static void initLineWindow(lineWindow *lw, lineObj *line, int size)
{
lw->pos = -1;
lw->lineIsRing = MS_FALSE;
lw->size = size;
lw->line = line;
lw->index = floor(lw->size/2); /* index of current position in points array */
lw->points = (pointObj**)msSmallMalloc(sizeof(pointObj*)*size);
if ( (line->numpoints >= 2) &&
((FP_EQ(line->point[0].x,
line->point[line->numpoints-1].x)) &&
(FP_EQ(line->point[0].y,
line->point[line->numpoints-1].y))) ) {
lw->lineIsRing = 1;
}
}
void wcomb3Dfdf(char *filename,struct data *d,int image,int slab,int echo,int type,int precision)
{
FILE *f_out;
float *floatdata;
double *doubledata;
char null[1];
double re,im,M,scale;
int dim1,dim2,dim3,nr;
int i,j,k,l;
int ix1;
int datamode;
/* Check that type is valid */
if ((type != MG) && (type != RMK)) {
fprintf(stderr,"\n%s: %s()\n",__FILE__,__FUNCTION__);
fprintf(stderr," Invalid 6th argument %s(*,*,*,*,*,'type',*)\n",__FUNCTION__);
fflush(stderr);
return;
}
datamode=FID;
/* If FT has been done flag it as IMAGE */
if ((d->dimstatus[0] & FFT) || (d->dimstatus[1] & FFT) || (d->dimstatus[2] & FFT)) datamode=IMAGE;
/* Data dimensions */
dim1=d->np/2; dim2=d->nv; dim3=d->endpos-d->startpos; nr=d->nr;
/* Generate fdf header if its the first processing block of a volume */
if (d->block == 0) { /* The first processing block of a volume */
gen3Dfdfhdr(d,image+IMAGEOFFSET,slab,echo,0,MG,precision);
/* Set NULL terminator for fdf header */
*null=(char)0;
/* Write header */
if ((f_out = fopen(filename, "w")) == NULL) {
fprintf(stderr,"\n%s: %s()\n",__FILE__,__FUNCTION__);
fprintf(stderr," Unable to write to %s\n",filename);
fflush(stderr);
free(d->fdfhdr); /* Wipe fdf header */
return;
}
fprintf(f_out,"%s",d->fdfhdr);
fwrite(null,sizeof(char),1,f_out);
free(d->fdfhdr); /* Wipe fdf header */
} else { /* Open file for appending */
if ((f_out = fopen(filename, "a")) == NULL) {
fprintf(stderr,"\n%s: %s()\n",__FILE__,__FUNCTION__);
fprintf(stderr," Unable to append to %s\n",filename);
fflush(stderr);
return;
}
}
/* Image scaling */
scale=*val("aipScale",&d->p);
if (FP_EQ(scale,0.0)) scale=1.0;
/* Allocate memory and write fdf header and image */
switch(precision) {
case FLT32: /* 32 bit float */
if ((floatdata = (float *)malloc(dim2*dim1*sizeof(float))) == NULL) nomem(__FILE__,__FUNCTION__,__LINE__);
switch(type) {
case MG: /* Magnitude */
for(l=0;l<dim3;l++) {
for(i=0;i<dim2;i++) {
for (j=0;j<dim1;j++) {
ix1=i*dim1+j;
M=0.0;
for (k=0;k<nr;k++) {
re=fabs(d->data[k][l][ix1][0]);
im=fabs(d->data[k][l][ix1][1]);
M+=(re*re+im*im);
}
floatdata[ix1] = (float)sqrt(M);
switch(datamode) {
case IMAGE: floatdata[ix1] *= scale; break;
default: break;
}
}
}
fwrite(floatdata,sizeof(float),dim1*dim2,f_out);
}
break;
case RMK: /* Reverse mask of magnitude */
for(l=0;l<dim3;l++) {
for(i=0;i<dim2;i++) {
for (j=0;j<dim1;j++) {
ix1=i*dim1+j;
if (!d->mask[l][ix1]) {
M=0.0;
for (k=0;k<nr;k++) {
re=fabs(d->data[k][l][ix1][0]);
im=fabs(d->data[k][l][ix1][1]);
M+=(re*re+im*im);
}
floatdata[ix1] = (float)sqrt(M);
switch(datamode) {
case IMAGE: floatdata[ix1] *= scale; break;
default: break;
}
} else {
floatdata[ix1] = 0.0;
}
}
}
fwrite(floatdata,sizeof(float),dim1*dim2,f_out);
}
break;
} /* end type switch */
fclose(f_out);
free(floatdata);
break;
case DBL64: /* 64 bit double */
