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ST_stats.c
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/**
* \file ST_stats.c
* \brief Record keeping for the entire model.
*
* Statistics are kept for all metrics of a plant's lifecycle.
* These statistics are kept for [resource groups](\ref RGROUP),
* [species](\ref SPECIES), [individuals](\ref INDIVIDUAL), and
* [mortality events](\ref MORTALITY).
*
* History:
* (6/15/2000) -- INITIAL CODING - cwb
* 1/9/01 - revised to make extensive use of malloc()
* 5/28/2013 (DLM) - added module level variable accumulators (grid_Stat) for the grid and functions.
* 07/30/2016 (AKT) Fixed bug at std_dev calculation
* 8/30/2019 (Chandler Haukap) - Removed grid_Stat accumulators and
* functionality. Gridded mode accumulators are now stored in the
* Celltype struct in ST_grid.h and swapped into this module using
* a call to stat_Copy_Accumulators().
*
* \author Chris Bennett (initial coding)
* \date 15 June 2000
*
* \author DLM (added gridded mode variables and functions)
* \date 28 May 2016
*
* \author AKT (fixed bug in std_dev calculation)
* \date 30 July 2016
*
* \author Chandler Haukap (overhauled all changes made by DLM)
* \author Kyle Palmquist
* \author Freddy Pierson
* \date 23 August 2019
*
* \ingroup STATISTICS
*/
/* =================================================== */
/* INCLUDES / DEFINES */
/* --------------------------------------------------- */
#include <string.h>
#include <stdlib.h>
#include "ST_steppe.h"
#include "sw_src/include/filefuncs.h"
#include "sw_src/include/myMemory.h"
#include "ST_stats.h" // Contains most of the function declarations.
#include "ST_seedDispersal.h" // externs `UseSeedDispersal`
#include "ST_globals.h"
/* ----------------- Local Variables --------------------- */
StatType *_Dist, *_Ppt, *_Temp,
*_Grp, *_Gsize, *_Gpr, *_Gmort, *_Gestab,
*_Spp, *_Indv, *_Smort, *_Sestab, *_Sreceived, *_Grazed;
FireStatsType *_Gwf;
/*************** Local Function Declarations ***************/
static void _init( void);
static RealF _get_avg( struct accumulators_st *p);
static RealF _get_std( struct accumulators_st *p);
/** \brief A macro for collecting statistics.
*
* \param p is a pointer to the \ref accumulators_st which is collecting the data.
* \param v is a double which will be collected.
*
* Note that the syntax checker is obviated, so make sure
* you follow the this prototype:
* static void _collect_add(struct accumulators_st *p, double v).
*
* \ingroup STATISTICS_PRIVATE
*/
#define _collect_add(p, v) { \
(p)->nobs++; \
RealF old_ave = (p)->ave; \
(p)->ave = get_running_mean((p)->nobs, (p)->ave, (v)); \
(p)->sum_dif_sqr += get_running_sqr(old_ave, (p)->ave, (v)); \
(p)->sd = final_running_sd((p)->nobs, (p)->sum_dif_sqr); \
}
/** \brief A macro that copies the data of p into v.
*
* \param p is a pointer to the \ref accumulators_st to copy from.
* \param v is a pointer to the \ref accumulators_st to copy to.
*
* The correct usage is _copy_over(struct accumulators_st *p, struct accumulators_st *v).
*
* \ingroup STATISTICS_PRIVATE
*/
#define _copy_over(p, v) { \
(p)->ave = (v)->ave; \
(p)->sum_dif_sqr = (v)->sum_dif_sqr; \
(p)->sd = (v)->sd; \
(p)->nobs = (v)->nobs; \
}
static Bool firsttime = TRUE;
/***********************************************************/
/* BEGIN FUNCTIONS */
/***********************************************************/
/**
* \brief Collects the requested statistics.
*
* \param year is the year you are collecting. year should be base 1.
*
* Statistics are collected for every metric specified in bmassflags.in
* and mortflags.in.
*
* \sa Stat_Output() which is where the collected statistics are printed
* to CSV files.
