/* Data for one foreign lambda, or derivative. */
typedef struct
{
- real *dh; /* the raw energy data. */
- float *dhf; /* raw difference data -- in floats, for storage. */
- unsigned int ndh; /* number of data points */
- unsigned int ndhmax; /* the maximum number of points */
-
- int nhist; /* the number of histograms. There can either be
- 0 (for no histograms)
- 1 (for 'foreign lambda' histograms)
- 2 (for derivative histograms: there's
- a 'forward' and 'backward' histogram
- containing the minimum and maximum
- values, respectively). */
- int *bin[2]; /* the histogram(s) */
- double dx; /* the histogram spacing in kJ/mol. This is the
- same for the two histograms? */
- unsigned int nbins; /* the number of bins in the histograms*/
- int64_t x0[2]; /* the starting point in units of spacing
- of the histogram */
- unsigned int maxbin[2]; /* highest bin number with data */
-
- int type; /* the block type according to dhbtDH, etc. */
- int derivative; /* The derivative direction (as an index in the lambda
- vector) if this delta_h contains derivatives */
- double *lambda; /* lambda vector (or NULL if not applicable) */
- int nlambda; /* length of the lambda vector */
- gmx_bool written; /* whether this data has already been written out */
-
- int64_t subblock_meta_l[5]; /* metadata for an mdebin subblock for
- I/O: for histogram counts, etc.*/
- double *subblock_meta_d; /* metadata subblock for I/O, used for
- communicating doubles (i.e. the lambda
- vector) */
- int subblock_meta_i[4]; /* metadata subblock for I/O, used for
- communicating ints (i.e. derivative indices,
- etc.) */
+ real* dh; /* the raw energy data. */
+ float* dhf; /* raw difference data -- in floats, for storage. */
+ unsigned int ndh; /* number of data points */
+ unsigned int ndhmax; /* the maximum number of points */
+
+ int nhist; /* the number of histograms. There can either be
+ 0 (for no histograms)
+ 1 (for 'foreign lambda' histograms)
+ 2 (for derivative histograms: there's
+ a 'forward' and 'backward' histogram
+ containing the minimum and maximum
+ values, respectively). */
+ int* bin[2]; /* the histogram(s) */
+ double dx; /* the histogram spacing in kJ/mol. This is the
+ same for the two histograms? */
+ unsigned int nbins; /* the number of bins in the histograms*/
+ int64_t x0[2]; /* the starting point in units of spacing
+ of the histogram */
+ unsigned int maxbin[2]; /* highest bin number with data */
+
+ int type; /* the block type according to dhbtDH, etc. */
+ int derivative; /* The derivative direction (as an index in the lambda
+ vector) if this delta_h contains derivatives */
+ double* lambda; /* lambda vector (or NULL if not applicable) */
+ int nlambda; /* length of the lambda vector */
+ gmx_bool written; /* whether this data has already been written out */
+
+ int64_t subblock_meta_l[5]; /* metadata for an mdebin subblock for
+ I/O: for histogram counts, etc.*/
+ double* subblock_meta_d; /* metadata subblock for I/O, used for
+ communicating doubles (i.e. the lambda
+ vector) */
+ int subblock_meta_i[4]; /* metadata subblock for I/O, used for
+ communicating ints (i.e. derivative indices,
+ etc.) */
} t_mde_delta_h;
/* the type definition is in mdebin_bar.h */
struct t_mde_delta_h_coll
{
- t_mde_delta_h *dh; /* the delta h data */
- int ndh; /* the number of delta_h structures */
-
- int nlambda; /* number of bar dU delta_h structures */
- t_mde_delta_h *dh_du; /* the delta h data (pointer into dh) */
-
- int ndhdl; /* number of bar dU delta_h structures */
- t_mde_delta_h *dh_dhdl; /* the dhdl data (pointer into dh) */
-
- t_mde_delta_h *dh_energy; /* energy output block (pointer into dh) */
- t_mde_delta_h *dh_pv; /* pV output block (pointer into dh) */
- t_mde_delta_h *dh_expanded; /* expanded ensemble output block (pointer
- into dh) */
-
- double start_time; /* start time of the current dh collection */
- double delta_time; /* time difference between samples */
- gmx_bool start_time_set; /* whether the start time has been set */
- double start_lambda; /* starting lambda for continuous motion of state*/
- double delta_lambda; /* delta lambda, for continuous motion of state */
- double temperature; /* the temperature of the samples*/
-
