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dump_custom.h
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rLAMMPS lammps
dump_custom.h
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/* -*- c++ -*- ----------------------------------------------------------
LAMMPS - Large-scale Atomic/Molecular Massively Parallel Simulator
http://lammps.sandia.gov, Sandia National Laboratories
Steve Plimpton, sjplimp@sandia.gov
Copyright (2003) Sandia Corporation. Under the terms of Contract
DE-AC04-94AL85000 with Sandia Corporation, the U.S. Government retains
certain rights in this software. This software is distributed under
the GNU General Public License.
See the README file in the top-level LAMMPS directory.
------------------------------------------------------------------------- */
#ifdef DUMP_CLASS
DumpStyle
(
custom
,
DumpCustom
)
#else
#ifndef LMP_DUMP_CUSTOM_H
#define LMP_DUMP_CUSTOM_H
#include "dump.h"
namespace
LAMMPS_NS
{
class
DumpCustom
:
public
Dump
{
public:
DumpCustom
(
class
LAMMPS
*
,
int
,
char
**
);
virtual
~
DumpCustom
();
protected:
int
nevery
;
// dump frequency for output
int
iregion
;
// -1 if no region, else which region
char
*
idregion
;
// region ID
int
nthresh
;
// # of defined threshholds
int
*
thresh_array
;
// array to threshhhold on for each nthresh
int
*
thresh_op
;
// threshhold operation for each nthresh
double
*
thresh_value
;
// threshhold value for each nthresh
int
expand
;
// flag for whether field args were expanded
char
**
earg
;
// field names with wildcard expansion
int
nargnew
;
// size of earg
int
*
vtype
;
// type of each vector (INT, DOUBLE)
char
**
vformat
;
// format string for each vector element
char
*
columns
;
// column labels
int
nchoose
;
// # of selected atoms
int
maxlocal
;
// size of atom selection and variable arrays
int
*
choose
;
// local indices of selected atoms
double
*
dchoose
;
// value for each atom to threshhold against
int
*
clist
;
// compressed list of indices of selected atoms
int
nfield
;
// # of keywords listed by user
int
ioptional
;
// index of start of optional args
int
*
field2index
;
// which compute,fix,variable calcs this field
int
*
argindex
;
// index into compute,fix scalar_atom,vector_atom
// 0 for scalar_atom, 1-N for vector_atom values
int
ncompute
;
// # of Compute objects used by dump
char
**
id_compute
;
// their IDs
class
Compute
**
compute
;
// list of ptrs to the Compute objects
int
nfix
;
// # of Fix objects used by dump
char
**
id_fix
;
// their IDs
class
Fix
**
fix
;
// list of ptrs to the Fix objects
int
nvariable
;
// # of Variables used by dump
char
**
id_variable
;
// their names
int
*
variable
;
// list of indices for the Variables
double
**
vbuf
;
// local storage for variable evaluation
int
ncustom
;
// # of custom atom properties
char
**
id_custom
;
// their names
int
*
flag_custom
;
// their data type
int
ntypes
;
// # of atom types
char
**
typenames
;
// array of element names for each type
// private methods
virtual
void
init_style
();
virtual
void
write_header
(
bigint
);
int
count
();
void
pack
(
tagint
*
);
virtual
int
convert_string
(
int
,
double
*
);
virtual
void
write_data
(
int
,
double
*
);
bigint
memory_usage
();
int
parse_fields
(
int
,
char
**
);
int
add_compute
(
char
*
);
int
add_fix
(
char
*
);
int
add_variable
(
char
*
);
int
add_custom
(
char
*
,
int
);
virtual
int
modify_param
(
int
,
char
**
);
typedef
void
(
DumpCustom
::*
FnPtrHeader
)(
bigint
);
FnPtrHeader
header_choice
;
// ptr to write header functions
void
header_binary
(
bigint
);
void
header_binary_triclinic
(
bigint
);
void
header_item
(
bigint
);
void
header_item_triclinic
(
bigint
);
typedef
int
(
DumpCustom
::*
FnPtrConvert
)(
int
,
double
*
);
FnPtrConvert
convert_choice
;
// ptr to convert data functions
int
convert_image
(
int
,
double
*
);
int
convert_noimage
(
int
,
double
*
);
typedef
void
(
DumpCustom
::*
FnPtrWrite
)(
int
,
double
*
);
FnPtrWrite
write_choice
;
// ptr to write data functions
void
write_binary
(
int
,
double
*
);
void
write_string
(
int
,
double
*
);
void
write_lines
(
int
,
double
*
);
// customize by adding a method prototype
typedef
void
(
DumpCustom
::*
FnPtrPack
)(
int
);
FnPtrPack
*
pack_choice
;
// ptrs to pack functions
void
pack_compute
(
int
);
void
pack_fix
(
int
);
void
pack_variable
(
int
);
void
pack_custom
(
int
);
void
pack_id
(
int
);
void
pack_molecule
(
int
);
void
pack_proc
(
int
);
void
pack_procp1
(
int
);
void
pack_type
(
int
);
void
pack_mass
(
int
);
void
pack_x
(
int
);
void
pack_y
(
int
);
void
pack_z
(
int
);
void
pack_xs
(
int
);
void
pack_ys
(
int
);
void
pack_zs
(
int
);
void
pack_xs_triclinic
(
int
);
void
pack_ys_triclinic
(
int
