=== FAQ === How do I install the engine? ---------------------------- `Install the engine `_. pixi or ``nix build``. Where is Python? ---------------- `PydSEAMSlib `_. ``pip install pydseams``. ``import pydseamslib`` is an alias of ``pydseams``. The compiled module is ``yoda``. Where is Lua / Fennel? ---------------------- `yodaStruct `_. ``require("dseams")``. ``require("yoda")`` still resolves to that table. There is no ``yodaStruct`` executable. Why do CHILL+ and cages disagree? --------------------------------- They answer different questions. `CHILL+ versus cages <../explanation/chill-plus-vs-cages.rst>`_. What does ``--graph seeded`` mean? ---------------------------------- Mutual four-nearest seeds, union completions. It is the CLI default for ``cages`` only. Which ``--type`` do I pass? --------------------------- Mixed water dumps in this tree: type 2 oxygen. Single-site mW dumps: type 1. Default ``0`` guesses type 2 then type 1. Why is chemfiles disabled on ``nix build``? ------------------------------------------- chemfiles is not in the flake closure. The default pixi lock enables it. How do I turn colors off? ------------------------- ``NO_COLOR``. ``FORCE_COLOR`` forces them on. Does ``seams`` walk a trajectory? --------------------------------- Yes: ``--frame N --last M --jobs J`` via ``forEachLammpsFrame``. ``--jobs 1`` is serial. How do I view a classified dump? -------------------------------- solvis, through ``pydseams[solvis]`` (``frame.to_solvis()``). That is the viewer for this release. See `View a classified frame `_. OVITO still opens the LAMMPS text the engine writes; it is not the documented path. How do I cite this? ------------------- `Citation <../explanation/citation.rst>`_. The preferred citation is the 2020 JCIM paper.