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dependencies_install.md

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apt-get install lbzip2 dh-autoreconf ncurses-dev libpng-dev libopenblas-dev # to do 

conda create -n epiGBS
source activate epiGBS
conda install -c bioconda pear=0.9.6 (--> thomas 0.9.10?...does not exist)
conda install -c bioconda vsearch=2.5.0
conda install -c bioconda seqtk=1.2
conda install -c bioconda samtools=1.3.1
conda install -c bioconda bcftools=1.3.1
conda install -c bioconda bwa=0.7.16
conda install -c bioconda sambamba=0.6.6
conda install python=2.7
source /data/tools/usearch/9.2.64/env.sh
pip install --user -r requirements.txt
conda install star
conda install tabix

#wget https://github.com/samtools/samtools/releases/download/1.3.1/samtools-1.3.1.tar.bz2 #tar xvf samtools-1.3.1.tar.bz2 #cd samtools-1.3.1 #./configure #sudo make #sudo make install