);
void
pack_zs_triclinic
(
int
);
void
pack_xu
(
int
);
void
pack_yu
(
int
);
void
pack_zu
(
int
);
void
pack_xu_triclinic
(
int
);
void
pack_yu_triclinic
(
int
);
void
pack_zu_triclinic
(
int
);
void
pack_xsu
(
int
);
void
pack_ysu
(
int
);
void
pack_zsu
(
int
);
void
pack_xsu_triclinic
(
int
);
void
pack_ysu_triclinic
(
int
);
void
pack_zsu_triclinic
(
int
);
void
pack_ix
(
int
);
void
pack_iy
(
int
);
void
pack_iz
(
int
);
void
pack_vx
(
int
);
void
pack_vy
(
int
);
void
pack_vz
(
int
);
void
pack_fx
(
int
);
void
pack_fy
(
int
);
void
pack_fz
(
int
);
void
pack_q
(
int
);
void
pack_mux
(
int
);
void
pack_muy
(
int
);
void
pack_muz
(
int
);
void
pack_mu
(
int
);
void
pack_radius
(
int
);
void
pack_diameter
(
int
);
void
pack_omegax
(
int
);
void
pack_omegay
(
int
);
void
pack_omegaz
(
int
);
void
pack_angmomx
(
int
);
void
pack_angmomy
(
int
);
void
pack_angmomz
(
int
);
void
pack_tqx
(
int
);
void
pack_tqy
(
int
);
void
pack_tqz
(
int
);
};
}
#endif
#endif
/* ERROR/WARNING messages:
E: No dump custom arguments specified
The dump custom command requires that atom quantities be specified to
output to dump file.
E: Invalid attribute in dump custom command
Self-explantory.
E: Dump_modify format string is too short
There are more fields to be dumped in a line of output than your
format string specifies.
E: Could not find dump custom compute ID
Self-explanatory.
E: Could not find dump custom fix ID
Self-explanatory.
E: Dump custom and fix not computed at compatible times
The fix must produce per-atom quantities on timesteps that dump custom
needs them.
E: Could not find dump custom variable name
Self-explanatory.
E: Could not find custom per-atom property ID
Self-explanatory.
E: Region ID for dump custom does not exist
Self-explanatory.
E: Compute used in dump between runs is not current
The compute was not invoked on the current timestep, therefore it
cannot be used in a dump between runs.
E: Threshhold for an atom property that isn't allocated
A dump threshhold has been requested on a quantity that is
not defined by the atom style used in this simulation.
E: Dumping an atom property that isn't allocated
The chosen atom style does not define the per-atom quantity being
dumped.
E: Dump custom compute does not compute per-atom info
Self-explanatory.
E: Dump custom compute does not calculate per-atom vector
Self-explanatory.
E: Dump custom compute does not calculate per-atom array
Self-explanatory.
E: Dump custom compute vector is accessed out-of-range
Self-explanatory.
E: Dump custom fix does not compute per-atom info
Self-explanatory.
E: Dump custom fix does not compute per-atom vector
Self-explanatory.
E: Dump custom fix does not compute per-atom array
Self-explanatory.
E: Dump custom fix vector is accessed out-of-range
Self-explanatory.
E: Dump custom variable is not atom-style variable
Only atom-style variables generate per-atom quantities, needed for
dump output.
E: Custom per-atom property ID is not floating point
Self-explanatory.
E: Custom per-atom property ID is not integer
Self-explanatory.
E: Illegal ... command
Self-explanatory. Check the input script syntax and compare to the
documentation for the command. You can use -echo screen as a
command-line option when running LAMMPS to see the offending line.
E: Dump_modify region ID does not exist
Self-explanatory.
E: Dump modify element names do not match atom types
Number of element names must equal number of atom types.
E: Invalid attribute in dump modify command
Self-explantory.
E: Could not find dump modify compute ID
Self-explanatory.
E: Dump modify compute ID does not compute per-atom info
Self-explanatory.
E: Dump modify compute ID does not compute per-atom vector
Self-explanatory.
E: Dump modify compute ID does not compute per-atom array
Self-explanatory.
E: Dump modify compute ID vector is not large enough
Self-explanatory.
E: Could not find dump modify fix ID
Self-explanatory.
E: Dump modify fix ID does not compute per-atom info
Self-explanatory.
E: Dump modify fix ID does not compute per-atom vector
Self-explanatory.
E: Dump modify fix ID does not compute per-atom array
Self-explanatory.
E: Dump modify fix ID vector is not large enough
Self-explanatory.
E: Could not find dump modify variable name
Self-explanatory.
E: Dump modify variable is not atom-style variable
Self-explanatory.
E: Could not find dump modify custom atom floating point property ID
Self-explanatory.
E: Could not find dump modify custom atom integer property ID
Self-explanatory.
E: Invalid dump_modify threshhold operator
Operator keyword used for threshold specification in not recognized.
*/
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