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mcmlio.c
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/***********************************************************
* Copyright Univ. of Texas M.D. Anderson Cancer Center
* 1992.
*
* Input/output of data.
****/
#include "mcml.h"
/***********************************************************
* Structure used to check against duplicated file names.
****/
struct NameList {
char name[STRLEN];
struct NameList * next;
};
typedef struct NameList NameNode;
typedef NameNode * NameLink;
/***********************************************************
* Center a string according to the column width.
****/
char * CenterStr(short Wid,
char * InStr,
char * OutStr)
{
size_t nspaces; /* number of spaces to be filled */
/* before InStr. */
nspaces = (Wid - strlen(InStr))/2;
if(nspaces<0) nspaces = 0;
strcpy(OutStr, "");
while(nspaces--) strcat(OutStr, " ");
strcat(OutStr, InStr);
return(OutStr);
}
/***********************************************************
* Print some messages before starting simulation.
* e.g. author, address, program version, year.
****/
#define COLWIDTH 80
void ShowVersion(char *version)
{
char str[STRLEN];
CenterStr(COLWIDTH,
"MCML - Monte Carlo Simulation of Multi-layered Turbid Media",
str);
puts(str);
puts("");
CenterStr(COLWIDTH, "Lihong Wang, Ph. D.", str);
puts(str);
CenterStr(COLWIDTH, "Steven L. Jacques, Ph. D.", str);
puts(str);
CenterStr(COLWIDTH,
"Laser Biology Research Laboratory - Box 17",str);
puts(str);
CenterStr(COLWIDTH, "University of Texas / "
"M.D. Anderson Cancer Center", str);
puts(str);
CenterStr(COLWIDTH, "Houston, TX 77030", str);
puts(str);
CenterStr(COLWIDTH, "Phone: (713) 792-3664", str);
puts(str);
CenterStr(COLWIDTH, "Fax: (713) 792-3995", str);
puts(str);
puts(str);
puts(str);
puts("");
CenterStr(COLWIDTH, version, str);
puts(str);
puts("\n\n\n\n");
}
#undef COLWIDTH
/***********************************************************
* Get a filename and open it for reading, retry until
* the file can be opened. '.' terminates the program.
*
* If Fname != NULL, try Fname first.
****/
FILE *GetFile(char *Fname)
{
FILE * file=NULL;
Boolean firsttime=1;
do {
if(firsttime && Fname[0]!='\0') {
/* use the filename from command line */
firsttime = 0;
}
else {
printf("Input filename(or . to exit):");
scanf("%s", Fname);
firsttime = 0;
}
if(strlen(Fname) == 1 && Fname[0] == '.')
exit(1); /* exit if no filename entered. */
file = fopen(Fname, "r");
} while(file == NULL);
return(file);
}
/***********************************************************
* Kill the ith char (counting from 0), push the following
* chars forward by one.
****/
void KillChar(size_t i, char * Str)
{
size_t sl = strlen(Str);
for(;i<sl;i++) Str[i] = Str[i+1];
}
/***********************************************************
* Eliminate the chars in a string which are not printing
* chars or spaces.
*
* Spaces include ' ', '\f', '\t' etc.
*
* Return 1 if no nonprinting chars found, otherwise
* return 0.
****/
Boolean CheckChar(char * Str)
{
Boolean found = 0; /* found bad char. */
size_t sl = strlen(Str);
size_t i=0;
while(i<sl)
if (Str[i]<0 || Str[i]>255)
nrerror("Non-ASCII file\n");
else if(isprint(Str[i]) || isspace(Str[i]))
i++;
else {
found = 1;
KillChar(i, Str);
sl--;
}
return(found);
}
/***********************************************************
* Return 1 if this line is a comment line in which the
* first non-space character is "#".
*
* Also return 1 if this line is space line.
****/
Boolean CommentLine(char *Buf)
{
size_t spn, cspn;
spn = strspn(Buf, " \t");
/* length spanned by space or tab chars. */
cspn = strcspn(Buf, "#\n");
/* length before the 1st # or return. */
if(spn == cspn) /* comment line or space line. */
return(1);
else /* the line has data. */
return(0);
}
/***********************************************************
* Skip space or comment lines and return a data line only.
