Description of the program Pspace: a program to plan the covering of a protein space and to search for orthologs

Mihaly Mezei

Department of Pharmacological Sciences,

Icahn School of Medicine at Mount Sinai

New York, NY 10029

March 27, 2006.

The program is run interactively. At the start it establishes a log file. After that, it continually offers the user the choice of one of the following functions:

Compilation of the program

The program is written in Fortran 77. Its size is governed by the parameters (the number between the braces is the value set in the source code), established in the first line of the program

It should be compiled at the highest optimization level for maximum speed. For example, using the g77 compiler the compilation can be executed by

g77 -O4 -o pspace.exe pspace.f