Clean up and automated testing

.gitlab-ci.yml

1l9a.pdb

7u4a.cif

arc_test.txt

example1.py

example2.py

examples/4gma_rpr.pdb

examples/4gma_rpr_barnacle.pdb

examples/5zal.pdb

examples/7u4a_fixed.cif

examples/example_arc.py

examples/example_contact_mapping.py

examples/example_hopkins.ipynb

examples/example_rmsd.py

examples/fold_7u4a_a_af3_model_0.cif

output.pdb

pixi.toml

simrna_1l9a_L0.5.res

tests/4pqv_A.pdb