int main(int argc, char *argv[])
{
int option,
ok = 1,
usage = 0,
dim = 2,
section = 0,
timer = 0;
double yaw = 0.0,
pitch = 0.0,
roll = 0.0,
dist = 0.0,
scale = 1.0;
WlzPixelV bgdV;
WlzGreyType gType;
WlzDVertex3 up,
fixed;
WlzInterpolationType interp = WLZ_INTERPOLATION_NEAREST;
WlzThreeDViewMode mode = WLZ_UP_IS_UP_MODE;
WlzErrorNum errNum = WLZ_ERR_NONE;
FILE *fP = NULL;
WlzObject *inObj = NULL,
*tlObj = NULL;
char *inFileStr,
*outFileStr,
*secFileStr;
struct timeval times[3];
const char *errMsg;
const size_t tlSz = 4096;
static char optList[] = "hsto:S:",
inFileStrDef[] = "-";
opterr = 0;
outFileStr = NULL;
inFileStr = inFileStrDef;
secFileStr = inFileStrDef;
gType = WLZ_GREY_UBYTE;
bgdV.type = WLZ_GREY_UBYTE;
bgdV.v.ubv = 0;
up.vtX = up.vtY = 0.0; up.vtZ = -1.0;
fixed.vtX = fixed.vtY = fixed.vtZ = 0.0;
while(ok && ((option = getopt(argc, argv, optList)) != -1))
{
switch(option)
{
case 'o':
outFileStr = optarg;
break;
case 's':
section = 1;
break;
case 'S':
secFileStr = optarg;
break;
case 't':
timer = 1;
break;
case 'h': /* FALLTHROUGH */
default:
usage = 1;
break;
}
}
if((usage == 0) && (optind < argc))
{
if((optind + 1) != argc)
{
usage = 1;
}
else
{
inFileStr = *(argv + optind);
}
}
ok = !usage;
if(ok)
{
fP = NULL;
errNum = WLZ_ERR_READ_EOF;
if(((fP = (strcmp(inFileStr, "-")? fopen(inFileStr, "r"):
stdin)) == NULL) ||
((inObj= WlzAssignObject(WlzReadObj(fP, &errNum), NULL)) == NULL))
{
ok = 0;
(void )WlzStringFromErrorNum(errNum, &errMsg);
(void )fprintf(stderr,
"%s: Failed to read object from file %s (%s).\n",
*argv, inFileStr, errMsg);
}
if(fP && strcmp(inFileStr, "-"))
{
(void )fclose(fP);
}
}
if(ok)
{
if(inObj == NULL)
{
errNum = WLZ_ERR_OBJECT_NULL;
}
else if(inObj->domain.core == NULL)
{
errNum = WLZ_ERR_DOMAIN_NULL;
}
else
{
switch(inObj->type)
{
case WLZ_2D_DOMAINOBJ:
dim = 2;
break;
case WLZ_3D_DOMAINOBJ:
dim = 3;
break;
default:
errNum = WLZ_ERR_OBJECT_TYPE;
break;
}
}
if(errNum != WLZ_ERR_NONE)
{
ok = 0;
(void )WlzStringFromErrorNum(errNum, &errMsg);
(void )fprintf(stderr,
"%s: invalid object read from file %s (%s).\n",
*argv, inFileStr, errMsg);
}
}
if(ok)
{
if(timer)
{
gettimeofday(times + 0, NULL);
}
tlObj = WlzMakeTiledValuesFromObj(inObj, tlSz, 1, gType, bgdV, &errNum);
if(timer)
{
gettimeofday(times + 1, NULL);
timersub(times + 1, times + 0, times + 2);
(void )fprintf(stderr,
"%s: Elapsed time for WlzMakeTiledValuesFromObj() %gs\n",
*argv,
times[2].tv_sec + (0.000001 * times[2].tv_usec));
}
if(errNum != WLZ_ERR_NONE)
{
ok = 0;
(void )WlzStringFromErrorNum(errNum, &errMsg);
(void )fprintf(stderr,
"%s: Failed to create object with tiled values (%s).\n",
*argv, errMsg);
}
}
if(ok && (outFileStr != NULL))
{
if(((fP = (strcmp(outFileStr, "-")? fopen(outFileStr, "w"):
stdout)) == NULL) ||
((errNum = WlzWriteObj(fP, tlObj)) != WLZ_ERR_NONE))
{
ok = 0;
(void )WlzStringFromErrorNum(errNum, &errMsg);
(void )fprintf(stderr,
"%s: Failed to write tiled object to file %s (%s).\n",
