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Functions1,368 in github.com/Colvars/colvars

MethodisRecvSpanningTreeOn
namd/src/SimParameters.h:1078
MethodisRecvSpanningTreeUnset
namd/src/SimParameters.h:1079
MethodisSendSpanningTreeOn
namd/src/SimParameters.h:1076
MethodisSendSpanningTreeUnset
namd/src/SimParameters.h:1077
Methodis_dynamic
src/colvardeps.h:125
Methodis_not_set
src/colvardeps.h:132
Methodis_scalar
Whether this variable is a real number
src/colvarvalue.h:267
Methodis_static
src/colvardeps.h:126
Methodis_static
src/colvardeps.h:134
Methodis_user
src/colvardeps.h:127
Methodis_user
src/colvardeps.h:135
Functionissetinparseopts
namd/src/SimParameters.C:109
Functionistrueinparseopts
namd/src/SimParameters.C:104
Methodkey_already_set
src/colvarparse.cpp:540
Methodl2norm
src/colvargrid.cpp:850
MethodlinearCombination
src/colvarcomp.h:1609
MethodlinearCombination
src/colvarcomp_gpath.cpp:408
Methodlist2str
Utility function to serialize a list into a string
colvartools/colvars_grid.py:263
Functionload_atoms
namd/src/colvarproxy_namd.C:961
Methodload_atoms
gromacs/src/colvarproxy_gromacs.cpp:296
Methodload_atoms
src/colvarproxy.cpp:212
Methodload_atoms
src/colvarmodule.cpp:1868
Functionload_coords
namd/src/colvarproxy_namd.C:849
Methodload_coords
gromacs/src/colvarproxy_gromacs.cpp:305
Methodload_coords
src/colvarproxy.cpp:223
Methodload_coords
src/colvarmodule.cpp:1877
Methodlog
gromacs/src/colvarproxy_gromacs.cpp:275
Methodlog
lammps/src/USER-COLVARS/colvarproxy_lammps.cpp:310
Methodlog_default_params
Level at which a keyword's default value is logged
src/colvarmodule.h:666
Methodlog_init_messages
Level at which initialization messages are logged
src/colvarmodule.h:654
Methodlog_input_files
Level at which input-file operations (configuration, state) are logged
src/colvarmodule.h:678
Methodlog_level
Level of logging requested by the user
src/colvarmodule.h:648
Methodlog_output_files
Level at which output-file operations are logged
src/colvarmodule.h:672
Methodlog_user_params
Level at which a keyword's user-provided value is logged
src/colvarmodule.h:660
Methodlogn
Reimplemented to work around MS compiler issues. Note: log() is currently defined as the text logging function, but this can be changed at a later ti
src/colvarmodule.h:174
Methodmain
src/colvarmodule.cpp:92
Methodmain_loop
src/colvarcomp_coordnums.cpp:192
Methodmap_total
src/colvarcomp_volmaps.cpp:18
Methodmark_key_set_default
src/colvarparse.cpp:132
Methodmark_key_set_user
src/colvarparse.cpp:119
Methodmatrix
Return the associated 3x3 matrix
src/colvartypes.h:1430
Methodmatrix2d
Default constructor
src/colvartypes.h:462
Methodmemory_usage
---------------------------------------------------------------------- */ local memory usage. approximately. */
lammps/src/USER-COLVARS/fix_colvars.cpp:1003
Methodmeshgrid
Returns a mesh grid suitable for plotting the data
colvartools/colvars_grid.py:65
Methodmin_post_force
---------------------------------------------------------------------- */
lammps/src/USER-COLVARS/fix_colvars.cpp:861
Methodmin_setup
lammps/src/USER-COLVARS/fix_colvars.h:53
Methodmodify_param
lammps/src/USER-COLVARS/fix_colvars.cpp:498
Methodn_matrix
src/colvar_UIestimator.h:35
Methodn_vector
src/colvar_UIestimator.h:142
FunctionnamdPython_clear
namd/src/ScriptTcl.C:269
FunctionnamdPython_traverse
namd/src/ScriptTcl.C:264
Functionnonbonded_select
namd/src/SimParameters.C:392
Methodnorm
src/colvartypes.h:220
Methodnorm
Norm of the quaternion
src/colvartypes.h:1115
Methodnr_linbcg_sym
b : RHS of equation x : initial guess for the solution; output is solution itol : convergence criterion
src/colvargrid.cpp:797
Methodnum_biases
src/colvarmodule.cpp:521
Methodnum_cvcs
\brief Number of CVC objects defined
src/colvar.h:394
Methodnum_df
src/colvarvalue.cpp:68
Methodnum_dimensions
Dimensionality of the collective variable (d)
colvartools/plot_colvars_traj.py:74
Methodnum_dimensions
\brief Number of dimensions of the value of this colvar
src/colvar.h:388
Methodnum_dimensions
src/colvarvalue.cpp:91
Methodnum_frames
Number of trajectory frames loaded (n)
colvartools/plot_colvars_traj.py:83
Methodnum_frames
Number of trajectory frames loaded
colvartools/plot_colvars_traj.py:137
Functionnum_replicas
namd/src/colvarproxy_namd.C:1399
Methodnum_replicas
lammps/src/USER-COLVARS/colvarproxy_lammps.cpp:367
Methodnum_variables
How many variables are defined for this bias
src/colvarbias.h:39
Methodnum_variables
Return the number of colvar objects
src/colvargrid.h:100
Methodnum_variables_feature
src/colvarmodule.cpp:507
Methodone_time_init
lammps/src/USER-COLVARS/fix_colvars.cpp:423
Methodopen_traj_file
src/colvarmodule.cpp:1583
Functionoperator *
src/colvartypes.h:962
Functionoperator *
src/colvarvalue.cpp:481
Methodoperator *
src/colvartypes.h:172
Methodoperator *
src/colvartypes.h:598
Methodoperator *
src/colvartypes.h:843
Methodoperator *
src/colvartypes.h:1180
Methodoperator *=
src/colvartypes.h:132
Methodoperator *=
src/colvartypes.h:558
Methodoperator *=
src/colvartypes.h:782
Methodoperator *=
src/colvartypes.h:1126
Methodoperator *=
src/colvarvalue.h:593
Functionoperator +
src/colvarvalue.cpp:425
Methodoperator +
src/colvartypes.h:148
Methodoperator +
src/colvartypes.h:574
Methodoperator +
src/colvartypes.h:831
Methodoperator +
src/colvartypes.h:1166
Methodoperator +=
src/colvartypes.h:114
Methodoperator +=
src/colvartypes.h:540
Methodoperator +=
src/colvartypes.h:768
Methodoperator +=
src/colvartypes.h:1145
Methodoperator +=
src/colvarvalue.h:539
Functionoperator -
src/colvarvalue.cpp:452
Methodoperator -
src/colvartypes.h:160
Methodoperator -
src/colvartypes.h:586
Methodoperator -
src/colvartypes.h:826
Methodoperator -
src/colvartypes.h:1172
Methodoperator -=
src/colvartypes.h:123
Methodoperator -=
src/colvartypes.h:549
Methodoperator -=
src/colvartypes.h:775
Methodoperator -=
src/colvartypes.h:1149
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