fissa 0.6.1

Basic prerequisites

Download and install, in the following order:

• (for Python 2.7 only) Microsoft Visual C++ Compiler for Python 2.7: https://www.microsoft.com/en-us/download/details.aspx?id=44266

• Python 2.7 or 3.5+ (recommended) Anaconda as the Python environment, available from https://www.anaconda.com/download/.

Installing FISSA

Open Anaconda Prompt.exe, which can be found through the Windows start menu or search, and type or copy-paste (by right clicking) the following:

conda install -c conda-forge shapely tifffile

Then, install FISSA by running the command

pip install fissa

To test if FISSA has been installed, enter the command

python

to go into the Python environment. Then type

import fissa

If no errors show up, FISSA is now installed. You can leave Python by typing exit().

If you want to use the interactive plotting from the notebooks, you should also install the HoloViews plotting toolbox, as follows

conda install -c ioam holoviews

See usage above for details on how to use FISSA.

Dependencies of dependencies

• scipy requires a Fortran compiler and BLAS/LAPACK/ATLAS.

• shapely requires GEOS.

• Pillow>=3.0.0 effectively requires a JPEG library.

These packages can be installed on Debian/Ubuntu with the following shell commands.

sudo apt-get update
sudo apt-get install gfortran libopenblas-dev liblapack-dev libatlas-dev libatlas-base-dev
sudo apt-get install libgeos-dev
sudo apt-get install libjpeg-dev

Installing FISSA

For normal usage of FISSA, you can install the latest release version on PyPI using pip:

pip install fissa

To also install fissa along with the dependencies required to run our sample notebooks (which include plots rendered with holoviews) you should run the following command:

pip install fissa['plotting']

Afterwards, you can test to see if FISSA is install by running the command

python

to start an interactive python session. Then run

import fissa

at the python command prompt.

If no errors show up, FISSA is now installed. You can leave the interactive python session with the exit() command, or CTRL+D.