if ((doubledata = (double *)malloc(dim2*dim1*sizeof(double))) == NULL) nomem(__FILE__,__FUNCTION__,__LINE__);
switch(type) {
case MG: /* Magnitude */
for(l=0;l<dim3;l++) {
for(i=0;i<dim2;i++) {
for (j=0;j<dim1;j++) {
ix1=i*dim1+j;
M=0.0;
for (k=0;k<nr;k++) {
re=fabs(d->data[k][l][ix1][0]);
im=fabs(d->data[k][l][ix1][1]);
M+=(re*re+im*im);
}
doubledata[ix1] = sqrt(M);
switch(datamode) {
case IMAGE: doubledata[ix1] *= scale; break;
default: break;
}
}
}
fwrite(doubledata,sizeof(double),dim1*dim2,f_out);
}
break;
case RMK: /* Reverse mask of magnitude */
for(l=0;l<dim3;l++) {
for(i=0;i<dim2;i++) {
for (j=0;j<dim1;j++) {
ix1=i*dim1+j;
if (!d->mask[l][ix1]) {
M=0.0;
for (k=0;k<nr;k++) {
re=fabs(d->data[k][l][ix1][0]);
im=fabs(d->data[k][l][ix1][1]);
M+=(re*re+im*im);
}
doubledata[ix1] = sqrt(M);
switch(datamode) {
case IMAGE: doubledata[ix1] *= scale; break;
default: break;
}
} else {
doubledata[ix1] = 0.0;
}
}
}
fwrite(doubledata,sizeof(double),dim1*dim2,f_out);
}
break;
} /* end type switch */
fclose(f_out);
free(doubledata);
break;
default:
fprintf(stderr,"\n%s: %s()\n",__FILE__,__FUNCTION__);
fprintf(stderr," Invalid 7th argument %s(*,*,*,*,*,*,'precision')\n",__FUNCTION__);
fflush(stderr);
break;
} /* end precision switch */
}
void gen3Dfdfhdr(struct data *d,int image,int slab,int echo,int receiver,int type,int precision)
{
char str[100];
int cycle,n,id;
double pro,ppe,pss,psi,phi,theta;
double cospsi,cosphi,costheta;
double sinpsi,sinphi,sintheta;
double or0,or1,or2,or3,or4,or5,or6,or7,or8;
double value;
int dim1,dim2,dim3,ns,nr;
int ne;
int i,j,add;
int align=0,hdrlen,pad_cnt;
int *intval;
double *dblval;
char **strval;
int datamode;
/* Check that type is valid */
if (!validtype(type) || (type == VJ)) {
fprintf(stderr,"\n%s: %s()\n",__FILE__,__FUNCTION__);
fprintf(stderr," Invalid 6th argument %s(*,*,*,*,*,'type',*)\n",__FUNCTION__);
fflush(stderr);
return;
}
datamode=FID;
/* If FT has been done flag it as IMAGE */
if ((d->dimstatus[0] & FFT) || (d->dimstatus[1] & FFT) || (d->dimstatus[2] & FFT)) datamode=IMAGE;
/* Allocate for header */
if ((d->fdfhdr = (char *)malloc(FDFHDRLEN*sizeof(char))) == NULL) nomem(__FILE__,__FUNCTION__,__LINE__);
/* Data dimensions */
dim1=d->np/2; dim2=d->nv; dim3=d->nv2; nr=d->nr;
/* Number of echoes */
ne=(int)*val("ne",&d->p);
if (ne < 1) ne=1; /* Set ne to 1 if 'ne' does not exist */
/* Number of slices (slabs) */
ns=nvals("pss",&d->p);
if (ns < 1) ns=1; /* Set ns to 1 if 'ns' does not exist */
/* Allow for compressed multi-echo loop and multiple slabs */
/*
image=(volindex-IMAGEOFFSET)/(ne*ns);
slab=((volindex-IMAGEOFFSET)/ne)%ns;
echo=(volindex-IMAGEOFFSET)%ne;
*/
/* Set up for orientation */
pro=getelem(d,"pro",image);
ppe=getelem(d,"ppe",image);
pss=sliceposition(d,slab); /* position in 2nd phase encode dimension */
psi=getelem(d,"psi",image);
phi=getelem(d,"phi",image);
theta=getelem(d,"theta",image);
/* Create header */
sprintf(d->fdfhdr,"#!/usr/local/fdf/startup\n");
strcat(d->fdfhdr,"float rank = 3;\n");
strcat(d->fdfhdr,"char *spatial_rank = \"3dfov\";\n");
switch(precision) {
case FLT32: /* 32 bit float */
strcat(d->fdfhdr,"char *storage = \"float\";\n");
strcat(d->fdfhdr,"float bits = 32;\n");
break;
case DBL64: /* 64 bit double */
strcat(d->fdfhdr,"char *storage = \"double\";\n");
