Installation
software installed by conda
First, you should find the environment.yml, which cover most of software and dependencies installed by conda.
Moreover, you can replace mamba to conda to speed up.
conda env create -f environment.yml
After installing from conda, you can run
conda activate FdR
to active relative environment.
By the way, you can specify the name of environment by editing the first line of environment.yml
software installed by pip
Based from my experience, we suggest you to install nanocompore through pip, just type
pip install nanocompore
software installed through binary file
There’re still three software need to install in binary file.
For f5c, we need to run
bash /f5c/script/install-vbz.sh to solve vbz error for fast5
and add PATH followed by the output of script.
After extract, don’t forget to add their PATH to .bashrc, just type vim ~/.bashrc then add following codes
export PATH="location of your software:$PATH"
Type source ~/.bashrc to finish
Finally, for the reason that copyright protection, we can’t supply Guppy directly. Searcher should download Guppy in Nanopore Comm