return newImage;
}
-
+/* EED Borrame
void ReadMHDPlane::ReadNormalMHD()
{
// THE MAIN PROCESSING METHOD BODY
int width;
long long dataSize;
-
if (bbGetInputDirectionPlane()=="XY")
{
inputfilename=bbGetInputFileName();
} // if XY
-
if ((bbGetInputDirectionPlane()=="YZ") || (bbGetInputDirectionPlane()=="ZX"))
{
//-- Split FileName
if (ffIn!=NULL)
{
FILE *ffOut = fopen(newFileName.c_str(),"w");
-
while(!feof(ffIn))
{
strcpy(mystring,"\n");
if (strncmp("DimSize",mystring,6)==0)
{
sscanf(mystring,"%s %s %d %d %d",strTmp, strTmp, &sx, &sy,&sz);
-
if (width==1)
{
sprintf(mystring,"DimSize = %d %d\n",sx,sy);
} else {
sprintf(mystring,"DimSize = %d %d %d\n",sx,sy,width);
}
-
newHeaderSize = (long long int)sx*(long long int)sy*(long long int)slice;
if (bbGetInputSlice()>=sz) {ok=false;}
} // if
if (strncmp("ElementType = MET_DOUBLE",mystring,24)==0) { dataSize=sizeof(double); }
if (strncmp("ElementType = VTK_DOUBLE",mystring,24)==0) { dataSize=sizeof(double); }
newHeaderSize=newHeaderSize*dataSize;
-
if (strncmp("Offset",mystring,6)==0) {strcpy(mystring,"Offset = 0 0 0\n");}
if (strncmp("HeaderSize",mystring,10)==0) {strcpy(mystring,"");}
if (strncmp("ElementDataFile",mystring,15)==0)
} // while
fclose(ffIn);
fclose(ffOut);
-
if (ok==true)
{
vtkMetaImageReader * reader = vtkMetaImageReader::New();
} else {
ok=false;
printf("EED ERROR: Problem openin:%s\n", inputfilename.c_str() );
- }
-
+ }// if ffIn
if (ok==false)
{
newImage=CreateDefaultImage();
} // if ok
bbSetOutputOut( newImage );
+ bbSetOutputOut2( ChangeOrientation(newImage) );
}
+*/
+vtkImageData* ReadMHDPlane::ChangeOrientation(vtkImageData* img)
+{
+ int ext[6];
+ int sizeX, sizeY,sizeZ;
+ img->GetWholeExtent(ext);
+ int sizeLine;
+ if (bbGetInputDirectionPlane()=="XY")
+ {
+ sizeX = ext[1]-ext[0]+1;
+ sizeY = ext[3]-ext[2]+1;
+ sizeZ = 1;
+ } // XY
+ if (bbGetInputDirectionPlane()=="YZ")
+ {
+ sizeX = 1;
+ sizeY = ext[1]-ext[0]+1;
+ sizeZ = ext[3]-ext[2]+1;
+ sizeLine = sizeY;
+ } // YZ
+ if (bbGetInputDirectionPlane()=="ZX")
+ {
+ sizeX = ext[1]-ext[0]+1;
+ sizeY = 1;
+ sizeZ = ext[3]-ext[2]+1;
+ sizeLine = sizeX;
+ } // ZX
+ vtkImageData *newImageOrinted = vtkImageData::New();
+ newImageOrinted->Initialize();
+ newImageOrinted->SetScalarType( img->GetScalarType() );
+ newImageOrinted->SetSpacing( img->GetSpacing() );
+ newImageOrinted->SetDimensions( sizeX,sizeY,sizeZ );
+ newImageOrinted->SetWholeExtent(0,sizeX-1,0,sizeY-1,0,sizeZ-1 );
+ newImageOrinted->SetExtent(0,sizeX-1,0,sizeY-1,0,sizeZ-1 );
+ newImageOrinted->SetNumberOfScalarComponents(1);
+ newImageOrinted->AllocateScalars();
+ newImageOrinted->Update();
+ if (bbGetInputDirectionPlane()=="XY")
+ {
+ memcpy ( newImageOrinted->GetScalarPointer(), img->GetScalarPointer(), sizeX*sizeY*sizeZ*img->GetScalarSize() );
+ } else {
+ int yy;
+ int dimY=ext[3]-ext[2]+1;