*argv, outFileStr, errMsg);
}
}
if(ok && section && (dim == 3))
{
WlzObject *secObj = NULL;
WlzThreeDViewStruct *view = NULL;
view = WlzMake3DViewStruct(WLZ_3D_VIEW_STRUCT, &errNum);
if(errNum == WLZ_ERR_NONE)
{
view->theta = yaw * WLZ_M_PI / 180.0;
view->phi = pitch * WLZ_M_PI / 180.0;
view->zeta = roll * WLZ_M_PI / 180.0;
view->dist = dist;
view->fixed = fixed;
view->up = up;
view->view_mode = mode;
view->scale = scale;
errNum = WlzInit3DViewStruct(view, tlObj);
}
if(errNum == WLZ_ERR_NONE)
{
if(timer)
{
gettimeofday(times + 0, NULL);
}
secObj = WlzGetSubSectionFromObject(tlObj, NULL, view, interp,
NULL, &errNum);
if(timer)
{
gettimeofday(times + 1, NULL);
timersub(times + 1, times + 0, times + 2);
(void )fprintf(stderr,
"%s: Elapsed time for WlzGetSubSectionFromObject() %gs\n",
*argv,
times[2].tv_sec + (0.000001 * times[2].tv_usec));
}
fP = NULL;
errNum = WLZ_ERR_WRITE_EOF;
if(((fP = (strcmp(secFileStr, "-")? fopen(secFileStr, "w"):
stdout)) == NULL) ||
((errNum = WlzWriteObj(fP, secObj)) != WLZ_ERR_NONE))
{
ok = 0;
(void )WlzStringFromErrorNum(errNum, &errMsg);
(void )fprintf(stderr,
"%s: Failed to write section object to file %s (%s).\n",
*argv, secFileStr, errMsg);
}
if(fP && strcmp(secFileStr, "-"))
{
(void )fclose(fP);
}
}
(void )WlzFree3DViewStruct(view);
(void )WlzFreeObj(secObj);
}
(void )WlzFreeObj(tlObj);
(void )WlzFreeObj(inObj);
if(usage)
{
(void )fprintf(stderr,
"Usage: %s%s",
*argv,
" [-o<output object>] [-h] [-o <file>] [-s] [-S <file>] [-t]\n"
" [<input object>]\n"
"Copied the input object to an object with tiled values.\n"
"Options:\n"
" -h Prints this usage information.\n"
" -o Output tiled object.\n"
" -s Cut section from tiled object.\n"
" -S Output file for section object.\n"
" -t Output timing information.\n");
}
return(!ok);
}
int main(int argc,
char **argv)
{
WlzObject *obj = NULL, *nobj = NULL, *subDomain = NULL;
FILE *inFP = NULL, *outFP = NULL, *trFP = NULL, *bibFP = NULL;
char *outFile = NULL, *trFile = NULL, *bibFile = NULL;
char optList[] = "ACLNTa:b:d:f:m:o:r:s:t:u:R:h";
int option;
int i,
j,
iVal,
timer = 0,
voxRescale = 0,
allFlg = 0;
double dist=0.0, pitch=0.0, yaw=0.0, roll=0.0;
double scale=1.0;
WlzDVertex3 fixed={0.0,0.0,0.0};
WlzDVertex3 up={0.0,0.0,-1.0};
WlzThreeDViewStruct *viewStr=NULL;
WlzThreeDViewMode mode=WLZ_UP_IS_UP_MODE;
WlzInterpolationType interp = WLZ_INTERPOLATION_NEAREST;
WlzErrorNum errNum=WLZ_ERR_NONE;
BibFileRecord *bibfileRecord;
BibFileError bibFileErr;
struct timeval times[3];
char *errMsg;
/* additional defaults */
outFile = "-";
bibFile = NULL;
trFile = NULL;
subDomain = NULL;
/* read the argument list and check for an input file */
opterr = 0;
while( (option = getopt(argc, argv, optList)) != EOF ){
switch( option ){
case 'A':
allFlg = 1;
break;
case 'C':
interp = WLZ_INTERPOLATION_CLASSIFY_1;
break;
case 'L':
interp = WLZ_INTERPOLATION_LINEAR;
break;
case 'N':
interp = WLZ_INTERPOLATION_NEAREST;
break;
