File	Date	Author	Commit
docs	2017-06-14	Finnian	[a1e7be] Adjusted fold loss caculation in GRID_2_5
source	2018-08-06	Gerrit Leder	[0451fb] workaround for EL
test-data	2017-06-15	Finnian	[ec7f1d] Fold list is now sorted alphabetically
.gitignore	2018-10-18	Gerrit Leder	[e7c225] .gitignore
LICENSE.gpl	2017-05-29	Gerrit Leder	[71f5aa] new structure for eiffel-loop and scons usage
LIESMICH.txt	2017-05-29	Gerrit Leder	[71f5aa] new structure for eiffel-loop and scons usage
README.txt	2018-09-10	Gerrit Leder	[615ff3] change README.txt
SConstruct	2017-05-29	Gerrit Leder	[71f5aa] new structure for eiffel-loop and scons usage
benchmarks.txt	2017-06-15	Finnian	[4d9b1b] benchmarks.txt
build_and_install.sh	2017-06-06	Finnian	[05a608] Included project.py with modification to build ...
build_and_run.sh	2017-06-06	Finnian	[05a608] Included project.py with modification to build ...
clean_build.sh	2017-07-05	Gerrit Leder	[10de63] not compiling
generate_test_data.sh	2017-06-15	Finnian	[ec7f1d] Fold list is now sorted alphabetically
git_push.sh	2017-06-02	Gerrit Leder	[54a19f] switched x and y in grid.e
pf_hp.ecf	2018-08-08	Gerrit Leder	[ad0694] workaround vtd-xml EL
pf_hp.pecf	2018-08-08	Gerrit Leder	[ad0694] workaround vtd-xml EL
project.py	2017-07-05	Gerrit Leder	[10de63] not compiling

Read Me

First of all a warning: use PF_HP with caution!

This work is based upon a Diplomarbeit written on "Proteinfaltung und Alignment von Strukturen". It is an Eiffel (eiffel.com) implementation of protein folding in the twodimensional Hydrophobic-Polar Model.

This software implements a brute force algorithm and is therefore considered a prototype for experimental computations on protein folding I stress this: the algorithm has very long running times, even for short instances of problem input.

On the other hand it yields interesting results, e. g. unique optimal foldings. Which is otherwise impossible to achieve.

As Eiffel compiler evolves the goal of this project is to evolve, too.

The software has a full CPU load for multi-core CPUs. This achieves other software products, too, e. g. prime95.

It is possible to have a full CPU load for a longer time (CPU burn in Test). Cancellation of the software run is possible with the keyboard keys CTRL-C (german: STRG-C).

Once again: Use with caution!!!

Download pf_hp for Linux. 
$ cd Downloads/ 
$ chmod +x pf_hp 
$ ./pf_hp