*
* \ingroup STATISTICS
*/
void stat_Collect( Int year ) {
/* fill data structures with samples to be
computed later in Stat_Output().
enter with year base1, but subtract 1 for index (base0)
*/
SppIndex sp;
GrpIndex rg;
double bmass;
if (firsttime) {
firsttime = FALSE;
_init();
}
year--;
if (BmassFlags.dist && Plot->disturbed)
_Dist->s[year].nobs++;
if (BmassFlags.ppt)
_collect_add( &_Ppt->s[year], Env->ppt);
if (BmassFlags.tmp)
_collect_add( &_Temp->s[year], Env->temp);
if (BmassFlags.grpb) {
if (BmassFlags.graz) {
ForEachGroup(rg) {
_collect_add(&_Grazed[rg].s[year], RGroup[rg]->res_grazed);
}
}
if (BmassFlags.wildfire) {
_Gwf->wildfire[year] += (RGroup[0]->wildfire) ? 1 : 0;
}
ForEachGroup(rg) {
bmass = (double) RGroup_GetBiomass(rg);
if ( LT(bmass, 0.0) ) {
LogError(&LogInfo, LOGWARN, "Grp %s biomass(%.4f) < 0 in stat_Collect()",
RGroup[rg]->name, bmass);
bmass = 0.0;
}
_collect_add( &_Grp[rg].s[year], bmass);
if (BmassFlags.size)
_collect_add( &_Gsize[rg].s[year],
getRGroupRelsize(rg));
if (BmassFlags.pr)
_collect_add( &_Gpr[rg].s[year],
RGroup[rg]->pr);
if (BmassFlags.prescribedfire){
_Gwf->prescribedFire[rg][year] += (RGroup[rg]->prescribedfire) ? 1 : 0;
}
}
}
if (BmassFlags.sppb || BmassFlags.indv) {
ForEachSpecies(sp) {
if (BmassFlags.sppb) {
bmass = (double)Species_GetBiomass(sp);
if (LT(bmass, 0.0)) {
LogError(&LogInfo, LOGWARN, "Spp %s biomass(%.4f) < 0 in stat_Collect()",
Species[sp]->name, bmass);
bmass = 0.0;
}
_collect_add(&_Spp[sp].s[year], bmass);
}
if (BmassFlags.indv) {
_collect_add(&_Indv[sp].s[year],
(double)Species[sp]->est_count);
}
}
}
if(UseSeedDispersal && UseGrid) {
ForEachSpecies(sp)
_collect_add( &_Sreceived[sp].s[year], (double) Species[sp]->received_prob);
}
}
/**
* \brief initialize the statistics accumulators.
*
* The function will allocate the accumulators. Note that this function only has to be
* called once per simulation.
*
* \sideeffect Accumulators are allocated memory based on which statistics are requested
* in bmassflags.in and mortflags.in.
*
* \ingroup STATISTICS_PRIVATE
*/
static void _init( void) {
/* must be called after model is initialized */
SppIndex sp;
GrpIndex rg;
if (BmassFlags.graz) {
_Grazed = (StatType*)Mem_Calloc(SuperGlobals.max_rgroups, sizeof(StatType), "_stat_init(Grazed)", &LogInfo);
ForEachGroup(rg) {
_Grazed[rg].s = (struct accumulators_st*)Mem_Calloc(SuperGlobals.runModelYears,
sizeof(struct accumulators_st),
"_stat_init(Grazed[rg].s)", &LogInfo);
}
}
if (BmassFlags.dist) {
_Dist = (StatType*) Mem_Calloc(1, sizeof(StatType), "_stat_init(Dist)", &LogInfo);
_Dist->s = (struct accumulators_st *)
Mem_Calloc( SuperGlobals.runModelYears,
sizeof(struct accumulators_st),
"_stat_init(Dist)", &LogInfo);
}
if (BmassFlags.ppt) {
_Ppt = (StatType*) Mem_Calloc(1, sizeof(StatType), "_stat_init(PPT", &LogInfo);
_Ppt->s = (struct accumulators_st *)
Mem_Calloc( SuperGlobals.runModelYears,
sizeof(struct accumulators_st),
"_stat_init(PPT)", &LogInfo);
}
if (BmassFlags.tmp) {
_Temp = (StatType*) Mem_Calloc(1, sizeof(StatType), "_stat_init(Temp)", &LogInfo);
