Index

_

_build_chain_graph() (in module analysis.plot_neighCount) _build_chain_multigraph() (in module analysis.plot_pair_bonds) _clusters_with_bsf() (in module analysis.plot_cSizeBSF) _distances_between_molecules() (in module analysis.plot_sticker_dist)

_geometry() (in module analysis.plot_radialDist) _load_atoms() (in module analysis.plot_radialDist) _parse_snapshot() (in module analysis.plot_cSizeBSF) _read_snapshot() (in module analysis.plot_cSize) _type13_atoms() (in module analysis.plot_sticker_dist)

A

analysis.plot_BSF module analysis.plot_cSize module analysis.plot_cSizeBSF module analysis.plot_neighCount module analysis.plot_pair_bonds module

analysis.plot_PE module analysis.plot_radialDist module analysis.plot_SD module analysis.plot_sticker_dist module

C

calc_RadGy() (in module examples.example_ran.updateColVar)

E

examples.example_ran.fix_datafiles module examples.example_ran.LT_writer module examples.example_ran.updateColVar module

examples.example_ran.updateInput module examples.example_ran.writePackmolInput module examples.example_ran.writeSysLT module

F

fix_data_file() (in module examples.example_ran.fix_datafiles)

fixAtomNumbers() (in module examples.example_ran.updateColVar)

G

generate_packmol_input() (in module examples.example_ran.writePackmolInput)

generate_syslt() (in module examples.example_ran.writeSysLT) getBoxDim() (in module examples.example_ran.updateColVar)

M

module analysis.plot_BSF analysis.plot_cSize analysis.plot_cSizeBSF analysis.plot_neighCount analysis.plot_pair_bonds analysis.plot_PE analysis.plot_radialDist analysis.plot_SD analysis.plot_sticker_dist examples.example_ran.fix_datafiles examples.example_ran.LT_writer examples.example_ran.updateColVar examples.example_ran.updateInput examples.example_ran.writePackmolInput examples.example_ran.writeSysLT

P

parseXYZfile() (in module examples.example_ran.updateColVar) plot_bsf() (in module analysis.plot_BSF) plot_csize() (in module analysis.plot_cSize) plot_cSizeBSF() (in module analysis.plot_cSizeBSF) plot_neighbour_hist() (in module analysis.plot_neighCount)

plot_pair_bond_hist() (in module analysis.plot_pair_bonds) plot_pe() (in module analysis.plot_PE) plot_radial_distribution() (in module analysis.plot_radialDist) plot_sd() (in module analysis.plot_SD) plot_sticker_hist() (in module analysis.plot_sticker_dist)

U

updateCV() (in module examples.example_ran.updateColVar)

W

write_poly_lt() (in module examples.example_ran.LT_writer) write_xyz() (in module examples.example_ran.LT_writer)

writeInputFile() (in module examples.example_ran.updateInput) writeSubmitScript() (in module examples.example_ran.updateInput)