strcat(d->fdfhdr,"float bits = 64;\n");
break;
default:
strcat(d->fdfhdr,"char *storage = \"not supported\";\n");
strcat(d->fdfhdr,"float bits = ?;\n");
break;
} /* end precision switch */
switch(type) {
case MG: /* Magnitude */
strcat(d->fdfhdr,"char *type = \"absval\";\n");
break;
case RE: /* Real */
strcat(d->fdfhdr,"char *type = \"real\";\n");
break;
case IM: /* Imaginary */
strcat(d->fdfhdr,"char *type = \"imag\";\n");
break;
case PH: /* Phase */
strcat(d->fdfhdr,"char *type = \"phase\";\n");
break;
case MK: /* Mask */
strcat(d->fdfhdr,"char *type = \"mask\";\n");
break;
case RMK: /* Reverse mask of magnitude */
strcat(d->fdfhdr,"char *type = \"absval\";\n");
break;
case SM: /* Sensitivity map */
strcat(d->fdfhdr,"char *type = \"smap\";\n");
break;
case GF: /* Geometry factor */
strcat(d->fdfhdr,"char *type = \"gmap\";\n");
break;
case RS: /* Relative SNR */
strcat(d->fdfhdr,"char *type = \"rsnrmap\";\n");
break;
default:
break;
} /* end type switch */
sprintf(str,"float matrix[] = {%d, %d, %d};\n",dim1,dim2,dim3);
strcat(d->fdfhdr,str);
switch(datamode) {
case IMAGE: /* Image */
strcat(d->fdfhdr,"char *abscissa[] = {\"cm\", \"cm\", \"cm\"};\n");
break;
case FID: /* FID */
/*
strcat(d->fdfhdr,"char *abscissa[] = {\"s\", \"s\", \"s\"};\n");
*/
/* We must define as for image space to get a good display in VnmrJ */
strcat(d->fdfhdr,"char *abscissa[] = {\"cm\", \"cm\", \"cm\"};\n");
break;
default:
strcat(d->fdfhdr,"char *abscissa[] = {\"cm\", \"cm\", \"cm\"};\n");
break;
} /* end datamode switch */
switch(type) {
case PH: /* Phase */
strcat(d->fdfhdr,"char *ordinate[] = { \"radians\" };\n");
break;
case MK: /* Mask */
strcat(d->fdfhdr,"char *ordinate[] = { \"mask\" };\n");
break;
default:
strcat(d->fdfhdr,"char *ordinate[] = { \"intensity\" };\n");
break;
} /* end type switch */
switch(datamode) {
case IMAGE: /* Image */
sprintf(str,"float span[] = {%.6f, %.6f, %.6f};\n",*val("lro",&d->p),*val("lpe",&d->p),*val("lpe2",&d->p));
strcat(d->fdfhdr,str);
sprintf(str,"float origin[] = {%.6f,%.6f,%.6f};\n",-pro-*val("lro",&d->p)/2,ppe-*val("lpe",&d->p)/2,pss-*val("lpe2",&d->p)/2);
strcat(d->fdfhdr,str);
break;
case FID: /* FID */
/*
sprintf(str,"float span[] = {%.6f, %.6f, %.6f};\n",dim1/(*val("sw",&d->p)),dim2/(*val("sw1",&d->p)),dim3/(*val("sw2",&d->p)));
strcat(d->fdfhdr,str);
sprintf(str,"float origin[] = {%.6f, %.6f, %.6f};\n",0.0,0.0,0.0);
strcat(d->fdfhdr,str);
*/
/* We must define as for image space to get a good display in VnmrJ */
sprintf(str,"float span[] = {%.6f, %.6f, %.6f};\n",*val("lro",&d->p),*val("lpe",&d->p),*val("lpe2",&d->p));
strcat(d->fdfhdr,str);
sprintf(str,"float origin[] = {%.6f,%.6f,%.6f};\n",-pro-*val("lro",&d->p)/2,ppe-*val("lpe",&d->p)/2,pss-*val("lpe2",&d->p)/2);
strcat(d->fdfhdr,str);
break;
default:
sprintf(str,"float span[] = {%.6f, %.6f, %.6f};\n",*val("lro",&d->p),*val("lpe",&d->p),*val("lpe2",&d->p));
strcat(d->fdfhdr,str);
sprintf(str,"float origin[] = {%.6f,%.6f,%.6f};\n",-pro-*val("lro",&d->p)/2,ppe-*val("lpe",&d->p)/2,pss-*val("lpe2",&d->p)/2);
strcat(d->fdfhdr,str);
break;
} /* end datamode switch */
sprintf(str,"char *nucleus[] = {\"%s\",\"%s\"};\n",*sval("tn",&d->p),*sval("dn",&d->p));
strcat(d->fdfhdr,str);
sprintf(str,"float nucfreq[] = {%.6f,%.6f};\n",*val("sfrq",&d->p),*val("dfrq",&d->p));
