Installation
Please follow the guide below to install oggmap and its dependent software.
If a containerised option is available to you (docker or singularity) it will help you to either isolate it from the host environment or deals with the situation of broken conde dependencies (with only limited control on our side to resolve these issues). We of course try to support conda and other issues, but if you want to avoid conda issues, the suggestion is to use either docker or singularity.
Docker image
Pre-built docker image is available through Docker Hub .
docker pull kkuweb/oggmap_ubuntu:latest
This docker image was built based on Ubuntu 22.04.
Python dependent packages and oggmap are installed in an anaconda environment, oggmap_env. This environment will be activated automatically when you log in.
See additional information
Singularity image
Pre-built docker image is available through Docker Hub .
singularity pull docker://kkuweb/oggmap_ubuntu:latest
This docker image was built based on Ubuntu 22.04.
Python dependent packages and oggmap are installed in an anaconda environment, oggmap_env. This environment needs to be activated when you log in.
See additional information
Install oggmap
Python Requirements
oggmap was developed using Python 3.8. We do not support Python 2.7x or Python <=3.7.
oggmap installation using conda and pip
We recommend installing oggmap in an independent conda environment to avoid dependent software conflicts. Please make a new python environment for oggmap and install dependent libraries in it.
The environment is created with conda create in which oggmap is installed.
If you do not have a working installation of Python 3.8 (or later), consider installing Anaconda or Miniconda. Then run:
git clone https://github.com/kullrich/oggmap.git cd oggmap conda env create --file environment.yml conda activate oggmap_envInstall oggmap via PyPI:
pip install oggmap
Development Version
To work with the latest version on GitHub: clone the repository and cd into its root directory.
git clone kullrich/oggmap cd oggmap
Install oggmap into your current python environment:
pip install .
Installing Miniconda
After downloading Miniconda, in a unix shell (Linux, Mac), run
cd DOWNLOAD_DIR chmod +x Miniconda3-latest-VERSION.sh ./Miniconda3-latest-VERSION.sh