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link to the dissertation

about

This repository contains files related to the SH project called "Graph Homomorphisms".

homomorphism

files

  • graph_utils.py: simple graph utilities, such as generating, drawing etc

  • homomorphism_solver.pyx: mediocre homomorphism solver (rewritten in Cython)

  • solve_homomorphism.py: tries to find a homomorphism between two given graphs

  • plot_homomorphism.py: generates an image of a given graph homomorphism

  • profile_homomorphism.py: generates an overview of python profiling information on the solver

  • setup.py: compile homomorphism solver into a shared library

  • generate_small_graphs.py: a script to download a dataset of graphs and write them into small_graphs/ folder in g6/json formats

  • generate_connected_graph.py: a python program that generates a connected graph of given size and puts it into graphs/ folder

  • gap_test_solver: compares GAP solver's result with the solver

  • gap_homomorphism_finder: uses GAP graph homomorphism finder to find a homomorphism between two graphs

  • gap_is_homomorphic_gh: uses GAP solver to print "YES" or "NO" if two graphs are homomorphic

  • gap_test_lattice_relations: uses local solver to verify that some randomly chosen relations are correct, and might use GAP solver to provide diagnostics

  • test_important_lattice_relations: fully verifies that all important nodes are connected correctly

  • gap_find_automorphism_group: uses GAP to find an automorphism group for a graph

  • gap_find_cores_automorphisms: uses GAP to list automorphism groups for found cores

  • make_lattice.py: incrementally constructs a partial order graph out of given files, and produces an image

  • lattice_utils.py: utilities for lattice operations

  • lattice_visualization_utils.py: utilities for visualizing lattice graph

prerequisites

setup

For full functionality, you will need:

  • gap
  • graphviz
env python3 -m pip install -r --user requirements.txt
env python3 setup.py build_ext --inplace
# edit gap_config.sh and set GAP=/path/to/gap

usage

generating/downloading graphs

# download small graphs:
./generate_small_graphs.py
# generate some bigger graphs (15 being the size of the graph):
./generate_connected_graph.py 15
# plot a specific graph G
./plot_graph.py <gfile>
# find automorphism group of G
./gap_find_automorphism_group <gfile>

homomorphism solver

# use GAP to check if G -> H:
./gap_is_homomorphic_gh <gfile> <hfile>
# use python solver to check if G -> H:
time ./solve_homomorphism.py <gfile> <hfile>
# use python solver that makes use of the lattice interface:
time ./solve_homomorphism_with_lattice.py <gfile> <hfile>
# plot homomorphism G -> H (side by side):
./plot_homomorphism.py <gfile> <hfile>
# profile homomorphism solver G -> H:
./profile_homomorphism.py <gfile> <hfile>
# test the solver:
./gap_test_solver

lattice

# make lattice out of given graphs, by specifying graphs in the argument list, e.g.:
./make_lattice.py small_graphs/graph_{1,2,3,4,5}_*.json
# verify relations
./gap_test_lattice_relations
# verify the most important relations
./test_important_lattice_relations
# find automorphism groups of the cores
./gap_find_cores_automorphisms
# open visualization/index.html or visualization/index_d3.html for interactive graph