case 'a':
switch( sscanf(optarg, "%lg,%lg,%lg", &pitch, &yaw, &roll) ){
default:
usage(argv[0]);
return 1;
case 2:
break;
case 3:
mode = WLZ_ZETA_MODE;
break;
}
break;
case 'b':
bibFile = optarg;
break;
case 'd':
if( sscanf(optarg, "%lg", &dist) < 1 ){
usage(argv[0]);
return 1;
}
break;
case 'f':
if( sscanf(optarg, "%lg,%lg,%lg", &(fixed.vtX), &(fixed.vtY),
&(fixed.vtZ)) < 3 ){
usage(argv[0]);
return 1;
}
break;
case 'm':
if( sscanf(optarg, "%d", &iVal) < 1 ){
usage(argv[0]);
return 1;
}
else if( mode != WLZ_ZETA_MODE ){
switch( iVal ){
default:
usage(argv[0]);
return 1;
case 0:
mode = WLZ_UP_IS_UP_MODE;
break;
case 1:
mode = WLZ_STATUE_MODE;
break;
case 2:
mode = WLZ_ZETA_MODE;
break;
}
}
break;
case 'o':
outFile = optarg;
break;
case 'r':
if( sscanf(optarg, "%d", &voxRescale) < 1 ){
usage(argv[0]);
return 1;
}
break;
case 's':
if( sscanf(optarg, "%lg", &scale) < 1 ){
usage(argv[0]);
return 1;
}
break;
case 'u':
if( sscanf(optarg, "%lg,%lg,%lg", &(up.vtX), &(up.vtY),
&(up.vtZ)) < 3 ){
usage(argv[0]);
return 1;
}
break;
case 'R':
if((inFP = fopen(optarg, "rb"))){
if((subDomain = WlzReadObj(inFP, &errNum)) == NULL){
fprintf(stderr, "%s: can't read sub-domain object %s\n", argv[0], optarg);
usage(argv[0]);
return 1;
}
fclose(inFP);
}
else {
fprintf(stderr, "%s: can't open file %s\n", argv[0], optarg);
usage(argv[0]);
return 1;
}
break;
case 'T':
timer = 1;
break;
case 't':
trFile = optarg;
break;
case 'h':
default:
usage(argv[0]);
return 0;
}
}
/* check input file/stream */
inFP = stdin;
if( optind < argc ){
if( (inFP = fopen(*(argv+optind), "rb")) == NULL ){
fprintf(stderr, "%s: can't open file %s\n", argv[0], *(argv+optind));
usage(argv[0]);
return 1;
}
}
/* check output file/stream */
if( allFlg ){
if(strcmp(outFile, "-"))
{
/* strip any file extension */
for(i=0, j=strlen(outFile); i < strlen(outFile); i++){
if( outFile[i] == '.' ){
j = i;
}
}
outFile[j] = '\0';
}
else {
outFile = "plane";
}
}
else {
if(strcmp(outFile, "-"))
{
if((outFP = fopen(outFile, "wb")) == NULL)
{
errNum = WLZ_ERR_WRITE_EOF;
}
}
else
{
outFP = stdout;
}
}
/* create view structure */
if((viewStr = WlzMake3DViewStruct(WLZ_3D_VIEW_STRUCT, &errNum)) != NULL){
viewStr->theta = yaw * WLZ_M_PI / 180.0;
viewStr->phi = pitch * WLZ_M_PI / 180.0;
viewStr->zeta = roll * WLZ_M_PI / 180.0;
viewStr->dist = dist;
viewStr->fixed = fixed;
viewStr->up = up;
viewStr->view_mode = mode;
viewStr->scale = scale;
viewStr->voxelRescaleFlg = voxRescale;
}
if((errNum == WLZ_ERR_NONE) && (bibFile != NULL) && (trFile != NULL)) {
fprintf(stderr, "%s: both bibfile and transform file specified.\n",
argv[0]);
}
/* check bibfile - select first section parameters in the file */
if((errNum == WLZ_ERR_NONE) && (bibFile != NULL)){
if((bibFP = fopen(bibFile, "r")) != NULL){
bibFileErr = BibFileRecordRead(&bibfileRecord, &errMsg, bibFP);
while((bibFileErr == BIBFILE_ER_NONE) &&
(strncmp(bibfileRecord->name, "Wlz3DSectionViewParams", 22))){
