Maciej_Bak
Swiss_Institute_of_Bioinformatics
A small collection of YAML recipes for conda virtual environments which I use in everyday's computational work.
Currently the repository consist of the following recipes:
- Python3 and JupyterLab
- Python3 and various packages related to Deep Learning
- Snakemake
- Nextflow together with nf-core
- R and RStudio
- various tools and packages related to code formatting and linting (Python, R, bash, C++ and C, Perl)
Linux:
wget https://repo.continuum.io/miniconda/Miniconda3-latest-Linux-x86_64.sh
bash Miniconda3-latest-Linux-x86_64.sh
source .bashrc
macOS:
wget https://repo.continuum.io/miniconda/Miniconda3-latest-MacOSX-x86_64.sh
bash Miniconda3-latest-MacOSX-x86_64.sh
source .bashrc
In order to build a conda virtual environment please execute script create-virtual-environment.sh
of a given recipe directory.
The environment will be constructed inside that location under the name env
. Activate it with:
conda activate {directory}/env
MIT License