****/
char * FindDataLine(FILE *File_Ptr)
{
char buf[STRLEN];
buf[0] = '\0';
do { /* skip space or comment lines. */
if(fgets(buf, 255, File_Ptr) == NULL) {
printf("Incomplete data\n");
buf[0]='\0';
break;
}
else
CheckChar(buf);
} while(CommentLine(buf));
return(buf);
}
/***********************************************************
* Skip file version, then read number of runs.
****/
short ReadNumRuns(FILE* File_Ptr)
{
char buf[STRLEN];
short n=0;
FindDataLine(File_Ptr); /* skip file version. */
strcpy(buf, FindDataLine(File_Ptr));
if(buf[0]=='\0') nrerror("Reading number of runs\n");
sscanf(buf, "%hd",&n);
return(n);
}
/***********************************************************
* Read the file name and the file format.
*
* The file format can be either A for ASCII or B for
* binary.
****/
void ReadFnameFormat(FILE *File_Ptr, InputStruct *In_Ptr)
{
char buf[STRLEN];
/** read in file name and format. **/
strcpy(buf, FindDataLine(File_Ptr));
if(buf[0]=='\0')
nrerror("Reading file name and format.\n");
sscanf(buf, "%s %c",
In_Ptr->out_fname, &(In_Ptr->out_fformat) );
if(toupper(In_Ptr->out_fformat) != 'B')
In_Ptr->out_fformat = 'A';
}
/***********************************************************
* Read the number of photons.
****/
void ReadNumPhotons(FILE *File_Ptr, InputStruct *In_Ptr)
{
char buf[STRLEN];
/** read in number of photons. **/
strcpy(buf, FindDataLine(File_Ptr));
if(buf[0]=='\0')
nrerror("Reading number of photons.\n");
sscanf(buf, "%ld", &In_Ptr->num_photons);
if(In_Ptr->num_photons<=0)
nrerror("Nonpositive number of photons.\n");
}
/***********************************************************
* Read the members dz and dr.
****/
void ReadDzDr(FILE *File_Ptr, InputStruct *In_Ptr)
{
char buf[STRLEN];
/** read in dz, dr. **/
strcpy(buf, FindDataLine(File_Ptr));
if(buf[0]=='\0') nrerror("Reading dz, dr.\n");
sscanf(buf, "%lf%lf", &In_Ptr->dz, &In_Ptr->dr);
if(In_Ptr->dz<=0) nrerror("Nonpositive dz.\n");
if(In_Ptr->dr<=0) nrerror("Nonpositive dr.\n");
}
/***********************************************************
* Read the members nz, nr, na.
****/
void ReadNzNrNa(FILE *File_Ptr, InputStruct *In_Ptr)
{
char buf[STRLEN];
/** read in number of dz, dr, da. **/
strcpy(buf, FindDataLine(File_Ptr));
if(buf[0]=='\0')
nrerror("Reading number of dz, dr, da's.\n");
sscanf(buf, "%hd%hd%hd",
&In_Ptr->nz, &In_Ptr->nr, &In_Ptr->na);
if(In_Ptr->nz<=0)
nrerror("Nonpositive number of dz's.\n");
if(In_Ptr->nr<=0)
nrerror("Nonpositive number of dr's.\n");
if(In_Ptr->na<=0)
nrerror("Nonpositive number of da's.\n");
In_Ptr->da = 0.5*PI/In_Ptr->na;
}
/***********************************************************
* Read the number of layers.
****/
void ReadNumLayers(FILE *File_Ptr, InputStruct *In_Ptr)
{
char buf[STRLEN];
/** read in number of layers. **/
strcpy(buf, FindDataLine(File_Ptr));
if(buf[0]=='\0')
nrerror("Reading number of layers.\n");
sscanf(buf, "%hd", &In_Ptr->num_layers);
if(In_Ptr->num_layers<=0)
nrerror("Nonpositive number of layers.\n");
}
/***********************************************************
* Read the refractive index n of the ambient.
****/
void ReadAmbient(FILE *File_Ptr,
LayerStruct * Layer_Ptr,
char *side)
{
char buf[STRLEN], msg[STRLEN];
double n;
strcpy(buf, FindDataLine(File_Ptr));
if(buf[0]=='\0') {
sprintf(msg, "Rading n of %s ambient.\n", side);
nrerror(msg);
}
sscanf(buf, "%lf", &n );
if(n<=0) nrerror("Wrong n.\n");
Layer_Ptr->n = n;
}
/***********************************************************
* Read the parameters of one layer.
