/*!
* \return Error code.
* \ingroup Reconstruct
* \brief Given a destination directory and file body and a 3D
* Woolz object, the 3D object is and exploded into a series of 2D
* section files (in the destination directory) each with a name
* formed from the given file body and the source plane index. A
* section list is also created in the directory using the given
* file body together with the '.bib' file extension.
* \param dstDirStr Destination directory.
* \param dstBodyStr Destination file body.
* \param srcObj Source 3D woolz object.
* \param srcFName Source file name, may be NULL.
* \param srcFFormat Source file format, may be
* WLZEFF_FORMAT_NONE.
* \param eMsg Destinagtion pointer for messages.
*/
RecError RecExplode3DObjToFile(char *dstDirStr, char *dstBodyStr,
WlzObject *srcObj, char *srcFName,
WlzEffFormat srcFFormat, char **eMsg)
{
int objIdx,
planeIdx,
objVecCount,
fileStrSpace;
char *fileStr = NULL,
*fileTemplateStr = NULL;
FILE *fP;
WlzObject **objVec = NULL;
RecSectionList *secList = NULL;
RecError errFlag = REC_ERR_NONE;
struct stat statBuf;
const char *errDirAccessStr = "Failed to access directory",
*errDirCreateStr = "Failed to create directory",
*errExplodeStr = "Failed to explode 3D object",
*errWriteWoolzStr = "Failed to write 2D section file",
*errListAppendStr = "Failed to build section list",
*errWriteListStr = "Failed to write section list to file";
const char *errStr = NULL;
REC_DBG((REC_DBG_3D|REC_DBG_LVL_FN|REC_DBG_LVL_1),
("RecExplode3DObjToFile FE 0x%lx 0x%lx 0x%lx 0x%lx %d 0x%lx\n",
(unsigned long )dstDirStr, (unsigned long )dstBodyStr,
(unsigned long )srcObj, (unsigned long )srcFName,
srcFFormat, (unsigned long )eMsg));
if((dstDirStr == NULL) || (strlen(dstDirStr) == 0) ||
(dstBodyStr == NULL) || (strlen(dstBodyStr) == 0) ||
(srcObj == NULL) || (srcObj->type != WLZ_3D_DOMAINOBJ) ||
(srcObj->domain.core == NULL))
{
errFlag = REC_ERR_FUNC;
}
if(errFlag == REC_ERR_NONE) /* Check for/create destination directory */
{
if(stat(dstDirStr, &statBuf) == 0) /* Directory exists */
{
#ifdef LINUX2
if((statBuf.st_mode & (__S_IFDIR|__S_IREAD|__S_IWRITE|__S_IEXEC)) == 0)
#else /* LINUX2 */
if((statBuf.st_mode & (S_IFDIR | S_IRWXU)) == 0)
#endif /* LINUX2 */
{
errStr = errDirAccessStr;
errFlag = REC_ERR_WRITE; /* Can't read/write/search directory */
}
}
else
{
if(mkdir(dstDirStr, S_IRWXU))
{
errStr = errDirCreateStr;
errFlag = REC_ERR_WRITE;
}
}
REC_DBG((REC_DBG_3D|REC_DBG_LVL_FN|REC_DBG_LVL_2),
("RecExplode3DObjToFile 01 %d\n",
(int )errFlag));
}
if(errFlag == REC_ERR_NONE) /* Explode the 3D Woolz object */
{
if((errFlag = RecErrorFromWlz(
WlzExplode3D(&objVecCount, &objVec, srcObj))) != REC_ERR_NONE)
{
errStr = errExplodeStr;
}
REC_DBG((REC_DBG_3D|REC_DBG_LVL_FN|REC_DBG_LVL_2),
("RecExplode3DObjToFile 02 %d\n",
(int )errFlag));
}
if(errFlag == REC_ERR_NONE) /* Create a section list */
{
if(((secList = RecSecNewSectionList(NULL)) == NULL) ||
((secList->list = HGUDlpListCreate(NULL)) == NULL))
{
errFlag = REC_ERR_MALLOC;
}
else
{
secList->reconstruction.fileName = srcFName;
secList->reconstruction.fileFormat = srcFFormat;
}
REC_DBG((REC_DBG_3D|REC_DBG_LVL_FN|REC_DBG_LVL_2),
("RecExplode3DObjToFile 03 %d\n",
(int )errFlag));
}
if(errFlag == REC_ERR_NONE) /* Write 2D files, build/write section list */
{
fP = NULL;
objIdx = 0;
planeIdx = srcObj->domain.p->plane1;
fileStrSpace = (int )strlen(dstDirStr) + (int )strlen(dstBodyStr) + 64;