strcat(d->fdfhdr,str);
switch(datamode) {
case IMAGE: /* Image */
sprintf(str,"float location[] = {%.6f,%.6f,%.6f};\n",-pro,ppe,pss);
strcat(d->fdfhdr,str);
sprintf(str,"float roi[] = {%.6f,%.6f,%.6f};\n",*val("lro",&d->p),*val("lpe",&d->p),*val("lpe2",&d->p));
strcat(d->fdfhdr,str);
break;
case FID: /* FID */
sprintf(str,"float location[] = {%.6f,%.6f,%.6f};\n",-pro,ppe,pss);
strcat(d->fdfhdr,str);
sprintf(str,"float roi[] = {%.6f,%.6f,%.6f};\n",dim1/(*val("sw",&d->p)),dim2/(*val("sw1",&d->p)),dim3/(*val("sw2",&d->p)));
strcat(d->fdfhdr,str);
break;
default:
sprintf(str,"float location[] = {%.6f,%.6f,%.6f};\n",-pro,ppe,pss);
strcat(d->fdfhdr,str);
sprintf(str,"float roi[] = {%.6f,%.6f,%.6f};\n",*val("lro",&d->p),*val("lpe",&d->p),*val("lpe2",&d->p));
strcat(d->fdfhdr,str);
break;
} /* end datamode switch */
sprintf(str,"float gap = %.6f;\n",*val("gap",&d->p));
strcat(d->fdfhdr,str);
sprintf(str,"char *file = \"%s\";\n",d->file);
strcat(d->fdfhdr,str);
sprintf(str,"int slab_no = %d;\n",slab+1);
strcat(d->fdfhdr,str);
sprintf(str,"int slabs = %d;\n",ns);
strcat(d->fdfhdr,str);
sprintf(str,"int echo_no = %d;\n",echo+1);
strcat(d->fdfhdr,str);
sprintf(str,"int echoes = %d;\n",ne);
strcat(d->fdfhdr,str);
if (ne < 2)
value=getelem(d,"te",image);
else { /* a multi echo expt */
/* The TE array should hold the echo time of each echo */
if (nvals("TE",&d->p) == *val("ne",&d->p)) {
dblval=val("TE",&d->p);
value=dblval[echo]/1000.0;
} else {
value=1.0; /* Just set a silly value */
}
}
sprintf(str,"float TE = %.3f;\n",1000.0*value);
strcat(d->fdfhdr,str);
sprintf(str,"float te = %.6f;\n",value);
strcat(d->fdfhdr,str);
value=getelem(d,"tr",image);
sprintf(str,"float TR = %.3f;\n",1000.0*value);
strcat(d->fdfhdr,str);
sprintf(str,"float tr = %.6f;\n",value);
strcat(d->fdfhdr,str);
sprintf(str,"int ro_size = %d;\n",(int)*val("np",&d->p)/2);
strcat(d->fdfhdr,str);
sprintf(str,"int pe_size = %d;\n",(int)*val("nv",&d->p));
strcat(d->fdfhdr,str);
sprintf(str,"int pe2_size = %d;\n",(int)*val("nv2",&d->p));
strcat(d->fdfhdr,str);
sprintf(str,"char *sequence = \"%s\";\n",*sval("seqfil",&d->p));
strcat(d->fdfhdr,str);
sprintf(str,"char *studyid = \"%s\";\n",*sval("studyid_",&d->p));
strcat(d->fdfhdr,str);
/*
sprintf(str,"char *position1 = \"%s\";\n","");
strcat(d->fdfhdr,str);
sprintf(str,"char *position2 = \"%s\";\n","");
strcat(d->fdfhdr,str);
*/
value=getelem(d,"ti",image);
sprintf(str,"float TI = %.3f;\n",1000.0*value);
strcat(d->fdfhdr,str);
sprintf(str,"float ti = %.6f;\n",value);
strcat(d->fdfhdr,str);
sprintf(str,"int array_index = %d;\n",image+1-IMAGEOFFSET);
strcat(d->fdfhdr,str);
/* The array_dim is the number of *image???*.fdf = (for 3D) # volumes divided by # echoes*slices */
value=(double)d->nvols/(ne*ns);
/* But if there are reference volumes they must be accounted for */
/* Check for image parameter array, since that is used to signify reference scans */
if (arraycheck("image",&d->a)) {
/* count # image=1 values */
for (i=0;i<nvals("image",&d->p);i++) if (getelem(d,"image",i)<1) value--;
}
sprintf(str,"float array_dim = %.4f;\n",value);
strcat(d->fdfhdr,str);
/*
sprintf(str,"float image = 1.0;\n");
strcat(d->fdfhdr,str);
*/
/* The following assumes that fid data is always stored bigendian ..
