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sanger-pathogens / seroba

k-mer based Pipeline to identify the Serotype from Illumina NGS reads
https://sanger-pathogens.github.io/seroba/
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install from source #34

Open jacorvar opened 5 years ago

jacorvar commented 5 years ago

Would it be possible to install seroBA from source?

Thanks

eppinglen commented 5 years ago

Hi @jacorvar,

yes this is possible. Please install all dependences as describe in the Documentation. For Example for Ubuntu 16.04 (Xenial):

Install the dependencies:

apt-get update
apt-get install --no-install-recommends -y build-essential cd-hit curl git libbz2-dev liblzma-dev mummer python python3-dev python3-setuptools python3-pip python3-tk python3-matplotlib unzip wget zlib1g-dev
wget -q https://raw.githubusercontent.com/sanger-pathogens/seroba/master/install_dependencies.sh && bash ./install_dependencies.sh

Once the dependencies are installed, install SeroBA:


git clone https://github.com/sanger-pathogens/seroba
cd seroba
python setup.py install
``