_Temp->s = (struct accumulators_st *)
Mem_Calloc( SuperGlobals.runModelYears,
sizeof(struct accumulators_st),
"_stat_init(Temp)", &LogInfo);
}
if (BmassFlags.grpb) {
_Grp = (struct stat_st *)
Mem_Calloc( Globals->grpCount,
sizeof(struct stat_st),
"_stat_init(Grp)", &LogInfo);
ForEachGroup(rg)
_Grp[rg].s = (struct accumulators_st *)
Mem_Calloc( SuperGlobals.runModelYears,
sizeof(struct accumulators_st),
"_stat_init(Grp[rg].s)", &LogInfo);
if (BmassFlags.size) {
_Gsize = (struct stat_st *)
Mem_Calloc( Globals->grpCount,
sizeof(struct stat_st),
"_stat_init(GSize)", &LogInfo);
ForEachGroup(rg)
_Gsize[rg].s = (struct accumulators_st *)
Mem_Calloc( SuperGlobals.runModelYears,
sizeof(struct accumulators_st),
"_stat_init(GSize[rg].s)", &LogInfo);
}
if (BmassFlags.pr) {
_Gpr = (struct stat_st *)
Mem_Calloc( Globals->grpCount,
sizeof(struct stat_st),
"_stat_init(Gpr)", &LogInfo);
ForEachGroup(rg)
_Gpr[rg].s = (struct accumulators_st *)
Mem_Calloc( SuperGlobals.runModelYears,
sizeof(struct accumulators_st),
"_stat_init(Gpr[rg].s)", &LogInfo);
}
if (BmassFlags.wildfire || BmassFlags.prescribedfire) {
_Gwf = (struct fire_st *)
Mem_Calloc( 1,
sizeof(struct fire_st),
"_stat_init(Gwf)", &LogInfo);
_Gwf->wildfire = (int *)
Mem_Calloc( 1,
sizeof(int) * SuperGlobals.runModelYears,
"_stat_init(Gwf->wildfire)", &LogInfo);
_Gwf->prescribedFire = (int **)
Mem_Calloc( 1,
sizeof(int **) * SuperGlobals.max_rgroups,
"_stat_init(Gwf->prescribedfire", &LogInfo);
ForEachGroup(rg){
_Gwf->prescribedFire[rg] = (int *)
Mem_Calloc( SuperGlobals.runModelYears,
sizeof(int) * SuperGlobals.runModelYears,
"_stat_init(Gwf->prescribedFire)", &LogInfo);
}
}
}
if (MortFlags.group) {
_Gestab = (struct stat_st *)
Mem_Calloc( Globals->grpCount,
sizeof(struct stat_st),
"_stat_init(Gestab)", &LogInfo);
ForEachGroup(rg)
_Gestab[rg].s = (struct accumulators_st *)
Mem_Calloc( 1, sizeof(struct accumulators_st),
"_stat_init(Gestab[rg].s)", &LogInfo);
_Gmort = (struct stat_st *)
Mem_Calloc( Globals->grpCount,
sizeof(struct stat_st),
"_stat_init(Gmort)", &LogInfo);
ForEachGroup(rg)
_Gmort[rg].s = (struct accumulators_st *)
Mem_Calloc( GrpMaxAge(rg),
sizeof(struct accumulators_st),
"_stat_init(Gmort[rg].s)", &LogInfo);
}
if (BmassFlags.sppb) {
_Spp = (struct stat_st *)
Mem_Calloc( Globals->sppCount,
sizeof(struct stat_st),
"_stat_init(Spp)", &LogInfo);
ForEachSpecies(sp)
_Spp[sp].s = (struct accumulators_st *)
Mem_Calloc( SuperGlobals.runModelYears,
sizeof(struct accumulators_st),
"_stat_init(Spp[sp].s)", &LogInfo);
}
if (BmassFlags.indv) {
_Indv = (struct stat_st*)
Mem_Calloc(Globals->sppCount,
sizeof(struct stat_st),
"_stat_init(Indv)", &LogInfo);
ForEachSpecies(sp)
_Indv[sp].s = (struct accumulators_st*)
Mem_Calloc(SuperGlobals.runModelYears,
sizeof(struct accumulators_st),
"_stat_init(Indv[sp].s)", &LogInfo);
}
if (MortFlags.species) {
_Sestab = (struct stat_st *)
Mem_Calloc( Globals->sppCount,
sizeof(struct stat_st),
"_stat_init(Sestab)", &LogInfo);
ForEachSpecies(sp)
_Sestab[sp].s = (struct accumulators_st *)