- double *native_lambda_vec; /* The lambda vector describing the current
- lambda state if it is set (NULL otherwise) */
- int n_lambda_vec; /* the size of the native lambda vector */
- int *native_lambda_components; /* the native lambda (and by extension,
- foreign lambda) components in terms
- of efptFEP, efptMASS, etc. */
- int lambda_index; /* the lambda_fep_state */
-
- double *subblock_d; /* for writing a metadata mdebin subblock for I/O */
- int *subblock_i; /* for writing a metadata mdebin subblock for I/O */
-
- double *lambda_vec_subblock; /* native lambda vector data subblock for
- I/O */
- int *lambda_index_subblock; /* lambda vector index data subblock for I/O */
+ t_mde_delta_h* dh; /* the delta h data */
+ int ndh; /* the number of delta_h structures */
+
+ int nlambda; /* number of bar dU delta_h structures */
+ t_mde_delta_h* dh_du; /* the delta h data (pointer into dh) */
+
+ int ndhdl; /* number of bar dU delta_h structures */
+ t_mde_delta_h* dh_dhdl; /* the dhdl data (pointer into dh) */
+
+ t_mde_delta_h* dh_energy; /* energy output block (pointer into dh) */
+ t_mde_delta_h* dh_pv; /* pV output block (pointer into dh) */
+ t_mde_delta_h* dh_expanded; /* expanded ensemble output block (pointer
+ into dh) */
+
+ double start_time; /* start time of the current dh collection */
+ double delta_time; /* time difference between samples */
+ gmx_bool start_time_set; /* whether the start time has been set */
+ double start_lambda; /* starting lambda for continuous motion of state*/
+ double delta_lambda; /* delta lambda, for continuous motion of state */
+ double temperature; /* the temperature of the samples*/
+
+ double* native_lambda_vec; /* The lambda vector describing the current
+ lambda state if it is set (NULL otherwise) */
+ int n_lambda_vec; /* the size of the native lambda vector */
+ int* native_lambda_components; /* the native lambda (and by extension,
+ foreign lambda) components in terms
+ of efptFEP, efptMASS, etc. */
+ int lambda_index; /* the lambda_fep_state */
+
+ double* subblock_d; /* for writing a metadata mdebin subblock for I/O */
+ int* subblock_i; /* for writing a metadata mdebin subblock for I/O */
+
+ double* lambda_vec_subblock; /* native lambda vector data subblock for
+ I/O */
+ int* lambda_index_subblock; /* lambda vector index data subblock for I/O */
};
-
/* initialize a collection of delta h histograms/sets
dhc = the collection
ir = the input record */
-void mde_delta_h_coll_init(t_mde_delta_h_coll *dhc,
- const t_inputrec *ir);
+void mde_delta_h_coll_init(t_mde_delta_h_coll* dhc, const t_inputrec* ir);
-void done_mde_delta_h_coll(t_mde_delta_h_coll *dhc);
+void done_mde_delta_h_coll(t_mde_delta_h_coll* dhc);
/* add a bunch of samples to the delta_h collection
dhc = the collection
*/
/* add a bunch of samples - note fep_state is double to allow for better data storage */
-void mde_delta_h_coll_add_dh(t_mde_delta_h_coll *dhc,
+void mde_delta_h_coll_add_dh(t_mde_delta_h_coll* dhc,
double fep_state,
double energy,
double pV,
- double *dhdl,
- double *foreign_dU,
+ double* dhdl,
+ double* foreign_dU,
double time);
/* write the data associated with the du blocks collection as a collection
dhc = the collection
fr = the enxio frame
nblock = the current number of blocks */
-void mde_delta_h_coll_handle_block(t_mde_delta_h_coll *dhc,
- t_enxframe *fr, int nblock);
+void mde_delta_h_coll_handle_block(t_mde_delta_h_coll* dhc, t_enxframe* fr, int nblock);
/* reset the collection of delta_h buffers for a new round of
data gathering */
-void mde_delta_h_coll_reset(t_mde_delta_h_coll *dhc);
+void mde_delta_h_coll_reset(t_mde_delta_h_coll* dhc);
/* set the energyhistory variables to save state */
-void mde_delta_h_coll_update_energyhistory(const t_mde_delta_h_coll *dhc,
- energyhistory_t *enerhist);
+void mde_delta_h_coll_update_energyhistory(const t_mde_delta_h_coll* dhc, energyhistory_t* enerhist);
/* restore the variables from an energyhistory */
-void mde_delta_h_coll_restore_energyhistory(t_mde_delta_h_coll *dhc,
- const delta_h_history_t *deltaH);
+void mde_delta_h_coll_restore_energyhistory(t_mde_delta_h_coll* dhc, const delta_h_history_t* deltaH);
-#endif /* _mdebin_bar_h */
+#endif /* _mdebin_bar_h */
biod.pnpi.spb.ru / alexxy / gromacs.git / blobdiff