+ int sizeByte=sizeLine*img->GetScalarSize();
+ void *ptrDst=newImageOrinted->GetScalarPointer() + sizeByte*dimY;
+ void *ptrOrg=img->GetScalarPointer();
+ for (yy=0 ; yy<dimY; yy++)
+ {
+ ptrDst=ptrDst-sizeByte;
+ memcpy ( ptrDst, ptrOrg , sizeByte );
+ ptrOrg=ptrOrg+sizeByte;
+ }// for
+ }
+ return newImageOrinted;
+}
-
-
-
+/* EED Borrame
void ReadMHDPlane::Read64lseek()
{
int slice;
int width;
-
width = bbGetInputWidth();
if (width<=0 ) { width=1; }
-
slice = bbGetInputSlice();
if (slice<0 ) { slice=0; }
-
int dimX=-1,dimY=-1,dimZ=-1;
int dim=-1;
std::string formattype("VOID");
float spcX=-1,spcY=-1,spcZ=-1;
float ox=-1,oy=-1,oz=-1;
long int headersize=0;
-
vtkImageData *newImage=NULL;
-
char mystring[250];
char strTmp[30];
char strTmp2[30];
FILE *ffIn = fopen(bbGetInputFileName().c_str(),"r");
long long dataSize;
-
if (ffIn!=NULL)
{
newImage = vtkImageData::New();
-
while(!feof(ffIn))
{
strcpy(mystring,"\n");
fgets(mystring,250,ffIn);
- if (strncmp("NDims",mystring,5)==0) { sscanf(mystring,"%s %s %d" ,strTmp, strTmp, &dim); }
- if (strncmp("DimSize",mystring,6)==0) { sscanf(mystring,"%s %s %d %d %d" ,strTmp, strTmp, &dimX, &dimY,&dimZ); }
+ if (strncmp("NDims",mystring,5)==0) { sscanf(mystring,"%s %s %d" ,strTmp, strTmp, &dim); }
+ if (strncmp("DimSize",mystring,6)==0) { sscanf(mystring,"%s %s %d %d %d" ,strTmp, strTmp, &dimX, &dimY,&dimZ); }
if (strncmp("ElementType",mystring,11)==0) { sscanf(mystring,"%s %s %s" ,strTmp, strTmp, strTmp2); formattype=strTmp2; }
- if (strncmp("ElementSpacing",mystring,14)==0) { sscanf(mystring,"%s %s %f %f %f" ,strTmp, strTmp, &spcX,&spcY,&spcZ); }
- if (strncmp("ElementSize",mystring,11)==0) { sscanf(mystring,"%s %s %f %f %f" ,strTmp, strTmp, &spcX,&spcY,&spcZ); }
- if (strncmp("Offset",mystring,6)==0) { sscanf(mystring,"%s %s %f %f %f" ,strTmp, strTmp, &ox, &oy, &oz); }
- if (strncmp("HeaderSize",mystring,10)==0) { sscanf(mystring,"%s %s %ld" ,strTmp, strTmp, &headersize); }
+ if (strncmp("ElementSpacing",mystring,14)==0) { sscanf(mystring,"%s %s %f %f %f" ,strTmp, strTmp, &spcX,&spcY,&spcZ); }
+ if (strncmp("ElementSize",mystring,11)==0) { sscanf(mystring,"%s %s %f %f %f" ,strTmp, strTmp, &spcX,&spcY,&spcZ); }
+ if (strncmp("Offset",mystring,6)==0) { sscanf(mystring,"%s %s %f %f %f" ,strTmp, strTmp, &ox, &oy, &oz); }
+ if (strncmp("HeaderSize",mystring,10)==0) { sscanf(mystring,"%s %s %ld" ,strTmp, strTmp, &headersize); }
if (strncmp("ElementDataFile",mystring,15)==0) { sscanf(mystring,"%s %s %s" ,strTmp, strTmp, strTmp2); elementdatafile=strTmp2; }
-
if (strncmp("ElementType = MET_CHAR",mystring,22)==0) { newImage->SetScalarTypeToChar(); dataSize=sizeof(char); }
if (strncmp("ElementType = VTK_CHAR",mystring,22)==0) { newImage->SetScalarTypeToChar(); dataSize=sizeof(char); }
