howto_BioVx

### Biovx (annotate transporters)

# HMMTOP - get it online here 'http://hmmtop.enzim.hu/'
tar -zxvf ~/Downloads/Programmi_LAB/Annotation/hmmtop_2.1.tgz -C ~
cd ~/hmmtop_2.1
cc hmmtop.c -lm -o hmmtop
export PATH="${PATH}:/home/lucaz/hmmtop_2.1"
echo 'PATH="'$PATH'"' | sudo tee /etc/environment
gedit ~/.bashrc
# add following variables:
export HMMTOP_PSV="/home/lucaz/hmmtop_2.1/hmmtop.psv"
export HMMTOP_ARCH="/home/lucaz/hmmtop_2.1/hmmtop.arch"

# create conda environment
conda create -n BioVx python=2.7.18 pip=19.3.1
conda activate BioVx
pip install biopython==1.75 blast matplotlib mechanize scipy

# clone BioVx repo
git clone https://github.com/SaierLaboratory/BioVx.git ~/BioVx
# cd ~/BioVx; git pull origin master # to update
export PATH="${PATH}:/home/lucaz/BioVx/scripts"
echo 'PATH="'$PATH'"' | sudo tee /etc/environment