Mem_Calloc( 1, sizeof(struct accumulators_st),
"_stat_init(Sestab[sp].s)", &LogInfo);
_Smort = (struct stat_st *)
Mem_Calloc( Globals->sppCount,
sizeof(struct stat_st),
"_stat_init(Smort)", &LogInfo);
ForEachSpecies(sp)
_Smort[sp].s = (struct accumulators_st *)
Mem_Calloc( SppMaxAge(sp),
sizeof(struct accumulators_st),
"_stat_init(Smort[sp].s)", &LogInfo);
}
if (UseSeedDispersal && UseGrid) {
_Sreceived = Mem_Calloc( Globals->sppCount, sizeof(struct stat_st), "_stat_init(Sreceived)", &LogInfo);
ForEachSpecies(sp) {
_Sreceived[sp].s = (struct accumulators_st *)Mem_Calloc( SuperGlobals.runModelYears,
sizeof(struct accumulators_st), "_stat_init(Sreceived[sp].s)",
&LogInfo);
_Sreceived[sp].name = &Species[sp]->name[0];
}
}
/* "appoint" names of columns*/
if (BmassFlags.grpb) {
ForEachGroup(rg)
_Grp[rg].name = &RGroup[rg]->name[0];
}
if (MortFlags.group) {
ForEachGroup(rg)
_Gmort[rg].name = &RGroup[rg]->name[0];
}
if (BmassFlags.sppb) {
ForEachSpecies(sp)
_Spp[sp].name = &Species[sp]->name[0];
}
if (MortFlags.species) {
ForEachSpecies(sp)
_Smort[sp].name = &Species[sp]->name[0];
}
}
/* Shallow copies StatType and FireStatsType pointers to the local pointers.
This is intended to be used with gridded mode to load in a given cell */
void stat_Copy_Accumulators(StatType* newDist, StatType* newPpt, StatType* newTemp, StatType* newGrp, StatType* newGsize,
StatType* newGpr, StatType* newGmort, StatType* newGestab, StatType* newSpp, StatType* newIndv,
StatType* newSmort, StatType* newSestab, StatType* newSrecieved, StatType* newGrazed, FireStatsType* newGwf,
Bool firstTime){
/* Move the local pointers to the location of the given pointers */
_Dist = newDist;
_Ppt = newPpt;
_Temp = newTemp;
_Grp = newGrp;
_Gsize = newGsize;
_Gpr = newGpr;
_Gmort = newGmort;
_Gestab = newGestab;
_Spp = newSpp;
_Indv = newIndv;
_Smort = newSmort;
_Sestab = newSestab;
_Sreceived = newSrecieved;
_Grazed = newGrazed;
_Gwf = newGwf;
firsttime = firstTime;
}
/***********************************************************/
void stat_free_mem( void ) {
//frees memory allocated in this module
GrpIndex gp;
SppIndex sp;
if(BmassFlags.grpb)
ForEachGroup(gp) {
free(_Grp[gp].s);
if (BmassFlags.size) free(_Gsize[gp].s);
if (BmassFlags.pr) free(_Gpr[gp].s);
if (BmassFlags.graz) free(_Grazed[gp].s);
}
if (BmassFlags.sppb || BmassFlags.indv) {
ForEachSpecies(sp) {
if(BmassFlags.sppb)
free(_Spp[sp].s);
if(BmassFlags.indv)
free(_Indv[sp].s);
}
}
if (BmassFlags.wildfire || BmassFlags.prescribedfire){
free(_Gwf->wildfire);
ForEachGroup(gp) {
free(_Gwf->prescribedFire[gp]);
}
free(_Gwf->prescribedFire);
}
if (BmassFlags.dist) {
free(_Dist->s);
free(_Dist);
}
if (BmassFlags.ppt) {
free(_Ppt->s);
free(_Ppt);
}
if (BmassFlags.tmp) {
free(_Temp->s);
free(_Temp);
}
if(BmassFlags.grpb) {
free(_Grp);
if (BmassFlags.size) free(_Gsize);
if (BmassFlags.size) free(_Gpr);
if (BmassFlags.graz) free(_Grazed);
}
if (MortFlags.group) {
ForEachGroup(gp) {
free(_Gmort[gp].s);
free(_Gestab[gp].s);
}
free(_Gmort);
free(_Gestab);
}
if(BmassFlags.sppb) {
free(_Spp);
}