*
* Return 1 if error detected.
* Return 0 otherwise.
*
* *Z_Ptr is the z coordinate of the current layer, which
* is used to convert thickness of layer to z coordinates
* of the two boundaries of the layer.
****/
Boolean ReadOneLayer(FILE *File_Ptr,
LayerStruct * Layer_Ptr,
double *Z_Ptr)
{
char buf[STRLEN], msg[STRLEN];
double d, n, mua, mus, g; /* d is thickness. */
strcpy(buf, FindDataLine(File_Ptr));
if(buf[0]=='\0') return(1); /* error. */
sscanf(buf, "%lf%lf%lf%lf%lf", &n, &mua, &mus, &g, &d);
if(d<0 || n<=0 || mua<0 || mus<0 || g<0 || g>1)
return(1); /* error. */
Layer_Ptr->n = n;
Layer_Ptr->mua = mua;
Layer_Ptr->mus = mus;
Layer_Ptr->g = g;
Layer_Ptr->z0 = *Z_Ptr;
*Z_Ptr += d;
Layer_Ptr->z1 = *Z_Ptr;
return(0);
}
/***********************************************************
* Read the parameters of one layer at a time.
****/
void ReadLayerSpecs(FILE *File_Ptr,
short Num_Layers,
LayerStruct ** Layerspecs_PP)
{
char msg[STRLEN];
short i=0;
double z = 0.0; /* z coordinate of the current layer. */
/* Allocate an array for the layer parameters. */
/* layer 0 and layer Num_Layers + 1 are for ambient. */
*Layerspecs_PP = (LayerStruct *)
malloc((unsigned) (Num_Layers+2)*sizeof(LayerStruct));
if (!(*Layerspecs_PP))
nrerror("allocation failure in ReadLayerSpecs()");
ReadAmbient(File_Ptr, &((*Layerspecs_PP)[i]), "top");
for(i=1; i<=Num_Layers; i++)
if(ReadOneLayer(File_Ptr, &((*Layerspecs_PP)[i]), &z)) {
sprintf(msg, "Error reading %hd of %hd layers\n",
i, Num_Layers);
nrerror(msg);
}
ReadAmbient(File_Ptr, &((*Layerspecs_PP)[i]), "bottom");
}
/***********************************************************
* Compute the critical angles for total internal
* reflection according to the relative refractive index
* of the layer.
* All layers are processed.
****/
void CriticalAngle( short Num_Layers,
LayerStruct ** Layerspecs_PP)
{
short i=0;
double n1, n2;
for(i=1; i<=Num_Layers; i++) {
n1 = (*Layerspecs_PP)[i].n;
n2 = (*Layerspecs_PP)[i-1].n;
(*Layerspecs_PP)[i].cos_crit0 = n1>n2 ?
sqrt(1.0 - n2*n2/(n1*n1)) : 0.0;
n2 = (*Layerspecs_PP)[i+1].n;
(*Layerspecs_PP)[i].cos_crit1 = n1>n2 ?
sqrt(1.0 - n2*n2/(n1*n1)) : 0.0;
}
}
/***********************************************************
* Read in the input parameters for one run.
****/
void ReadParm(FILE* File_Ptr, InputStruct * In_Ptr)
{
char buf[STRLEN];
In_Ptr->Wth = WEIGHT;
ReadFnameFormat(File_Ptr, In_Ptr);
ReadNumPhotons(File_Ptr, In_Ptr);
ReadDzDr(File_Ptr, In_Ptr);
ReadNzNrNa(File_Ptr, In_Ptr);
ReadNumLayers(File_Ptr, In_Ptr);
ReadLayerSpecs(File_Ptr, In_Ptr->num_layers,
&In_Ptr->layerspecs);
CriticalAngle(In_Ptr->num_layers, &In_Ptr->layerspecs);
}
/***********************************************************
* Return 1, if the name in the name list.
* Return 0, otherwise.
****/
Boolean NameInList(char *Name, NameLink List)
{
while (List != NULL) {
if(strcmp(Name, List->name) == 0)
return(1);
List = List->next;
};
return(0);
}
/***********************************************************
* Add the name to the name list.