if(((fileStr = AlcMalloc(sizeof(char) * fileStrSpace)) == NULL) ||
((fileTemplateStr = AlcMalloc(sizeof(char) * fileStrSpace)) == NULL))
{
errFlag = REC_ERR_MALLOC;
}
else
{
(void )sprintf(fileTemplateStr, "%s/%s", dstDirStr, dstBodyStr);
}
while((errFlag == REC_ERR_NONE) && (objIdx < objVecCount))
{
(void )sprintf(fileStr, "%s_%06d.wlz", fileTemplateStr, planeIdx);
if((fP = fopen(fileStr, "w")) == NULL)
{
errStr = errWriteWoolzStr;
errFlag = REC_ERR_WRITE;
}
if(errFlag == REC_ERR_NONE)
{
if((errFlag = RecErrorFromWlz(
WlzWriteObj(fP, *(objVec + objIdx)))) != REC_ERR_NONE)
{
errStr = errWriteWoolzStr;
}
fclose(fP);
}
if(errFlag == REC_ERR_NONE)
{
errFlag = RecSecAppendListFromFiles(secList->list, NULL, &fileStr, 1,
planeIdx, 1);
if(errFlag != REC_ERR_NONE)
{
errStr = errListAppendStr;
}
}
if(errFlag == REC_ERR_NONE)
{
++objIdx;
++planeIdx;
}
}
if(objVec && (objVecCount > 0))
{
for(objIdx = 0; objIdx < objVecCount; ++objIdx)
{
if(*(objVec + objIdx))
{
(void )WlzFreeObj(*(objVec + objIdx));
}
}
free(objVec);
}
if(errFlag == REC_ERR_NONE)
{
(void )sprintf(fileStr, "%s.bib", fileTemplateStr);
if((fP = fopen(fileStr, "w")) == NULL)
{
errStr = errWriteListStr;
errFlag = REC_ERR_WRITE;
}
else
{
errFlag = RecFileSecListWrite(fP, secList, objVecCount, eMsg);
fclose(fP);
}
}
if(fileStr)
{
free(fileStr);
}
if(fileTemplateStr)
{
free(fileTemplateStr);
}
if(secList)
{
HGUDlpListDestroy(secList->list);
AlcFree(secList);
}
REC_DBG((REC_DBG_3D|REC_DBG_LVL_FN|REC_DBG_LVL_2),
("RecExplode3DObjToFile 04 %d\n",
(int )errFlag));
}
if((errFlag != REC_ERR_NONE) && eMsg && (*eMsg == NULL) && (errStr != NULL))
{
*eMsg = AlcStrDup(errStr);
}
REC_DBG((REC_DBG_3D|REC_DBG_LVL_FN|REC_DBG_LVL_1),
("RecExplode3DObjToFile FX %d\n",
(int )errFlag));
return(errFlag);
}
int main(int argc,
char **argv)
{
char optList[] = "hv";
int option;
/* int verboseFlg=0; */
WlzErrorNum errNum=WLZ_ERR_NONE;
char *tiffFile=NULL;
WlzObject *inObj, *outObj, *obj, **objVec;
int i, objVecCount;
WlzGreyType gType;
/* read the argument list and check for an input file */
opterr = 0;
while( (option = getopt(argc, argv, optList)) != EOF ){
switch( option ){
case 'v':
/* verboseFlg = 1; */
break;
case 'h':
default:
usage(argv[0]);
return WLZ_ERR_UNSPECIFIED;
}
}
if( optind < argc ){
tiffFile = *(argv+optind);
}
else {
usage(argv[0]);
return WLZ_ERR_UNSPECIFIED;
}
/* read the TIFF file */
if( (inObj = WlzAssignObject(WlzEffReadObj(NULL, tiffFile,
WLZEFF_FORMAT_TIFF, 0, 0, 0,
&errNum), NULL)) == NULL ){
usage(argv[0]);
return errNum;
}
/* if 2D then that is the shade file, else take max of 3D stack */
switch( inObj->type ){
case WLZ_2D_DOMAINOBJ:
outObj = inObj;
break;
case WLZ_3D_DOMAINOBJ:
if( (errNum = WlzExplode3D(&objVecCount, &objVec, inObj)) != WLZ_ERR_NONE ){
usage(argv[0]);
return errNum;
}
gType = WlzGreyTypeFromObj(objVec[0], &errNum);
outObj = WlzAssignObject(objVec[0], NULL);
for(i=1; i < objVecCount; i++){
if( gType == WLZ_GREY_RGBA ){
obj = WlzRGBAImageArithmetic(outObj, objVec[i], WLZ_BO_MAX, 0, &errNum);
}
else {
obj = WlzImageArithmetic(outObj, objVec[i], WLZ_BO_MAX, 0, &errNum);
}
if( obj ){
WlzFreeObj(outObj);
outObj = WlzAssignObject(obj, &errNum);
}
else {
break;
}
}
WlzFreeObj(inObj);
break;
default:
WlzFreeObj(inObj);
errNum = WLZ_ERR_OBJECT_TYPE;
}
/* write shade object */
if( errNum == WLZ_ERR_NONE ){
WlzWriteObj(stdout, outObj);
WlzFreeObj(outObj);