if (BmassFlags.indv) free(_Indv);
if (MortFlags.species) {
ForEachSpecies(sp) {
free(_Smort[sp].s);
free(_Sestab[sp].s);
}
free(_Smort);
free(_Sestab);
}
if (UseSeedDispersal && UseGrid) {
ForEachSpecies(sp)
free(_Sreceived[sp].s);
free(_Sreceived);
}
}
/**
* \brief Collects mortality statistics across iterations for all entries in \ref RGroup.
*
* Mortality statistics are accumulated in species_Update_Kills(). stat_Collect_GMort should
* be called after every iteration to add the iteration to the simulation statistics.
*
* \sideeffect \ref _Gmort will be modified according to the last iteration's mortality stats.
*
* \sa species_Update_Kills().
*
* \ingroup STATISTICS
*/
void stat_Collect_GMort ( void ) {
IntS rg, age;
ForEachGroup(rg) {
if (!RGroup[rg]->use_me) continue;
_collect_add( _Gestab[rg].s, RGroup[rg]->estabs);
for (age=0; age < GrpMaxAge(rg); age++)
_collect_add( &_Gmort[rg].s[age],
(double) RGroup[rg]->kills[age]);
}
}
/**
* \brief Collects mortality statistics across iterations for all entries in \ref Species.
*
* Mortality statistics are accumulated in species_Update_Kills(). stat_Collect_SMort should
* be called after every iteration to add the iteration to the simulation statistics.
*
* \sideeffect \ref _Smort will be modified according to the last iteration's mortality stats.
*
* \sa species_Update_Kills().
*
* \ingroup STATISTICS
*/
void stat_Collect_SMort ( void ) {
SppIndex sp;
IntS age;
ForEachSpecies(sp) {
if ( !Species[sp]->use_me) continue;
_collect_add( _Sestab[sp].s, Species[sp]->estabs);
for (age=0; age < SppMaxAge(sp); age++)
_collect_add( &_Smort[sp].s[age],
(double) Species[sp]->kills[age]);
}
}
/**
* \brief Prints mortality statistics to the file specified in Globals.mort.fp_year.
*
* This function Will create the header and all entries in the yearly mortality output
* file. The statistics output are those specified in mortflags.in.
*
* \ingroup STATISTICS
*/
void stat_Output_YrMorts( void ) {
FILE *f = Globals->mort.fp_year;
IntS age;
GrpIndex rg;
SppIndex sp;
char sep = MortFlags.sep;
if (!MortFlags.yearly) return;
fprintf(f,"Age");
if (MortFlags.group) {
ForEachGroup(rg) fprintf(f,"%c%s", sep, RGroup[rg]->name);
}
if (MortFlags.species) {
ForEachSpecies(sp)
fprintf(f,"%c%s", sep, Species[sp]->name);
}
fprintf(f,"\n");
/* end of the first line */
fprintf(f,"Estabs");
if (MortFlags.group) {
ForEachGroup(rg)
fprintf(f,"%c%d", sep, RGroup[rg]->estabs);
}
if (MortFlags.species) {
ForEachSpecies(sp)
fprintf(f,"%c%d", sep, Species[sp]->estabs);
}
fprintf(f,"\n");
/* print one line of kill frequencies per age */
for(age=0; age < Globals->Max_Age; age++) {
fprintf(f,"%d", age+1);
if (MortFlags.group) {
ForEachGroup(rg){
if( age < GrpMaxAge(rg) )
fprintf(f,"%c%d", sep, RGroup[rg]->kills[age]);
else
fprintf(f,"%c", sep);
}
}
if (MortFlags.species) {
ForEachSpecies(sp) {
if (age < SppMaxAge(sp))
fprintf(f,"%c%d", sep, Species[sp]->kills[age]);
else
fprintf(f,"%c", sep);
}
}
fprintf(f,"\n");
}
CloseFile(&f, &LogInfo);
}
/**
* \brief Outputs all mortality statistics.