****/
void AddNameToList(char *Name, NameLink * List_Ptr)
{
NameLink list = *List_Ptr;
if(list == NULL) { /* first node. */
*List_Ptr = list = (NameLink)malloc(sizeof(NameNode));
strcpy(list->name, Name);
list->next = NULL;
}
else { /* subsequent nodes. */
/* Move to the last node. */
while(list->next != NULL)
list = list->next;
/* Append a node to the list. */
list->next = (NameLink)malloc(sizeof(NameNode));
list = list->next;
strcpy(list->name, Name);
list->next = NULL;
}
}
/***********************************************************
* Check against duplicated file names.
*
* A linked list is set up to store the file names used
* in this input data file.
****/
Boolean FnameTaken(char *fname, NameLink * List_Ptr)
{
if(NameInList(fname, *List_Ptr))
return(1);
else {
AddNameToList(fname, List_Ptr);
return(0);
}
}
/***********************************************************
* Free each node in the file name list.
****/
void FreeFnameList(NameLink List)
{
NameLink next;
while(List != NULL) {
next = List->next;
free(List);
List = next;
}
}
/***********************************************************
* Check the input parameters for each run.
****/
void CheckParm(FILE* File_Ptr, InputStruct * In_Ptr)
{
short i_run;
short num_runs; /* number of independent runs. */
NameLink head = NULL;
Boolean name_taken;/* output files share the same */
/* file name.*/
char msg[STRLEN];
num_runs = ReadNumRuns(File_Ptr);
for(i_run=1; i_run<=num_runs; i_run++) {
printf("Checking input data for run %hd\n", i_run);
ReadParm(File_Ptr, In_Ptr);
name_taken = FnameTaken(In_Ptr->out_fname, &head);
if(name_taken)
sprintf(msg, "file name %s duplicated.\n",
In_Ptr->out_fname);
free(In_Ptr->layerspecs);
if(name_taken) nrerror(msg);
}
FreeFnameList(head);
rewind(File_Ptr);
}
/***********************************************************
* Allocate the arrays in OutStruct for one run, and
* array elements are automatically initialized to zeros.
****/
void InitOutputData(InputStruct In_Parm,
OutStruct * Out_Ptr)
{
short nz = In_Parm.nz;
short nr = In_Parm.nr;
short na = In_Parm.na;
short nl = In_Parm.num_layers;
/* remember to use nl+2 because of 2 for ambient. */
if(nz<=0 || nr<=0 || na<=0 || nl<=0)
nrerror("Wrong grid parameters.\n");
/* Init pure numbers. */
Out_Ptr->Rsp = 0.0;
Out_Ptr->Rd = 0.0;
Out_Ptr->A = 0.0;
Out_Ptr->Tt = 0.0;
/* Allocate the arrays and the matrices. */
Out_Ptr->Rd_ra = AllocMatrix(0,nr-1,0,na-1);
Out_Ptr->Rd_r = AllocVector(0,nr-1);
Out_Ptr->Rd_a = AllocVector(0,na-1);
Out_Ptr->A_rz = AllocMatrix(0,nr-1,0,nz-1);
Out_Ptr->A_z = AllocVector(0,nz-1);
Out_Ptr->A_l = AllocVector(0,nl+1);
Out_Ptr->Tt_ra = AllocMatrix(0,nr-1,0,na-1);
Out_Ptr->Tt_r = AllocVector(0,nr-1);
Out_Ptr->Tt_a = AllocVector(0,na-1);
}
/***********************************************************
* Undo what InitOutputData did.
* i.e. free the data allocations.
****/
void FreeData(InputStruct In_Parm, OutStruct * Out_Ptr)
{
short nz = In_Parm.nz;
short nr = In_Parm.nr;
short na = In_Parm.na;
short nl = In_Parm.num_layers;
/* remember to use nl+2 because of 2 for ambient. */
free(In_Parm.layerspecs);
FreeMatrix(Out_Ptr->Rd_ra, 0,nr-1,0,na-1);
FreeVector(Out_Ptr->Rd_r, 0,nr-1);
FreeVector(Out_Ptr->Rd_a, 0,na-1);
FreeMatrix(Out_Ptr->A_rz, 0, nr-1, 0,nz-1);
FreeVector(Out_Ptr->A_z, 0, nz-1);
FreeVector(Out_Ptr->A_l, 0,nl+1);
FreeMatrix(Out_Ptr->Tt_ra, 0,nr-1,0,na-1);
FreeVector(Out_Ptr->Tt_r, 0,nr-1);
FreeVector(Out_Ptr->Tt_a, 0,na-1);
}
/***********************************************************
* Get 1D array elements by summing the 2D array elements.
