# zagor ## create folder for busco, dependencies and busco DB, named here /path/to/your/BUSCOrelatedFiles/ ### DB # get busco DB wget http://busco.ezlab.org/datasets/embryophyta_odb9.tar.gz ### TOOLS # install boost # https://www.boost.org/doc/libs/1_60_0/more/getting_started/unix-variants.html wget http://sourceforge.net/projects/boost/files/boost/1.60.0/boost_1_60_0.tar.gz # copy hmmer from anaconda/pkgs/hmmer-3.1b2-3/ # get zlib wget http://www.zlib.net/zlib-1.2.11.tar.gz # get bamtools # https://github.com/pezmaster31/bamtools/wiki/Building-and-installing git clone git://github.com/pezmaster31/bamtools.git # install samtools, bcftools and htslib wget https://github.com/samtools/samtools/releases/download/1.8/samtools-1.8.tar.bz2 wget https://github.com/samtools/bcftools/releases/download/1.8/bcftools-1.8.tar.bz2 wget https://github.com/samtools/htslib/releases/download/1.8/htslib-1.8.tar.bz2 # get augustus wget http://bioinf.uni-greifswald.de/augustus/binaries/augustus-3.3.1.tar.gz # get busco git clone https://gitlab.com/ezlab/busco.git ### EXPORT PATHS export BUSCO_CONFIG_FILE="/path/to/your/BUSCOrelatedFiles/busco/config/config.ini" \ export PATH="/path/to/your/BUSCOrelatedFiles/boost_1_60_0/:$PATH" \ export LD_LIBRARY_PATH=/path/to/your/BUSCOrelatedFiles/boost_1_60_0/stage/lib/:$LD_LIBRARY_PATH \ export PATH="/path/to/your/BUSCOrelatedFiles/tools/htslib/bin:$PATH" \ export PATH="/path/to/your/BUSCOrelatedFiles/tools/bcftools/bin:$PATH" \ export PATH="/path/to/your/BUSCOrelatedFiles/tools/samtools/bin:$PATH" \ export PATH="/path/to/your/BUSCOrelatedFiles/augustus-3.3.1/bin:$PATH" \ export PATH="/path/to/your/BUSCOrelatedFiles/augustus-3.3.1/scripts:$PATH" \ export AUGUSTUS_CONFIG_PATH="/path/to/your/BUSCOrelatedFiles/augustus-3.3.1/config" \ export PATH="/path/to/your/BUSCOrelatedFiles/hmmer-3.1b2-3/bin:$PATH"