if (strncmp("ElementType = MET_UCHAR",mystring,23)==0) { newImage->SetScalarTypeToUnsignedChar(); dataSize=sizeof(unsigned char); }
if (strncmp("ElementType = VTK_LONG",mystring,22)==0) { newImage->SetScalarTypeToLong(); dataSize=sizeof(long); }
if (strncmp("ElementType = MET_DOUBLE",mystring,24)==0) { newImage->SetScalarTypeToDouble(); dataSize=sizeof(double); }
if (strncmp("ElementType = VTK_DOUBLE",mystring,24)==0) { newImage->SetScalarTypeToDouble(); dataSize=sizeof(double); }
-
} // while
fclose(ffIn);
-
newImage->Initialize();
-
-
int fd;
long long ret;
std::size_t found;
found = bbGetInputFileName().find_last_of("/\\");
filename = bbGetInputFileName().substr(0,found+1) + elementdatafile ;
long long pos;
-
long long lsize = dimX*dimY*width *dataSize;
-
-
#if defined(_WIN32)
_sopen_s( &fd, filename.c_str(), _O_RDONLY, _SH_DENYNO, 0 );
#else
fd = open ( filename.c_str() , O_RDONLY|O_LARGEFILE );
#endif // defined(_WIN32)
-
-
if (fd < 0)
{
printf("EED ReadMHDPlane::Read64lseek WARNNING! raw file not exist\n");
newImage=CreateDefaultImage();
// exit(1);
}
-
-
if ((bbGetInputDirectionPlane()=="XY") && (fd>=0))
{
newImage->SetSpacing( spcX,spcY,spcZ );
fprintf(stderr, "Failed seeking to %lld, %s\n", pos, strerror(errno));
exit(1);
}
-
if ((ret = read(fd, newImage->GetScalarPointer() , lsize)) < 0)
{
fprintf(stderr, "Failed reading: %s\n", strerror(errno));
exit(1);
}
} // if PLANE XY
-
- if ((bbGetInputDirectionPlane()=="XZ") && (fd>=0))
+ if ((bbGetInputDirectionPlane()=="ZX") && (fd>=0))
{
newImage->SetSpacing( spcX,spcZ,spcY );
newImage->SetDimensions( dimX,dimZ,width );
int iWidth;
for (iWidth=0;iWidth<width;iWidth++)
{
- copy_XZ_plane(fd,newImage,slice+iWidth,iWidth,dimX,dimY,dimZ,dataSize);
+ copy_ZX_plane(fd,newImage,slice+iWidth,iWidth,dimX,dimY,dimZ,dataSize);
}
} // if PLANE XZ
-
if ((bbGetInputDirectionPlane()=="YZ") && (fd>=0))
{
newImage->SetSpacing( spcY,spcZ,spcX );
{
copy_YZ_plane(fd,newImage,slice+iWidth,iWidth,dimX,dimY,dimZ,dataSize);
}
-
} // if PLANE YZ
#if defined(_WIN32)
_close (fd);
} else {
newImage=CreateDefaultImage();
} // if ffIn
+ bbSetOutputOut( newImage );
+ bbSetOutputOut2( ChangeOrientation(newImage) );
+}
+*/
+void ReadMHDPlane::Read64lseek(std::string fileNameIn, std::string plane)
+{
+ int slice;
+ int width;
+ width = bbGetInputWidth();
+ if (width<=0 ) { width=1; }
+ slice = bbGetInputSlice();
+ if (slice<0 ) { slice=0; }
+ int dimX=-1,dimY=-1,dimZ=-1;
+ int dim=-1;
+ std::string formattype("VOID");
+ std::string elementdatafile("VOID");
+ float spcX=-1,spcY=-1,spcZ=-1;
+ float ox=-1,oy=-1,oz=-1;
+ long int headersize=0;
+ vtkImageData *newImage=NULL;
+ char mystring[250];
+ char strTmp[30];
+ char strTmp2[30];
+ FILE *ffIn = fopen( fileNameIn.c_str() , "r");
+ long long dataSize;
+ if (ffIn!=NULL)
+ {
+ newImage = vtkImageData::New();
+ while(!feof(ffIn))
+ {
+ strcpy(mystring,"\n");