*
* The file they are printed to is denoted by \ref Parm_name().
* The statistics printed are those denoted in the mortflags.in file.
*
* \ingroup STATISTICS
*/
void stat_Output_AllMorts( void) {
FILE *f;
IntS age;
GrpIndex rg;
SppIndex sp;
char sep = MortFlags.sep;
if (!MortFlags.summary) return;
f = OpenFile( Parm_name(F_MortAvg), "w", &LogInfo);
fprintf(f,"Age");
if (MortFlags.group) {
ForEachGroup(rg) fprintf(f,"%c%s", sep, RGroup[rg]->name);
}
if (MortFlags.species) {
ForEachSpecies(sp)
fprintf(f,"%c%s", sep, Species[sp]->name);
}
fprintf(f,"\n");
/* end of first line */
/* print one line of establishments */
fprintf(f,"Estabs");
if (MortFlags.group) {
ForEachGroup(rg)
fprintf(f,"%c%5.1f", sep, _get_avg(_Gestab[rg].s));
}
if (MortFlags.species) {
ForEachSpecies(sp)
fprintf(f,"%c%5.1f", sep, _get_avg( _Sestab[sp].s));
}
fprintf(f,"\n");
/* print one line of kill frequencies per age */
for(age=0; age < Globals->Max_Age; age++) {
fprintf(f,"%d", age+1);
if (MortFlags.group) {
ForEachGroup(rg)
fprintf(f,"%c%5.1f", sep, ( age < GrpMaxAge(rg) )
? _get_avg(&_Gmort[rg].s[age])
: 0.);
}
if (MortFlags.species) {
ForEachSpecies(sp) {
fprintf(f,"%c%5.1f", sep, ( age < SppMaxAge(sp))
? _get_avg(&_Smort[sp].s[age])
: 0.);
}
}
fprintf(f,"\n");
}
CloseFile(&f, &LogInfo);
}
/***********************************************************/
void stat_Output_AllBmass(void) {
char buf[2048], tbuf[80], sep = BmassFlags.sep;
IntS yr;
GrpIndex rg;
SppIndex sp;
FILE *f;
if (!BmassFlags.summary) return;
f = OpenFile( Parm_name( F_BMassAvg), "w", &LogInfo);
buf[0]='\0';
if (BmassFlags.header) {
make_header_with_std(buf);
fprintf(f, "%s", buf);
}
for( yr=1; yr<= SuperGlobals.runModelYears; yr++) {
*buf = '\0';
if (BmassFlags.yr)
sprintf(buf, "%d%c", yr, sep);
if (BmassFlags.dist) {
sprintf(tbuf, "%ld%c", _Dist->s[yr-1].nobs,
sep);
strcat(buf, tbuf);
}
if (BmassFlags.ppt) {
sprintf(tbuf, "%f%c%f%c",
_get_avg(&_Ppt->s[yr-1]), sep,
_get_std(&_Ppt->s[yr-1]), sep);
strcat( buf, tbuf);
}
if (BmassFlags.pclass) {
sprintf(tbuf, "\"NA\"%c", sep);
strcat( buf, tbuf);
}
if (BmassFlags.tmp) {
sprintf(tbuf, "%f%c%f%c",
_get_avg(&_Temp->s[yr-1]), sep,
_get_std(&_Temp->s[yr-1]), sep);
strcat( buf, tbuf);
}
if (BmassFlags.grpb) {
if (BmassFlags.wildfire) {
sprintf(tbuf, "%d%c",
_Gwf->wildfire[yr-1], sep);
strcat( buf, tbuf);
}
