Snake
A collection of Python modules to post-process the numerical solution of simulations run with one of the following software:
Installation
Dependencies (last tested)
- Python-2.7 or Python-3.5
- Numpy-1.11.1
- Scipy-0.17.1
- Matplotlib-1.5.3
- Pandas-0.19.2
To install the specific version of these packages we recommend using either conda.
To create a new environment for using snake with Python-3.5 with conda you can do the following:
> conda create -n snakepy35 python=3.5 numpy scipy matplotlib pandas
> source activate snakepy35
or with Python-2.7:
> conda create -n snakepy27 python=2.7 numpy scipy matplotlib pandas
> source activate snakepy27
Optional
- PETSc-3.7.4 (for PetIBM post-processing; only the Python scripts are needed)
- VisIt-2.12.1 (IBAMR post-processing)
- OpenFOAM-2.3.1 and ThirdParty-2.3.1 (for OpenFOAM post-processing)
Install snake using git
> git clone https://github.com/mesnardo/snake.git
> cd snake
> python setup.py install
> export SNAKE=$PWD
Install snake using a specific release
> VERSION="X.X.X"
> wget https://github.com/mesnardo/snake/archive/v${VERSION}.tar.gz
> mkdir snake-${VERSION}
> tar -xzf v${VERSION}.tar.gz -C snake-${VERSION} --strip-components=1
> rm -f v${VERSION}.tar.gz
> cd snake-${VERSION}
> python setup.py install
> export SNAKE=$PWD
where X.X.X defines the version number to use.
Notes
Some of the modules call the environment variable $SNAKE defined as the local directory of the snake repository.
The variable can be set by adding the following line to your .bashrc
or .bash_profile file:
> export SNAKE="/path/to/snake/directory"
The module for PetIBM calls the environment variable $PETSC_DIR defined as the local directory of PETSc.
The variable can be set by adding the following line to your .bashrc
or .bash_profile file:
> export PETSC_DIR="/path/to/petsc/directory"
Some examples to post-process the numerical solution from the four codes are provided in the examples folder.
Suggestions and bug-fix are welcome.
Contact: mesnardo@gwu.edu