Anvi'o installer for Arch Linux by Canberk Koç & Çağrı Ulaş

anvio-arch-setup.sh

#!/bin/bash

set -e

# Get fresh repo
sudo pacman -Syy

# Using aur for some packages so get some yaourt
sudo pacman -S --noconfirm yajl

# Creating workbench
mkdir -pv /tmp/yaourt/{package-query_pkgbuild,yaourt_pkgbuild}
# Getting pkgbuilds
curl 'https://aur.archlinux.org/cgit/aur.git/plain/PKGBUILD?h=package-query' > /tmp/yaourt/package-query_pkgbuild/PKGBUILD
curl 'https://aur.archlinux.org/cgit/aur.git/plain/PKGBUILD?h=yaourt' > /tmp/yaourt/yaourt_pkgbuild/PKGBUILD

cd /tmp/yaourt/package-query_pkgbuild/
makepkg -i --noconfirm
cd /tmp/yaourt/yaourt_pkgbuild
makepkg -i --noconfirm

yaourt -S --noconfirm wget

#Libraries
yaourt -S --noconfirm gsl\
                      hdf5
#Python
yaourt -S --noconfirm python2-numpy\
                      cython2\
                      python2-pip\
                      zlib\
                      sqlite\
                      python2-scipy\
                      python2-scikit-learn\
                      python2-bottle\
				      python2-h5py
#Fortran
yaourt -S --noconfirm blas\
                      lapack

#C
yaourt -S --noconfirm cblas

#Pip Execution

sudo pip2 install ete2>=2.2

# prodigal
wget https://github.com/hyattpd/Prodigal/archive/v2.6.2.tar.gz
tar -zxvf v2.6.2.tar.gz && cd Prodigal-2.6.2/ && make
sudo cp prodigal /usr/bin/
cd
rm -rf v2.6.2.tar.gz Prodigal-2.6.2

# hmmer
yaourt -S --noconfirm hmmer

# Installing
sudo pip2 install anvio