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--- PROTMAP2D v. 1.2.2 ----------------------------
--- (c) Michal J. Pietal & GeneSilico 2005-2006 ---
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1. Files

README.txt - this one

PROTMAP2D_Linux.tar.gz - Linux distribution archive
PROTMAP2D_Win32.zip - Windows (Win32) distribution archive
PROTMAP2D_MacOSX.tar.gz - Mac OS X distribution archive

PROTMAP2D-manual.pdf - application manual
license.rtf - copyright and usage notice

testset.Unix.tar.gz - test set compressed under linux/macosx
testset.Win32.zip - test set compressed under Win32


2. Installation instructions

Notice: all distributions contain this file, manual and the license.

2.1 Linux

Installation of The Linux distribution requires some third-party programs:

Python 2.4					= 2.4.2
BioPython (including KDTree sub-package)	= 1.42
Python Imaging Library (PIL)			= 1.1.5
wxPython					= 2.6.1
PyMedia						= 1.3.5
PyExcelerator					= 0.6.3a

The authors guarantee that PROTMAP2D works with the library versions mentioned above, BUT there's absolutely no guarantee that other versions (incluinding newer ones) are or will be compatible. 

After installing all these libraries and downloading the program, unzip it (gunzip PROTMAP2D_Linux.tar.gz), untar it (tar -xf PROTMAP2D_Linux.tar) and run it using the Python interpreter (python PROTMAP2D.py).

2.2 Windows

Unzip the archive file (e.g. using WinZip or WinRar or any other program capable of handling .zip files)

Double-click on the PROTMAP2D.exe icon to run the application

2.3 Mac OS X

NOTE: This version is a universal distribution so works on both (PPC/Intel) Mac architectures.

Decompress the archive file and click the PROTMAP2D.app icon to run the application.


3. Secondary structure extensions

The secondary structure calculation programs DSSP and Stride are 
subject to separate distribution and usage rights.

To enable the option to calculate secondary strusture using DSSP (Windows, Linux or MacOSX) and/or Stride (Linux and MacOSX), the user has to obtain and install these programs (more detailed description how to do this is provided in the manual).

Once the binaries are downloaded and installed, the user's task is to re-name the files to 'dssp' or 'stride' (Linux/MacOSX) or 'dssp.exe' (Windows) and make them visible by the operating system's path, or simply copy them to the program's directory.