Installation on Ubuntu with Conda¶
Contents
0. System Install¶
sudo apt-get install git
1. Download and install miniconda¶
See : http://conda.pydata.org/miniconda.html
wget https://repo.continuum.io/miniconda/Miniconda2-latest-Linux-x86_64.sh
chmod +x Miniconda2-latest-Linux-x86_64.sh
./Miniconda2-latest-Linux-x86_64.sh
2. Create your own virtual environment¶
conda create --name rhizoscan python
# Activate your virtual environnement each time
source activate rhizoscan
3. Install Rhizoscan dependencies¶
conda install sphinx jupyter nose coverage anaconda-client
conda install numpy scipy matplotlib scikit-image opencv pil pillow scikit-learn
conda install -c openalea openalea.mtg openalea.vpltk openalea.visualea openalea.core
3.1 Download & install TreeEditor¶
conda install -c openalea -c openalea/label/unstable openalea.treeeditor
3.2 Download & install RSML-conversion-tools¶
conda install -c openalea -c openalea/label/unstable rsml
4. Install & test Rhizoscan¶
git clone https://github.com/openalea-incubator/rhizoscan
cd rhizoscan
python setup.py develop --prefix=$CONDA_PREFIX
nosetests test