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xyzplugin.c File Reference

#include "largefiles.h"
#include <stdio.h>
#include <stdlib.h>
#include <string.h>
#include <ctype.h>
#include "molfile_plugin.h"
#include "periodic_table.h"

Go to the source code of this file.

Compounds
struct	xyzdata
Functions
void *	open_xyz_read (const char *filename, const char *filetype, int *natoms)
int	read_xyz_structure (void *mydata, int *optflags, molfile_atom_t *atoms)
int	read_xyz_timestep (void *mydata, int natoms, molfile_timestep_t *ts)
void	close_xyz_read (void *mydata)
void *	open_xyz_write (const char *filename, const char *filetype, int natoms)
int	write_xyz_structure (void *mydata, int optflags, const molfile_atom_t *atoms)
int	write_xyz_timestep (void *mydata, const molfile_timestep_t *ts)
void	close_xyz_write (void *mydata)
VMDPLUGIN_API int	VMDPLUGIN_init ()
VMDPLUGIN_API int	VMDPLUGIN_register (void *v, vmdplugin_register_cb cb)
VMDPLUGIN_API int	VMDPLUGIN_fini ()
Variables
molfile_plugin_t	plugin

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Function Documentation

void close_xyz_read (  void *    mydata )  [static]

Definition at line 184 of file xyzplugin.c. References xyzdata::file, and xyzdata::file_name. Referenced by VMDPLUGIN_init.

void close_xyz_write (  void *    mydata )  [static]

Definition at line 247 of file xyzplugin.c. References xyzdata::atomlist, xyzdata::file, and xyzdata::file_name. Referenced by VMDPLUGIN_init.

void* open_xyz_read (  const char *    filename, const char *    filetype, int *    natoms )  [static]

Definition at line 61 of file xyzplugin.c. References xyzdata::file, xyzdata::file_name, and xyzdata::numatoms. Referenced by VMDPLUGIN_init.

void* open_xyz_write (  const char *    filename, const char *    filetype, int    natoms )  [static]

Definition at line 192 of file xyzplugin.c. References xyzdata::file, xyzdata::file_name, and xyzdata::numatoms. Referenced by VMDPLUGIN_init.

int read_xyz_structure (  void *    mydata, int *    optflags, molfile_atom_t *    atoms )  [static]

Definition at line 87 of file xyzplugin.c. References molfile_atom_t::atomicnumber, molfile_atom_t::chain, xyzdata::file, xyzdata::file_name, get_pte_idx, get_pte_mass, get_pte_vdw_radius, molfile_atom_t::mass, MOLFILE_ATOMICNUMBER, MOLFILE_ERROR, MOLFILE_MASS, MOLFILE_RADIUS, molfile_atom_t::name, xyzdata::numatoms, molfile_atom_t::radius, molfile_atom_t::resid, molfile_atom_t::resname, molfile_atom_t::segid, and molfile_atom_t::type. Referenced by VMDPLUGIN_init.

int read_xyz_timestep (  void *    mydata, int    natoms, molfile_timestep_t *    ts )  [static]

Definition at line 146 of file xyzplugin.c. References molfile_timestep_t::coords, xyzdata::file, xyzdata::file_name, and MOLFILE_ERROR. Referenced by VMDPLUGIN_init.

VMDPLUGIN_API int VMDPLUGIN_fini (  void    )

The Fini method is called when the application will no longer use any plugins in the library. Definition at line 285 of file xyzplugin.c. References VMDPLUGIN_API, and VMDPLUGIN_SUCCESS.

VMDPLUGIN_API int VMDPLUGIN_init (  void    )

Init routine: called the first time the library is loaded by the application and before any other API functions are referenced. Return 0 on success. Definition at line 258 of file xyzplugin.c. References molfile_plugin_t::close_file_read, molfile_plugin_t::close_file_write, close_xyz_read, close_xyz_write, molfile_plugin_t::filename_extension, MOLFILE_PLUGIN_TYPE, molfile_plugin_t::open_file_read, molfile_plugin_t::open_file_write, open_xyz_read, open_xyz_write, molfile_plugin_t::read_next_timestep, molfile_plugin_t::read_structure, read_xyz_structure, read_xyz_timestep, vmdplugin_ABIVERSION, VMDPLUGIN_API, VMDPLUGIN_SUCCESS, VMDPLUGIN_THREADSAFE, molfile_plugin_t::write_structure, molfile_plugin_t::write_timestep, write_xyz_structure, and write_xyz_timestep.

VMDPLUGIN_API int VMDPLUGIN_register (  void *   , vmdplugin_register_cb    )

Allow the library to register plugins with the application. The callback should be called using the passed-in void pointer, which should not be interpreted in any way by the library. Each vmdplugin_t pointer passed to the application should point to statically-allocated or heap-allocated memory and should never be later modified by the plugin. Applications must be permitted to retain only a copy of the the plugin pointer, without making any deep copy of the items in the struct. Definition at line 280 of file xyzplugin.c. References VMDPLUGIN_API, vmdplugin_register_cb, and VMDPLUGIN_SUCCESS.

int write_xyz_structure (  void *    mydata, int    optflags, const molfile_atom_t *    atoms )  [static]

Definition at line 211 of file xyzplugin.c. References xyzdata::atomlist, and xyzdata::numatoms. Referenced by VMDPLUGIN_init.

int write_xyz_timestep (  void *    mydata, const molfile_timestep_t *    ts )  [static]

Definition at line 219 of file xyzplugin.c. References molfile_atom_t::atomicnumber, xyzdata::atomlist, molfile_timestep_t::coords, xyzdata::file, molfile_atom_t::name, and xyzdata::numatoms. Referenced by VMDPLUGIN_init.

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Variable Documentation

molfile_plugin_t plugin [static]

Definition at line 256 of file xyzplugin.c.

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