THIRDPARTY.md

Installation of Third-Party dependencies

These instructions assuming you are installing locally in a Ubuntu Linux system, different steps may be required for other systems.

All will be installed in a software directory in your $HOME directory.

System dependendencies

$ sudo apt-get update && \
  sudo apt-get install -y build-essential libboost-all-dev

Muscle

mkdir -p $HOME/software && cd $HOME/software
mkdir muscle3.8.1551 && cd muscle3.8.1551
wget https://drive5.com/muscle/muscle_src_3.8.1551.tar.gz
tar -zxf muscle_src_3.8.1551.tar.gz && rm muscle_src_3.8.1551.tar.gz
make
export MUSCLE_BIN=$HOME/software/muscle3.8.1551/muscle

Freesasa

mkdir -p $HOME/software && cd $HOME/software
wget https://github.com/mittinatten/freesasa/releases/download/2.0.3/freesasa-2.0.3.tar.gz
tar -zxf freesasa-2.0.3.tar.gz && rm freesasa-2.0.3.tar.gz
cd freesasa-2.0.3
./configure --disable-json --prefix=`pwd`
make
make install
export FREESASA_BIN=$HOME/software/freesasa-2.0.3/bin/freesasa

HSSPCONV

mkdir -p $HOME/software && cd $HOME/software
wget https://github.com/cmbi/hssp/archive/3.1.5.tar.gz
tar -zxf 3.1.5.tar.gz && rm 3.1.5.tar.gz
cd hssp-3.1.5
./autogen.sh
./configure
make hsspconv
export HSSPCONV_BIN=$HOME/software/hssp-3.1.5/hsspconv

Protdist

Protdist is distributed together with WHISCY, you can find it in the whiscy directory. We are working on a better way to install this dependency 🙂

mkdir -p $HOME/software && cd $HOME/software
git clone https://github.com/haddocking/whiscy
mv whiscy/bin/protdist . && rm -rf whiscy
cd protdist
bash compile.sh
export PROTDIST_BIN=$HOME/software/protdist/protdist

---

In the end the system variables that define the third-party dependencies should look like this:

export MUSCLE_BIN=$HOME/software/muscle3.8.1551/muscle
export FREESASA_BIN=$HOME/software/freesasa-2.0.3/bin/freesasa
export HSSPCONV_BIN=$HOME/software/hssp-3.1.5/hsspconv
export PROTDIST_BIN=$HOME/software/protdist/protdist