polish content from transition #1
Description
- clean up cookiecutter template-specific content
- copy over markdown files and examples
- Instead of moving over the README file directly, add the content to readthedocs
scripts to transfer to tools directory or utils.py
- align_two_mols.py
- catMols.py
- cleanFromVMD.py
- convertExtension.py
- findIntraHB.py
- jobcount.sh
- loadFromXYZ.py
- save_uniq_mols.py
- selectConfs.tcl
- viewer.ipynb
- writeOneMol.py
- xyzByStep.sh