BibFileRecordFree(&bibfileRecord);
bibFileErr = BibFileRecordRead(&bibfileRecord, &errMsg, bibFP);
}
fclose( bibFP );
if( bibFileErr != BIBFILE_ER_NONE ){
fprintf(stderr, "%s: error reading bibfile: %s\n", argv[0], errMsg);
AlcFree((void *) errMsg);
return 1;
}
WlzEffBibParse3DSectionViewParamsRecord(bibfileRecord, viewStr);
BibFileRecordFree(&bibfileRecord);
}
else {
fprintf(stderr, "%s: can't open parameter bibfile %s\n", argv[0],
bibFile);
return 1;
}
}
if((errNum == WLZ_ERR_NONE) && (trFile != NULL)){
if((trFP = fopen(trFile, "r")) != NULL){
WlzObject *trObj = NULL;
if((trObj = WlzReadObj(trFP, &errNum)) != NULL) {
if(trObj->type != WLZ_3D_VIEW_STRUCT) {
errNum = WLZ_ERR_OBJECT_TYPE;
}
else if (trObj->domain.core == NULL) {
errNum = WLZ_ERR_DOMAIN_NULL;
}
else {
WlzThreeDViewStruct *fViewStr;
fViewStr = trObj->domain.vs3d;
viewStr->theta = fViewStr->theta;
viewStr->phi = fViewStr->phi;
viewStr->zeta = fViewStr->zeta;
viewStr->dist = fViewStr->dist;
viewStr->fixed = fViewStr->fixed;
viewStr->up = fViewStr->up;
viewStr->view_mode = fViewStr->view_mode;
viewStr->scale = fViewStr->scale;
viewStr->voxelRescaleFlg = fViewStr->voxelRescaleFlg;
}
(void )WlzFreeObj(trObj);
}
}
if(errNum != WLZ_ERR_NONE) {
fprintf(stderr,
"%s: error reading section view transform from %s.\n",
argv[0], trFile);
return 1;
}
}
/* read objects and section if possible */
while((errNum == WLZ_ERR_NONE) &&
((obj = WlzReadObj(inFP, &errNum)) != NULL))
{
obj = WlzAssignObject(obj, &errNum);
switch( obj->type )
{
case WLZ_CONTOUR:
case WLZ_3D_DOMAINOBJ:
if(voxRescale && obj->domain.core)
{
viewStr->voxelSize[0] = obj->domain.p->voxel_size[0];
viewStr->voxelSize[1] = obj->domain.p->voxel_size[1];
viewStr->voxelSize[2] = obj->domain.p->voxel_size[2];
}
WlzInit3DViewStruct(viewStr, obj);
if(timer)
{
gettimeofday(times + 0, NULL);
}
if( allFlg ){
/* loop through all possible planes */
for(i=WLZ_NINT(viewStr->minvals.vtZ), j=0;
i <= WLZ_NINT(viewStr->maxvals.vtZ); i++, j++){
viewStr->dist = i;
WlzInit3DViewStruct(viewStr, obj);
nobj = WlzGetSubSectionFromObject(obj, subDomain, viewStr, interp,
NULL, &errNum);
if( nobj != NULL){
char fileBuf[256];
sprintf(fileBuf, "%s%06d.wlz", outFile, j);
if((outFP = fopen(fileBuf, "w")) != NULL){
WlzWriteObj(outFP, nobj);
fclose(outFP);
}
}
else {
return errNum;
}
WlzFreeObj(nobj);
}
}
else {
nobj = WlzGetSubSectionFromObject(obj, subDomain, viewStr, interp,
NULL, &errNum);
if( nobj != NULL){
WlzWriteObj(outFP, nobj);
}
else {
return errNum;
}
WlzFreeObj(nobj);
}
if(timer)
{
gettimeofday(times + 1, NULL);
ALC_TIMERSUB(times + 1, times + 0, times + 2);
(void )fprintf(stderr,
"%s: Elapsed time = %g\n",
*argv,
times[2].tv_sec + (0.000001 * times[2].tv_usec));
}
break;
default:
WlzWriteObj(outFP, obj);
break;
}
WlzFreeObj(obj);
}
if(errNum == WLZ_ERR_READ_EOF)
{
errNum = WLZ_ERR_NONE;
}
if( viewStr ){
WlzFree3DViewStruct(viewStr);
}
if( subDomain ){
WlzFreeObj(subDomain);
}
return errNum;
}
