For documentation and tutorials, please see https://pennmem.github.io/ptsa/
Available on Linux, Mac, and Windows 64 bit:
conda install -c pennmem -c conda-forge ptsa
To report a bug or a feature request please use https://github.com/pennmem/ptsa/issues.
Install dependencies:
conda install -y numpy scipy xarray swig traits
You will also need to install FFTW. To install FFTW with conda on Linux or Mac:
conda install -y -c pennmem fftw
Alternatively, it can be installed with the system package manager on Linux (Debian-based command shown below):
sudo apt-get install libfftw3-dev
or on Mac using homebrew:
brew install fftw
To read EDF files, you will also need to install pybind11:
conda install -y -c conda-forge pybind11
Install PTSA:
python setup.py install
If you encounter problems installing, some environment variables may need to be
set, particularly if you installed FFTW with conda. If your anaconda
distribution is installed in $HOME/anaconda3 and the environment name is
ptsa, set the CPATH and the LD_LIBRARY_PATH as follows:
export CPATH=$HOME/anaconda3/envs/ptsa/include
export LD_LIBRARY_PATH=$HOME/anaconda3/envs/ptsa/lib
To run the PTSA test suite locally, first set up a testing environment:
conda env create -f environment.yml
source activate ptsa
and then build build the extension modules and run the test suite:
python setup.py develop
pytest tests/
The shell script run_tests will also run the test suite, assuming the environment is configured.
To skip tests that depend on Rhino the NO_RHINO environment variable must be set:
export NO_RHINO=TRUE
When running tests which require rhino access, the path to the root rhino directory is guessed based on common mount points.
See separte HOW_TO_RELEASE.md document! Alternatively, this repository is now set up to deploy automatically on tagged commits.
PTSA is licensed under the GNU GPL version 3.
This repository also includes:
