanger.ac.uk/pub/databases/Pfam/current_release/Pfam-A.hmm*
wget ftp://ftp.sanger.ac.uk/pub/databases/Pfam/current_release/Pfam-B.hmm*
wget ftp://ftp.sanger.ac.uk/pub/databases/Pfam/current_release/active*.dat.gz
for i in *.gz
do
	gunzip $i;
done

cd ~/software
rm -rf hmmer-3.1b1*
wget ftp://selab.janelia.org/pub/software/hmmer3/3.1b1/hmmer-3.1b1-linux-intel-x86_64.tar.gz
tar -zxvf hmmer-3.1b1-linux-intel-x86_64.tar.gz
cd hmmer-3.1b1-linux-intel-x86_64
./configure --prefix=/usr
sudo make
sudo make install
cd ~/software/PfamScan
hmmpress Pfam-A.hmm
hmmpress Pfam-B.hmm