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Stochastic Simulations

Project description

What is this?

StoSim is a light-weight framework for parameterised stochastic simulations. The researcher provides the simulation code (written in the programming language of his/her choice), but StoSim takes over a lot of tedious work from there on. StoSim can

  • create all necessary computation jobs (from lists of parameter settings)
  • execute these jobs on available CPUs (only your computer, the local network or PBS computation cluster)
  • handle stochastic repetition of settings and seeding of randomness (for repeatable experiments)
  • analyse the results with graphical plots and T-tests (it is easy to analyse results made with specific parameter settings)
  • back up code and results (to be able to go back to important milestones)

You can find tutorials and extensive documentation at http://stosim.nicolashoening.de and example simulations in the “example” folder.

Installation/Dependencies

the short answer:

pip install stosim

More details and help are in the documentation.

Dependencies

  • You need Python 3.3+, 2.7, or 2.6 if you install the argparse module locally.
  • Distributing jobs needs Unix Screens, so if the screen command is not available on your system, you need to install it, e.g. on Debian::
    sudo apt-get install screen
  • To use the in-built plotting, you need gnuplot and epstopdf, e.g. on Debian::
    sudo apt-get install gnuplot texlive-extra-utils
  • For T-Tests, you need Gnu R installed.

More details and help are in the documentation.

Running a simulation: A quick overview

Place an experiment configuration (stosim.conf) and your simulation code in a folder of your choice (see basic example in the examples folder). Call:

stosim

This assumes that you placed a configuration file describing your jobs (called stosim.conf) in the current folder. It also assumes you want to run the jobs, and in addition perform T-Tests and make plots (if stosim.conf says how). So the above command is synonymous to:

stosim --folder . --run --ttests --plots

The results will be put in the “data” directory, in your folder (but if you like the plotting/analysis capabilities of StoSim you might never have to look there).

One more example, where you know your stosim.conf is in a different folder and you only want to run:

stosim --folder <path-to-your-experiment-folder> --run

There are more features, e.g. –more to add more stochastic runs, –list to inspect data or –snapshot to make a snapshots of results at a given time that can be loaded back later. Do check out the tutorials where you can learn more.

Project details


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Filename, size & hash SHA256 hash help File type Python version Upload date
stosim-0.2.22.tar.gz (22.1 kB) Copy SHA256 hash SHA256 Source None Feb 9, 2018

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