.. if we must reverse byte order to interpret then CPU is lilendian */
if (reverse_byte_order) {
sprintf(str,"int bigendian = 0;\n");
strcat(d->fdfhdr,str);
}
/* Image scaling */
value=*val("aipScale",&d->p);
if (FP_EQ(value,0.0)) value=1.0;
sprintf(str,"float imagescale = %.9f;\n",value);
strcat(d->fdfhdr,str);
sprintf(str,"float psi = %.4f;\n",psi);
strcat(d->fdfhdr,str);
sprintf(str,"float phi = %.4f;\n",phi);
strcat(d->fdfhdr,str);
sprintf(str,"float theta = %.4f;\n",theta);
strcat(d->fdfhdr,str);
/* Generate direction cosine matrix from "Euler" angles just as recon_all */
cospsi=cos(DEG2RAD*psi);
sinpsi=sin(DEG2RAD*psi);
cosphi=cos(DEG2RAD*phi);
sinphi=sin(DEG2RAD*phi);
costheta=cos(DEG2RAD*theta);
sintheta=sin(DEG2RAD*theta);
/* For 2D ...
or0=-1*cosphi*cospsi - sinphi*costheta*sinpsi;
or1=-1*cosphi*sinpsi + sinphi*costheta*cospsi;
or2=-1*sinphi*sintheta;
or3=-1*sinphi*cospsi + cosphi*costheta*sinpsi;
or4=-1*sinphi*sinpsi - cosphi*costheta*cospsi;
or5=cosphi*sintheta;
or6=-1*sintheta*sinpsi;
or7=sintheta*cospsi;
or8=costheta;
*/
/* For 3D ... */
or0=-1*sinphi*sinpsi - cosphi*costheta*cospsi; /* the 2D or4 */
or1=sinphi*cospsi - cosphi*costheta*sinpsi; /* the 2D -or3 */
or2=cosphi*sintheta; /* the 2D or5 */
or3=cosphi*sinpsi - sinphi*costheta*cospsi; /* the 2D -or1 */
or4=-1*cosphi*cospsi - sinphi*costheta*sinpsi; /* the 2D or0 */
or5=sinphi*sintheta; /* the 2D -or2 */
or6=sintheta*cospsi; /* the 2D or7 */
or7=sintheta*sinpsi; /* the 2D -or6 */
or8=costheta; /* the 2D or8 */
sprintf(str,"float orientation[] = {%.4f,%.4f,%.4f,%.4f,%.4f,%.4f,%.4f,%.4f,%.4f};\n",
or0,or1,or2,or3,or4,or5,or6,or7,or8);
strcat(d->fdfhdr,str);
sprintf(str,"char *array_name = \"none\";\n");
strcat(d->fdfhdr,str);
/* Add arrayed parameters */
if (d->a.npars>0) {
for (i=0;i<*d->a.nvals;i++) {
if (addpar2hdr(&d->a,i)) { /* If not already included by default */
cycle=(int)d->a.d[0][i];
n=nvals(d->a.s[0][i],&d->p);
id=(image/cycle)%n;
switch (ptype(d->a.s[0][i],&d->p)) {
case 0:
strcat(d->fdfhdr,"int ");
intval=ival(d->a.s[0][i],&d->p);
sprintf(str,"%s = %d;\n",d->a.s[0][i],intval[id]);
strcat(d->fdfhdr,str);
break;
case 1:
strcat(d->fdfhdr,"float ");
dblval=val(d->a.s[0][i],&d->p);
sprintf(str,"%s = %.6f;\n",d->a.s[0][i],dblval[id]);
strcat(d->fdfhdr,str);
break;
case 2:
strcat(d->fdfhdr,"char *");
strval=sval(d->a.s[0][i],&d->p);
sprintf(str,"%s = \"%s\";\n",d->a.s[0][i],strval[id]);
strcat(d->fdfhdr,str);
break;
}
}
}
}
/* Add sviblist parameters */
if (d->s.npars>0) {
for (i=0;i<*d->s.nvals;i++) {
if (addpar2hdr(&d->s,i)) { /* If not already included by default */
add = 1;
if (d->a.npars>0) { /* Don't include arrayed parameters */
for (j=0;j<*d->a.nvals;j++)
if (!strcmp(d->a.s[0][j],d->s.s[0][i])) add--;
}
if (add) {
