Compilation and Installation

Procedure

1. Use PuTTY to log in to the server as the root user.
2. Create a Conda environment and go to the environment.

   conda create -n kobas && conda activate kobas

   

3. Install the Python environment.

   conda install -c bioconda -c conda-forge python=2.7.15

4. Install the dependencies.

   conda install -c conda-forge -c bioconda panda
   /path/to/pip install blast

   

   /path/to/pip indicates the pip directory in the Conda environment. You can run the which pip command to view the specific path.

   conda install -c conda-forge -c bioconda r-base
   /path/to/pip install rpy2==2.8.5
   /path/to/pip install biopython==1.75 --trusted-host pypi.tuna.tsinghua.edu.cn -i https://pypi.tuna.tsinghua.edu.cn/simple
   conda install -c conda-forge -c bioconda bioconductor-qvalue

5. Install KOBAS.

   conda install --use-local kobas-3.0.3-py_2.tar.bz2