****/
void Sum2DRd(InputStruct In_Parm, OutStruct * Out_Ptr)
{
short nr = In_Parm.nr;
short na = In_Parm.na;
short ir,ia;
double sum;
for(ir=0; ir<nr; ir++) {
sum = 0.0;
for(ia=0; ia<na; ia++) sum += Out_Ptr->Rd_ra[ir][ia];
Out_Ptr->Rd_r[ir] = sum;
}
for(ia=0; ia<na; ia++) {
sum = 0.0;
for(ir=0; ir<nr; ir++) sum += Out_Ptr->Rd_ra[ir][ia];
Out_Ptr->Rd_a[ia] = sum;
}
sum = 0.0;
for(ir=0; ir<nr; ir++) sum += Out_Ptr->Rd_r[ir];
Out_Ptr->Rd = sum;
}
/***********************************************************
* Return the index to the layer according to the index
* to the grid line system in z direction (Iz).
*
* Use the center of box.
****/
short IzToLayer(short Iz, InputStruct In_Parm)
{
short i=1; /* index to layer. */
short num_layers = In_Parm.num_layers;
double dz = In_Parm.dz;
while( (Iz+0.5)*dz >= In_Parm.layerspecs[i].z1
&& i<num_layers) i++;
return(i);
}
/***********************************************************
* Get 1D array elements by summing the 2D array elements.
****/
void Sum2DA(InputStruct In_Parm, OutStruct * Out_Ptr)
{
short nz = In_Parm.nz;
short nr = In_Parm.nr;
short iz,ir;
double sum;
for(iz=0; iz<nz; iz++) {
sum = 0.0;
for(ir=0; ir<nr; ir++) sum += Out_Ptr->A_rz[ir][iz];
Out_Ptr->A_z[iz] = sum;
}
sum = 0.0;
for(iz=0; iz<nz; iz++) {
sum += Out_Ptr->A_z[iz];
Out_Ptr->A_l[IzToLayer(iz, In_Parm)]
+= Out_Ptr->A_z[iz];
}
Out_Ptr->A = sum;
}
/***********************************************************
* Get 1D array elements by summing the 2D array elements.
****/
void Sum2DTt(InputStruct In_Parm, OutStruct * Out_Ptr)
{
short nr = In_Parm.nr;
short na = In_Parm.na;
short ir,ia;
double sum;
for(ir=0; ir<nr; ir++) {
sum = 0.0;
for(ia=0; ia<na; ia++) sum += Out_Ptr->Tt_ra[ir][ia];
Out_Ptr->Tt_r[ir] = sum;
}
for(ia=0; ia<na; ia++) {
sum = 0.0;
for(ir=0; ir<nr; ir++) sum += Out_Ptr->Tt_ra[ir][ia];
Out_Ptr->Tt_a[ia] = sum;
}
sum = 0.0;
for(ir=0; ir<nr; ir++) sum += Out_Ptr->Tt_r[ir];
Out_Ptr->Tt = sum;
}
/***********************************************************
* Scale Rd and Tt properly.
*
* "a" stands for angle alpha.
****
* Scale Rd(r,a) and Tt(r,a) by
* (area perpendicular to photon direction)
* x(solid angle)x(No. of photons).
* or
* [2*PI*r*dr*cos(a)]x[2*PI*sin(a)*da]x[No. of photons]
* or
* [2*PI*PI*dr*da*r*sin(2a)]x[No. of photons]
****
* Scale Rd(r) and Tt(r) by
* (area on the surface)x(No. of photons).
****
* Scale Rd(a) and Tt(a) by
* (solid angle)x(No. of photons).