/* NB The parameter may be arrayed with setprotect('par','on',256) */
n=nvals(d->s.s[0][i],&d->p);
if (n>0) {
id=image%n; /* Assume 'cycle' is 1 - no mechanism exists to suggest otherwise */
switch (ptype(d->s.s[0][i],&d->p)) {
case 0: /* Integer */
strcat(d->fdfhdr,"int ");
intval=ival(d->s.s[0][i],&d->p);
sprintf(str,"%s = %d;\n",d->s.s[0][i],intval[id]);
strcat(d->fdfhdr,str);
break;
case 1: /* Real */
strcat(d->fdfhdr,"float ");
dblval=val(d->s.s[0][i],&d->p);
sprintf(str,"%s = %.6f;\n",d->s.s[0][i],dblval[id]);
strcat(d->fdfhdr,str);
break;
case 2: /* String */
strcat(d->fdfhdr,"char *");
strval=sval(d->s.s[0][i],&d->p);
sprintf(str,"%s = \"%s\";\n",d->s.s[0][i],strval[id]);
strcat(d->fdfhdr,str);
break;
}
}
}
}
}
}
/* For 2D strcat(d->fdfhdr,"int checksum = 1291708713;\n"); is used for some unknown reason */
strcat(d->fdfhdr,"int checksum = 0;\n");
strcat(d->fdfhdr,"\f\n");
/* Add padding */
switch(precision) {
case FLT32: /* 32 bit float */
align = sizeof(float);
break;
case DBL64: /* 64 bit double */
align = sizeof(double);
break;
default:
break;
} /* end precision switch */
hdrlen=strlen(d->fdfhdr);
hdrlen++; /* allow for NULL terminator */
pad_cnt=hdrlen%align;
pad_cnt=(align-pad_cnt)%align;
for(i=0;i<pad_cnt;i++) strcat(d->fdfhdr,"\n");
}
void w3Dfdf(char *filename,struct data *d,int image,int slab,int echo,int receiver,int type,int precision)
{
FILE *f_out;
float *floatdata;
double *doubledata;
char null[1];
double re,im,M,scale;
int dim1,dim2,dim3;
int i,j,k;
int ix1;
int datamode;
/* Check that type is valid */
if (!validtype(type) || (type == VJ)) {
fprintf(stderr,"\n%s: %s()\n",__FILE__,__FUNCTION__);
fprintf(stderr," Invalid 7th argument %s(*,*,*,*,*,*,'type',*)\n",__FUNCTION__);
fflush(stderr);
return;
}
/* Data dimensions */
dim1=d->np/2; dim2=d->nv; dim3=d->endpos-d->startpos;
datamode=FID;
/* If FT has been done flag it as IMAGE */
if ((d->dimstatus[0] & FFT) || (d->dimstatus[1] & FFT) || (d->dimstatus[2] & FFT)) datamode=IMAGE;
/* Generate fdf header if its the first processing block of a volume */
if (d->block == 0) { /* The first processing block of a volume */
gen3Dfdfhdr(d,image+IMAGEOFFSET,slab,echo,receiver,type,precision);
/* Set NULL terminator for fdf header */
*null=(char)0;
/* Write header */
if ((f_out = fopen(filename, "w")) == NULL) {
fprintf(stderr,"\n%s: %s()\n",__FILE__,__FUNCTION__);
fprintf(stderr," Unable to write to %s\n",filename);
fflush(stderr);
free(d->fdfhdr); /* Wipe fdf header */
return;
}
fprintf(f_out,"%s",d->fdfhdr);
fwrite(null,sizeof(char),1,f_out);
free(d->fdfhdr); /* Wipe fdf header */
} else { /* Open file for appending */
if ((f_out = fopen(filename, "a")) == NULL) {
fprintf(stderr,"\n%s: %s()\n",__FILE__,__FUNCTION__);
fprintf(stderr," Unable to append to %s\n",filename);