ForEachGroup(rg) {
sprintf(tbuf, "%f%c%f%c",
_get_avg(&_Grp[rg].s[yr-1]), sep,
_get_std(&_Grp[rg].s[yr-1]), sep);
strcat( buf, tbuf);
if (BmassFlags.size) {
sprintf(tbuf, "%f%c",
_get_avg( &_Gsize[rg].s[yr-1]), sep);
strcat( buf, tbuf);
}
if (BmassFlags.pr) {
sprintf(tbuf, "%f%c%f%c",
_get_avg( &_Gpr[rg].s[yr-1]), sep,
_get_std( &_Gpr[rg].s[yr-1]), sep);
strcat( buf, tbuf);
}
/* Output the sum of all the wild and prescribed fire numbers across all iterations;
ATTENTION: the other output index are the average values across all iterations*/
if (BmassFlags.prescribedfire) {
sprintf(tbuf, "%d%c",
_Gwf->prescribedFire[rg][yr-1], sep);
strcat( buf, tbuf);
}
if (BmassFlags.graz) {
sprintf(tbuf, "%f%c", _get_avg(&_Grazed[rg].s[yr - 1]), sep);
strcat(buf, tbuf);
}
}
}
if (BmassFlags.sppb || BmassFlags.indv) {
for ((sp) = 0; (sp) < Globals->sppCount - 1; (sp)++)
{
if (BmassFlags.sppb) {
sprintf(tbuf, "%f%c", _get_avg(&_Spp[sp].s[yr - 1]), sep);
strcat(buf, tbuf);
}
if (BmassFlags.indv)
{
sprintf(tbuf, "%f%c", _get_avg(&_Indv[sp].s[yr - 1]), sep);
strcat(buf, tbuf);
}
}
if (BmassFlags.indv)
{
if (BmassFlags.sppb) {
sprintf(tbuf, "%f%c", _get_avg(&_Spp[sp].s[yr - 1]), sep);
strcat(buf, tbuf);
}
sprintf(tbuf, "%f", _get_avg(&_Indv[sp].s[yr - 1]));
strcat(buf, tbuf);
}
else
{
if (BmassFlags.sppb) {
sprintf(tbuf, "%f", _get_avg(&_Spp[sp].s[yr - 1]));
strcat(buf, tbuf);
}
}
}
fprintf( f, "%s\n", buf);
} /* end of foreach year */
CloseFile(&f, &LogInfo);
}
/**
* \brief returns the average value of an accumulator.
*
* This function works, but is deprecated. You can reference the
* average directly with p->ave.
*
* \param p is a pointer to the \ref accumulators_st.
*
* \ingroup STATISTICS_PRIVATE
*/
static RealF _get_avg( struct accumulators_st *p)
{
return p->ave;
}
/**
* \brief returns the standard deviation of an accumulator.
*
* This function works, but is deprecated. You can reference the
* standard deviation directly with p->sd.
*
* \param p is a pointer to the \ref accumulators_st.
*
* \ingroup STATISTICS_PRIVATE
*/
static RealF _get_std(struct accumulators_st *p)
{
return p->sd;
}
/**
* \brief prints the header for biomass statistics with standard deviations.
*
* This function is called when a header is requested in bmassflags.in.
* stat_Output_AllBmass() takes care of calling this function when
* requested.