}
else {
usage(argv[0]);
}
return errNum;
}
int main(int argc,
char **argv)
{
char optList[] = "n:O:hv";
int option;
/* int verboseFlg=0; */
int rows=0, cols=0;
int overlap=50;
int rowShift, colShift;
WlzErrorNum errNum=WLZ_ERR_NONE;
char *tiffFile=NULL;
WlzObject *inObj=NULL, *outObj=NULL, *obj, **objVec;
WlzCompoundArray *outCmpnd;
int i, j, objVecCount, objIndx;
/* read the argument list and check for an input file */
opterr = 0;
while( (option = getopt(argc, argv, optList)) != EOF ){
switch( option ){
case 'n':
switch( sscanf(optarg, "%d,%d", &cols, &rows) ){
default:
usage(argv[0]);
return 1;
case 1:
fprintf(stderr,
"%s: number of rows not set and will be estimated\n",
argv[0]);
break;
case 2:
break;
}
break;
case 'O':
switch( sscanf(optarg, "%d", &overlap) ){
default:
fprintf(stderr,
"%s: overlap not read", argv[0]);
usage(argv[0]);
return 1;
case 1:
break;
}
break;
case 'v':
/* verboseFlg = 1; */
break;
case 'h':
default:
usage(argv[0]);
return WLZ_ERR_UNSPECIFIED;
}
}
if( optind < argc ){
tiffFile = *(argv+optind);
}
else {
fprintf(stderr, "%s: input TIFF file required\n", argv[0]);
usage(argv[0]);
return WLZ_ERR_UNSPECIFIED;
}
/* read the TIFF file */
if( (inObj = WlzAssignObject(
WlzEffReadObj(NULL, tiffFile, WLZEFF_FORMAT_TIFF,
0, 0, 0, &errNum), NULL)) == NULL ){
usage(argv[0]);
return errNum;
}
/* if 2D then there is only one patch, simply output as a compound object */
switch( inObj->type ){
case WLZ_2D_DOMAINOBJ:
outCmpnd = WlzMakeCompoundArray(WLZ_COMPOUND_ARR_1, 3, 1, &inObj,
inObj->type, &errNum);
outObj = (WlzObject *) outCmpnd;
break;
case WLZ_3D_DOMAINOBJ:
if( (errNum = WlzExplode3D(&objVecCount, &objVec, inObj)) != WLZ_ERR_NONE ){
usage(argv[0]);
return errNum;
}
/* check if rows and columns plausible */
if( cols && rows ){
if( cols*rows != objVecCount ){
fprintf(stderr,
"%s: input columns and rows (%d,%d) does not match"
"number of patches - %d\n Continuing anyway\n",
argv[0], cols, rows, objVecCount);
}
}
else if( cols ){
rows = objVecCount / cols;
if( cols*rows != objVecCount ){
fprintf(stderr,
"%s: input columns and estimated rows (%d,%d) does not match"
"number of patches - %d\nContinuing anyway\n",
argv[0], cols, rows, objVecCount);
}
}
else {
if( guessColsRows(objVecCount, &cols, &rows) ){
fprintf(stderr,
"%s: estimated cols and rows - (%d,%d)\nContinuing\n",
argv[0], cols, rows);
}
else {
fprintf(stderr,
"%s: cols,rows (%d, %d) estimated seems crazy,"
"put values in explicitely\n",
argv[0], cols, rows);
usage(argv[0]);
return WLZ_ERR_UNSPECIFIED;
}
}
/* shift patch objects, assume patches all the same size */
rowShift = (objVec[0]->domain.i->lastln - objVec[0]->domain.i->line1
+ 1 - overlap);
colShift = (objVec[0]->domain.i->lastkl - objVec[0]->domain.i->kol1
+ 1 - overlap);
objIndx = 0;
for(j=0; j < rows; j++){
for(i=0; i < cols; i++, objIndx++){
if( objIndx < objVecCount ){
obj = WlzShiftObject(objVec[objIndx],
colShift*i, rowShift*j, 0, &errNum);
WlzFreeObj(objVec[objIndx]);
objVec[objIndx] = WlzAssignObject(obj, &errNum);
}
}
}
/* make array */
outCmpnd = WlzMakeCompoundArray(WLZ_COMPOUND_ARR_1, 2,
objVecCount, objVec,
objVec[0]->type, &errNum);
outObj = (WlzObject *) outCmpnd;
break;
default:
errNum = WLZ_ERR_OBJECT_TYPE;
}
WlzFreeObj(inObj);
/* write compound object */
if( errNum == WLZ_ERR_NONE ){
WlzWriteObj(stdout, outObj);
WlzFreeObj(outObj);
}
else {
usage(argv[0]);
}
return errNum;
}