fflush(stderr);
return;
}
}
/* For Sensitivity Map, Geometry Factor and Relative SNR we just output
the magnitude. For type 'MG' output is scaled by aipScale so we use
type 'SM' which is not scaled */
switch(type) {
case GF: type = SM; break; /* Geometry Factor */
case RS: type = SM; break; /* Relative SNR */
}
/* Image scaling */
scale=*val("aipScale",&d->p);
if (FP_EQ(scale,0.0)) scale=1.0;
/* Allocate memory and write fdf header and image */
switch(precision) {
case FLT32: /* 32 bit float */
if ((floatdata = (float *)malloc(dim2*dim1*sizeof(float))) == NULL) nomem(__FILE__,__FUNCTION__,__LINE__);
switch(type) {
case MG: /* Magnitude */
for (k=0;k<dim3;k++) {
for(i=0;i<dim2;i++) {
for (j=0;j<dim1;j++) {
ix1=i*dim1+j;
re=fabs(d->data[receiver][k][ix1][0]);
im=fabs(d->data[receiver][k][ix1][1]);
M=sqrt(re*re+im*im);
floatdata[ix1] = (float)M;
switch(datamode) {
case IMAGE: floatdata[ix1] *= scale; break;
default: break;
}
}
}
fwrite(floatdata,sizeof(float),dim1*dim2,f_out);
}
break;
case PH: /* Phase */
for (k=0;k<dim3;k++) {
for(i=0;i<dim2;i++) {
for (j=0;j<dim1;j++) {
ix1=i*dim1+j;
re=d->data[receiver][k][ix1][0];
im=d->data[receiver][k][ix1][1];
/* atan2 returns values (in radians) between +PI and -PI */
M=atan2(im,re);
floatdata[ix1] = (float)M;
}
}
fwrite(floatdata,sizeof(float),dim1*dim2,f_out);
}
break;
case RE: /* Real */
for (k=0;k<dim3;k++) {
for(i=0;i<dim2;i++) {
for (j=0;j<dim1;j++) {
ix1=i*dim1+j;
floatdata[ix1] = (float)d->data[receiver][k][ix1][0];
switch(datamode) {
case IMAGE: floatdata[ix1] *= scale; break;
default: break;
}
}
}
fwrite(floatdata,sizeof(float),dim1*dim2,f_out);
}
break;
case IM: /* Imaginary */
for (k=0;k<dim3;k++) {
for(i=0;i<dim2;i++) {
for (j=0;j<dim1;j++) {
ix1=i*dim1+j;
floatdata[ix1] = (float)d->data[receiver][k][ix1][1];
switch(datamode) {
case IMAGE: floatdata[ix1] *= scale; break;
default: break;
}
}
}
fwrite(floatdata,sizeof(float),dim1*dim2,f_out);
}
break;
case MK: /* Mask */
for (k=0;k<dim3;k++) {
for(i=0;i<dim2;i++) {
for (j=0;j<dim1;j++) {
ix1=i*dim1+j;
floatdata[ix1] = (float)d->mask[k][ix1];
}
}
fwrite(floatdata,sizeof(float),dim1*dim2,f_out);
}
break;
case RMK: /* Reverse Mask of Magnitude */
for (k=0;k<dim3;k++) {
for(i=0;i<dim2;i++) {
for (j=0;j<dim1;j++) {
ix1=i*dim1+j;
if (!d->mask[k][ix1]) {
re=fabs(d->data[receiver][k][ix1][0]);
im=fabs(d->data[receiver][k][ix1][1]);
M=sqrt(re*re+im*im);
floatdata[ix1] = (float)M;
} else {
floatdata[ix1] = 0.0;
}
}
}
fwrite(floatdata,sizeof(float),dim1*dim2,f_out);
}
break;
case SM: /* Sensitivity Map */
for (k=0;k<dim3;k++) {
for(i=0;i<dim2;i++) {
for (j=0;j<dim1;j++) {
ix1=i*dim1+j;
re=fabs(d->data[receiver][k][ix1][0]);
im=fabs(d->data[receiver][k][ix1][1]);
M=sqrt(re*re+im*im);
floatdata[ix1] = (float)M;