*
* \sa _make_header()
*
* \ingroup STATISTICS_PRIVATE
*/
void make_header_with_std( char *buf) {
char **fields;
char tbuf[80];
GrpIndex rg;
SppIndex sp;
Int i, fc=0;
fields = (char **)Mem_Calloc(MAX_OUTFIELDS * 2, sizeof(char *),
"make_header_with_std", &LogInfo);
for (i = 0; i < MAX_OUTFIELDS * 2; i++) {
fields[i] = (char *)Mem_Calloc(MAX_FIELDLEN + 1, sizeof(char),
"make_header_with_std", &LogInfo);
}
/* Set up headers */
if (BmassFlags.yr)
strcpy(fields[fc++], "Year");
if (BmassFlags.dist)
strcpy(fields[fc++], "Disturbs");
if (BmassFlags.ppt) {
strcpy(fields[fc++], "PPT");
strcpy(fields[fc++], "StdDev");
}
if (BmassFlags.pclass)
strcpy(fields[fc++], "PPTClass");
if (BmassFlags.tmp) {
strcpy(fields[fc++], "Temp");
strcpy(fields[fc++], "StdDev");
}
if (BmassFlags.grpb) {
if (BmassFlags.wildfire) {
strcpy(fields[fc++], "WildFire");
}
ForEachGroup(rg) {
strcpy(fields[fc++], RGroup[rg]->name);
strcpy(fields[fc], RGroup[rg]->name);
strcat(fields[fc++], "_std");
if (BmassFlags.size) {
strcpy(fields[fc], RGroup[rg]->name);
strcat(fields[fc++], "_RSize");
}
if (BmassFlags.pr) {
strcpy(fields[fc], RGroup[rg]->name);
strcat(fields[fc++],"_PR");
strcpy(fields[fc], RGroup[rg]->name);
strcat(fields[fc++], "_PRstd");
}
if (BmassFlags.prescribedfire) {
strcpy(fields[fc], RGroup[rg]->name);
strcat(fields[fc++], "_PFire");
}
if (BmassFlags.graz) {
strcpy(fields[fc], RGroup[rg]->name);
strcat(fields[fc++], "_graz");
}
}
}
if (BmassFlags.sppb || BmassFlags.indv) {
ForEachSpecies(sp) {
if(BmassFlags.sppb)
strcpy(fields[fc++], Species[sp]->name);
if (BmassFlags.indv) {
strcpy(fields[fc], Species[sp]->name);
strcat(fields[fc++], "_Indivs");
}
}
}
/* Put header line in global variable */
for (i=0; i< fc-1; i++) {
sprintf(tbuf,"%s%c", fields[i], BmassFlags.sep);
strcat(buf, tbuf);
}
sprintf(tbuf,"%s\n", fields[i]);
strcat(buf, tbuf);
for (i = 0; i < MAX_OUTFIELDS * 2; i++) {
free(fields[i]);
}
free(fields);
}
/**
* \brief prints the header for biomass statistics without standard deviations.
*
* This function is called when a header is requested in bmassflags.in.
* stat_Output_AllBmass() takes care of calling this function when
* requested.
*
* \sa _make_header_with_std()
*
* \ingroup STATISTICS_PRIVATE
*/
void make_header( char *buf) {
char **fields;
char tbuf[80];
GrpIndex rg;
SppIndex sp;
Int i, fc=0;
fields = (char **)Mem_Calloc(MAX_OUTFIELDS * 2, sizeof(char *),
"make_header", &LogInfo);
for (i = 0; i < MAX_OUTFIELDS * 2; i++) {
fields[i] = (char *)Mem_Calloc(MAX_FIELDLEN + 1, sizeof(char),
"make_header", &LogInfo);
}
/* Set up headers */
if (BmassFlags.yr)
strcpy(fields[fc++], "Year");
if (BmassFlags.dist)
strcpy(fields[fc++], "Disturbs");
if (BmassFlags.ppt) {
strcpy(fields[fc++], "PPT");
strcpy(fields[fc++], "StdDev");
}
if (BmassFlags.pclass)
strcpy(fields[fc++], "PPTClass");
if (BmassFlags.tmp) {
strcpy(fields[fc++], "Temp");
strcpy(fields[fc++], "StdDev");
}
if (BmassFlags.grpb) {
if (BmassFlags.wildfire) {
strcpy(fields[fc], RGroup[rg]->name);
strcat(fields[fc++], "WildFire");
}
ForEachGroup(rg) {
strcpy(fields[fc++], RGroup[rg]->name);
if (BmassFlags.size) {
strcpy(fields[fc], RGroup[rg]->name);
strcat(fields[fc++], "_RSize");
}
if (BmassFlags.pr) {
strcpy(fields[fc], RGroup[rg]->name);