## PIPSA Download and Changes document

To download the pipsa distribution within the multipipsa package, please go to multipipsa packages

If you have setup a python environment, you can also download via pip:
`pip install --extra-index-url https://projects.h-its.org/pypi multipipsa` for python 2 `pip install --extra-index-url https://projects.h-its.org/pypi multipipsa3` for python 3

If you did not yet setup a python environment, download the package on the package server and follow the descriptions in the INSTALL document.

    Changes in the version 4.0.2
       - Modified pathlength to account for longer pathnames than 40 characters

    Changes in the version 3.1 and 3.2 are:
       - Added support for cylindrical volumes for comparison
       - Fall back to default, when sphere file is empty

    Changes in the version 3.0 are:
       - Added the program to calculate similarity indices in spherical regions;
       - Changed output that has now the values of average potential differences
         as well as the average potential values in the comparison region;
       - Added the program to correlate and predict kinetic constants, and
         added an application example for this program;
       - Added a script to remove a protein from a set of compared proteins;
       - Added modified version to run the calculations in parallel;
       - Changes in documentation.

    Changes in the version 2.0 are:
       -  The programs rewritten to make the parameter usage more transparent -
          previous parameter input from the files is changed to the input via
          command line;
       -  Fixed subdirectory hierarchy is replaced via user-defined, e.g.
          calculations can be done in any chosen directory;
       -  Only an upper part of the similarity matrix is calculated, thus the
          computations for a set of n protens are done not for
          n*n but n*(n+1)/2 pairs;
       -  Enabled a possibility to add extra proteins to already  processed
          set of proteins;
       -  Added phylogenic tree analysis;
       -  Added APBS electrostatic potential based analysis;
       -  Added several auxiliary programs.

    Version 2.0 and 3.0 was developed at EML Research gGmbH, Heidelberg, Germany.

    Version 1.0 was developed at EMBL, Heidelberg, Germany.

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