****/
void ScaleRdTt(InputStruct In_Parm, OutStruct * Out_Ptr)
{
short nr = In_Parm.nr;
short na = In_Parm.na;
double dr = In_Parm.dr;
double da = In_Parm.da;
short ir,ia;
double scale1, scale2;
scale1 = 4.0*PI*PI*dr*sin(da/2)*dr*In_Parm.num_photons;
/* The factor (ir+0.5)*sin(2a) to be added. */
for(ir=0; ir<nr; ir++)
for(ia=0; ia<na; ia++) {
scale2 = 1.0/((ir+0.5)*sin(2.0*(ia+0.5)*da)*scale1);
Out_Ptr->Rd_ra[ir][ia] *= scale2;
Out_Ptr->Tt_ra[ir][ia] *= scale2;
}
scale1 = 2.0*PI*dr*dr*In_Parm.num_photons;
/* area is 2*PI*[(ir+0.5)*dr]*dr.*/
/* ir+0.5 to be added. */
for(ir=0; ir<nr; ir++) {
scale2 = 1.0/((ir+0.5)*scale1);
Out_Ptr->Rd_r[ir] *= scale2;
Out_Ptr->Tt_r[ir] *= scale2;
}
scale1 = 2.0*PI*da*In_Parm.num_photons;
/* solid angle is 2*PI*sin(a)*da. sin(a) to be added. */
for(ia=0; ia<na; ia++) {
scale2 = 1.0/(sin((ia+0.5)*da)*scale1);
Out_Ptr->Rd_a[ia] *= scale2;
Out_Ptr->Tt_a[ia] *= scale2;
}
scale2 = 1.0/(double)In_Parm.num_photons;
Out_Ptr->Rd *= scale2;
Out_Ptr->Tt *= scale2;
}
/***********************************************************
* Scale absorption arrays properly.
****/
void ScaleA(InputStruct In_Parm, OutStruct * Out_Ptr)
{
short nz = In_Parm.nz;
short nr = In_Parm.nr;
double dz = In_Parm.dz;
double dr = In_Parm.dr;
short nl = In_Parm.num_layers;
short iz,ir;
short il;
double scale1;
/* Scale A_rz. */
scale1 = 2.0*PI*dr*dr*dz*In_Parm.num_photons;
/* volume is 2*pi*(ir+0.5)*dr*dr*dz.*/
/* ir+0.5 to be added. */
for(iz=0; iz<nz; iz++)
for(ir=0; ir<nr; ir++)
Out_Ptr->A_rz[ir][iz] /= (ir+0.5)*scale1;
/* Scale A_z. */
scale1 = 1.0/(dz*In_Parm.num_photons);
for(iz=0; iz<nz; iz++)
Out_Ptr->A_z[iz] *= scale1;
/* Scale A_l. Avoid int/int. */
scale1 = 1.0/(double)In_Parm.num_photons;
for(il=0; il<=nl+1; il++)
Out_Ptr->A_l[il] *= scale1;
Out_Ptr->A *=scale1;
}
/***********************************************************
* Sum and scale results of current run.
****/
void SumScaleResult(InputStruct In_Parm,
OutStruct * Out_Ptr)
{
/* Get 1D & 0D results. */
Sum2DRd(In_Parm, Out_Ptr);
Sum2DA(In_Parm, Out_Ptr);
Sum2DTt(In_Parm, Out_Ptr);
ScaleRdTt(In_Parm, Out_Ptr);
ScaleA(In_Parm, Out_Ptr);
}
/***********************************************************
* Write the version number as the first string in the
* file.
* Use chars only so that they can be read as either
* ASCII or binary.
****/
void WriteVersion(FILE *file, char *Version)
{
fprintf(file,
"%s \t# Version number of the file format.\n\n",
Version);
fprintf(file, "####\n# Data categories include: \n");
fprintf(file, "# InParm, RAT, \n");
fprintf(file, "# A_l, A_z, Rd_r, Rd_a, Tt_r, Tt_a, \n");
fprintf(file, "# A_rz, Rd_ra, Tt_ra \n####\n\n");
}
/***********************************************************
* Write the input parameters to the file.
****/
void WriteInParm(FILE *file, InputStruct In_Parm)
{
short i;
fprintf(file,
"InParm \t\t\t# Input parameters. cm is used.\n");
fprintf(file,
"%s \tA\t\t# output file name, ASCII.\n",
In_Parm.out_fname);
fprintf(file,
"%ld \t\t\t# No. of photons\n", In_Parm.num_photons);
fprintf(file,
"%G\t%G\t\t# dz, dr [cm]\n", In_Parm.dz,In_Parm.dr);
fprintf(file, "%hd\t%hd\t%hd\t# No. of dz, dr, da.\n\n",
In_Parm.nz, In_Parm.nr, In_Parm.na);
fprintf(file,
"%hd\t\t\t\t\t# Number of layers\n",
In_Parm.num_layers);
fprintf(file,
"#n\tmua\tmus\tg\td\t# One line for each layer\n");
fprintf(file,
"%G\t\t\t\t\t# n for medium above\n",
In_Parm.layerspecs[0].n);
for(i=1; i<=In_Parm.num_layers; i++) {
LayerStruct s;
s = In_Parm.layerspecs[i];
fprintf(file, "%G\t%G\t%G\t%G\t%G\t# layer %hd\n",
s.n, s.mua, s.mus, s.g, s.z1-s.z0, i);
}
fprintf(file, "%G\t\t\t\t\t# n for medium below\n\n",
In_Parm.layerspecs[i].n);
}
/***********************************************************
* Write reflectance, absorption, transmission.
