This project is part of the FORZA subproject of Dr. Kogge's Computer Lab in the University of Notre Dame Department of Computer Science and Engineering
Inspired by the original work of Dr. P Ghosh et al. in the PaKman: A Scalable Algorithm for Generating Genomic Contigs on Distributed Memory Machines (github). This project works to speed up the outcomes seen in the paper.
This code is currently set to only run on Python 3.11.0. To change this, please change the version in the .python-version document. The following Python libraries must be installed for the code to run.
| Library | Install |
|---|---|
| networkx | pip install networkx |
| numpy | pip install numpy |
| keras | pip install keras |
| pandas | pip install pandas |
| scikit-learn | pip install scikit-learn |
| scipy | pip install scipy |
| tensorflow | pip install tensorflow |
| matplotlib | pip install matplotlib |
Enter in the command line
./run.sh
gcc -c graph.S -o graph.o
gcc graph.o -o graph
gcc -S graph.c -o graph.s
gcc -c graph.s
The following code has be tested on these platforms
| MacOS | Debuain/Ubuntu | GNU/Linux |
|---|