Here is a list of all files with brief descriptions:

[detail level 1234]

src
include
internal
absOrientation.hpp
bond.hpp	File for bond-related analyses (hydrogen bonds, bonded atoms for data file write-outs etc.)
bop.hpp	File for the bond order parameter analysis
bulkTUM.hpp	File containing functions used specific to bulk topological unit matching (TUM) criterion
cage.hpp	File for cage types for topological network criteria
cage_affiliation.hpp	Order-free per-ring cage classification with an exact incremental update
cage_canon.hpp
cluster.hpp	File for the bond order parameter analysis
density.hpp	Type- or kind-resolved Cartesian number-density histogram
franzblau.hpp	File for generating shortest-path rings according to the Franzblau algorithm
generic.hpp	File for containing generic or common functions
gpu_batch.hpp	Run the analysis of a resident frame batch on the device
gpu_residency.hpp	Decide whether N frames of the analysis working set fit on the GPU
ira_sofi.hpp
mol_sys.hpp	The main molecular system handler
neighbours.hpp	Header file for neighbour list generation
order_parameter.hpp
pntCorrespondence.hpp
rdf.hpp	Partial 3D radial distribution functions under the dump MIC
rdf2d.hpp	File containing functions used to calculate the in-plane radial distribution functions
ring.hpp	File containing common functions used by bulk and confined topological network critera
seams_config.hpp	Twelve-factor runtime knobs for the engine and the fronts
seams_input.hpp	File for functions that read in files)
seams_output.hpp
selection.hpp	File containing functions used to define 'selections' in a given range, using ring information
shapeMatch.hpp
simd_distance.hpp
site.hpp	Per-atom site chemistry, separate from CHILL ice labels
sphericart_ylm.hpp
steinhardt_device.hpp
structure_desc.hpp	Voronoi-weighted order, IRA template overlay, SOAP, and a linear prototype classifier
topo_bulk.hpp	File containing functions used specific to bulk topological network critera
topo_one_dim.hpp	File containing functions used specific to quasi-one-dimensional topological network critera (the prism identification scheme)
topo_two_dim.hpp
voronoi_qlm.hpp	Voronoi facet-area weighted bond order parameters