****/
void WriteRAT(FILE * file, OutStruct Out_Parm)
{
fprintf(file,
"RAT #Reflectance, absorption, transmission. \n");
/* flag. */
fprintf(file,
"%-14.6G \t#Specular reflectance [-]\n", Out_Parm.Rsp);
fprintf(file,
"%-14.6G \t#Diffuse reflectance [-]\n", Out_Parm.Rd);
fprintf(file,
"%-14.6G \t#Absorbed fraction [-]\n", Out_Parm.A);
fprintf(file,
"%-14.6G \t#Transmittance [-]\n", Out_Parm.Tt);
fprintf(file, "\n");
}
/***********************************************************
* Write absorption as a function of layer.
****/
void WriteA_layer(FILE * file,
short Num_Layers,
OutStruct Out_Parm)
{
short i;
fprintf(file,
"A_l #Absorption as a function of layer. [-]\n");
/* flag. */
for(i=1; i<=Num_Layers; i++)
fprintf(file, "%12.4G\n", Out_Parm.A_l[i]);
fprintf(file, "\n");
}
/***********************************************************
* 5 numbers each line.
****/
void WriteRd_ra(FILE * file,
short Nr,
short Na,
OutStruct Out_Parm)
{
short ir, ia;
fprintf(file,
"%s\n%s\n%s\n%s\n%s\n%s\n", /* flag. */
"# Rd[r][angle]. [1/(cm2sr)].",
"# Rd[0][0], [0][1],..[0][na-1]",
"# Rd[1][0], [1][1],..[1][na-1]",
"# ...",
"# Rd[nr-1][0], [nr-1][1],..[nr-1][na-1]",
"Rd_ra");
for(ir=0;ir<Nr;ir++)
for(ia=0;ia<Na;ia++) {
fprintf(file, "%12.4E ", Out_Parm.Rd_ra[ir][ia]);
if( (ir*Na + ia + 1)%5 == 0) fprintf(file, "\n");
}
fprintf(file, "\n");
}
/***********************************************************
* 1 number each line.
****/
void WriteRd_r(FILE * file,
short Nr,
OutStruct Out_Parm)
{
short ir;
fprintf(file,
"Rd_r #Rd[0], [1],..Rd[nr-1]. [1/cm2]\n"); /* flag. */
for(ir=0;ir<Nr;ir++) {
fprintf(file, "%12.4E\n", Out_Parm.Rd_r[ir]);
}
fprintf(file, "\n");
}
/***********************************************************
* 1 number each line.
****/
void WriteRd_a(FILE * file,
short Na,
OutStruct Out_Parm)
{
short ia;
fprintf(file,
"Rd_a #Rd[0], [1],..Rd[na-1]. [sr-1]\n"); /* flag. */
for(ia=0;ia<Na;ia++) {
fprintf(file, "%12.4E\n", Out_Parm.Rd_a[ia]);
}
fprintf(file, "\n");
}
/***********************************************************
* 5 numbers each line.
****/
void WriteTt_ra(FILE * file,
short Nr,
short Na,
OutStruct Out_Parm)
{
short ir, ia;
fprintf(file,
"%s\n%s\n%s\n%s\n%s\n%s\n", /* flag. */
"# Tt[r][angle]. [1/(cm2sr)].",
"# Tt[0][0], [0][1],..[0][na-1]",
"# Tt[1][0], [1][1],..[1][na-1]",
"# ...",
"# Tt[nr-1][0], [nr-1][1],..[nr-1][na-1]",
"Tt_ra");
for(ir=0;ir<Nr;ir++)
for(ia=0;ia<Na;ia++) {
fprintf(file, "%12.4E ", Out_Parm.Tt_ra[ir][ia]);