}
}
fwrite(floatdata,sizeof(float),dim1*dim2,f_out);
}
default:
break;
} /* end type switch */
fclose(f_out);
free(floatdata);
break;
case DBL64: /* 64 bit double */
if ((doubledata = (double *)malloc(dim2*dim1*sizeof(double))) == NULL) nomem(__FILE__,__FUNCTION__,__LINE__);
switch(type) {
case MG: /* Magnitude */
for (k=0;k<dim3;k++) {
for(i=0;i<dim2;i++) {
for (j=0;j<dim1;j++) {
ix1=i*dim1+j;
re=fabs(d->data[receiver][k][ix1][0]);
im=fabs(d->data[receiver][k][ix1][1]);
M=sqrt(re*re+im*im);
doubledata[ix1] = M;
switch(datamode) {
case IMAGE: doubledata[ix1] *= scale; break;
default: break;
}
}
}
fwrite(doubledata,sizeof(double),dim1*dim2,f_out);
}
break;
case PH: /* Phase */
for (k=0;k<dim3;k++) {
for(i=0;i<dim2;i++) {
for (j=0;j<dim1;j++) {
ix1=i*dim1+j;
re=d->data[receiver][k][ix1][0];
im=d->data[receiver][k][ix1][1];
/* atan2 returns values (in radians) between +PI and -PI */
M=atan2(im,re);
doubledata[ix1] = M;
}
}
fwrite(doubledata,sizeof(double),dim1*dim2,f_out);
}
break;
case RE: /* Real */
for (k=0;k<dim3;k++) {
for(i=0;i<dim2;i++) {
for (j=0;j<dim1;j++) {
ix1=i*dim1+j;
doubledata[ix1] = d->data[receiver][k][ix1][0];
switch(datamode) {
case IMAGE: doubledata[ix1] *= scale; break;
default: break;
}
}
}
fwrite(doubledata,sizeof(double),dim1*dim2,f_out);
}
break;
case IM: /* Imaginary */
for (k=0;k<dim3;k++) {
for(i=0;i<dim2;i++) {
for (j=0;j<dim1;j++) {
ix1=i*dim1+j;
doubledata[ix1] = d->data[receiver][k][ix1][1];
switch(datamode) {
case IMAGE: doubledata[ix1] *= scale; break;
default: break;
}
}
}
fwrite(doubledata,sizeof(double),dim1*dim2,f_out);
}
break;
case MK: /* Mask */
for (k=0;k<dim3;k++) {
for(i=0;i<dim2;i++) {
for (j=0;j<dim1;j++) {
ix1=i*dim1+j;
doubledata[ix1] = (double)d->mask[k][ix1];
}
}
fwrite(doubledata,sizeof(double),dim1*dim2,f_out);
}
break;
case RMK: /* Reverse Mask of Magnitude */
for (k=0;k<dim3;k++) {
for(i=0;i<dim2;i++) {
for (j=0;j<dim1;j++) {
ix1=i*dim1+j;
if (!d->mask[k][ix1]) {
re=fabs(d->data[receiver][k][ix1][0]);
im=fabs(d->data[receiver][k][ix1][1]);
M=sqrt(re*re+im*im);
doubledata[ix1] = M;
} else {
doubledata[ix1] = 0.0;
}
}
}
fwrite(doubledata,sizeof(double),dim1*dim2,f_out);
}
break;
case SM: /* Sensitivity map */
for (k=0;k<dim3;k++) {
for(i=0;i<dim2;i++) {
for (j=0;j<dim1;j++) {
ix1=i*dim1+j;
re=fabs(d->data[receiver][k][ix1][0]);
im=fabs(d->data[receiver][k][ix1][1]);
M=sqrt(re*re+im*im);
doubledata[ix1] = M;
}
}
fwrite(doubledata,sizeof(double),dim1*dim2,f_out);
}
break;
default:
break;
} /* end type switch */
fclose(f_out);
free(doubledata);
break;
default:
fprintf(stderr,"\n%s: %s()\n",__FILE__,__FUNCTION__);
fprintf(stderr," Invalid 8th argument %s(*,*,*,*,*,*,*,'precision')\n",__FUNCTION__);
fflush(stderr);
break;
} /* end precision switch */
}