+ fgets(mystring,250,ffIn);
+ if (strncmp("NDims",mystring,5)==0) { sscanf(mystring,"%s %s %d" ,strTmp, strTmp, &dim); }
+ if (strncmp("DimSize",mystring,6)==0) { sscanf(mystring,"%s %s %d %d %d" ,strTmp, strTmp, &dimX, &dimY,&dimZ); }
+ if (strncmp("ElementType",mystring,11)==0) { sscanf(mystring,"%s %s %s" ,strTmp, strTmp, strTmp2); formattype=strTmp2; }
+ if (strncmp("ElementSpacing",mystring,14)==0) { sscanf(mystring,"%s %s %f %f %f" ,strTmp, strTmp, &spcX,&spcY,&spcZ); }
+ if (strncmp("ElementSize",mystring,11)==0) { sscanf(mystring,"%s %s %f %f %f" ,strTmp, strTmp, &spcX,&spcY,&spcZ); }
+ if (strncmp("Offset",mystring,6)==0) { sscanf(mystring,"%s %s %f %f %f" ,strTmp, strTmp, &ox, &oy, &oz); }
+ if (strncmp("HeaderSize",mystring,10)==0) { sscanf(mystring,"%s %s %ld" ,strTmp, strTmp, &headersize); }
+ if (strncmp("ElementDataFile",mystring,15)==0) { sscanf(mystring,"%s %s %s" ,strTmp, strTmp, strTmp2); elementdatafile=strTmp2; }
+ if (strncmp("ElementType = MET_CHAR",mystring,22)==0) { newImage->SetScalarTypeToChar(); dataSize=sizeof(char); }
+ if (strncmp("ElementType = VTK_CHAR",mystring,22)==0) { newImage->SetScalarTypeToChar(); dataSize=sizeof(char); }
+ if (strncmp("ElementType = MET_UCHAR",mystring,23)==0) { newImage->SetScalarTypeToUnsignedChar(); dataSize=sizeof(unsigned char); }
+ if (strncmp("ElementType = VTK_UNSIGNED_CHAR",mystring,31)==0) { newImage->SetScalarTypeToUnsignedChar(); dataSize=sizeof(unsigned char); }
+ if (strncmp("ElementType = MET_USHORT",mystring,24)==0) { newImage->SetScalarTypeToUnsignedShort(); dataSize=sizeof(unsigned short);}
+ if (strncmp("ElementType = VTK_UNSIGNED_SHORT",mystring,32)==0) { newImage->SetScalarTypeToUnsignedShort(); dataSize=sizeof(unsigned short);}
+ if (strncmp("ElementType = MET_SHORT",mystring,23)==0) { newImage->SetScalarTypeToShort(); dataSize=sizeof(short); }
+ if (strncmp("ElementType = VTK_SHORT",mystring,23)==0) { newImage->SetScalarTypeToShort(); dataSize=sizeof(short); }
+ if (strncmp("ElementType = MET_UINT",mystring,22)==0) { newImage->SetScalarTypeToUnsignedInt(); dataSize=sizeof(unsigned int); }
+ if (strncmp("ElementType = VTK_UNSIGNED_INT",mystring,30)==0) { newImage->SetScalarTypeToUnsignedInt(); dataSize=sizeof(unsigned int); }
+ if (strncmp("ElementType = MET_INT",mystring,21)==0) { newImage->SetScalarTypeToInt(); dataSize=sizeof(int); }
+ if (strncmp("ElementType = VTK_INT",mystring,21)==0) { newImage->SetScalarTypeToInt(); dataSize=sizeof(int); }
+ if (strncmp("ElementType = MET_FLOAT",mystring,23)==0) { newImage->SetScalarTypeToFloat(); dataSize=sizeof(float); }
+ if (strncmp("ElementType = VTK_FLOAT",mystring,23)==0) { newImage->SetScalarTypeToFloat(); dataSize=sizeof(float); }
+ if (strncmp("ElementType = MET_LONG",mystring,22)==0) { newImage->SetScalarTypeToLong(); dataSize=sizeof(long); }
+ if (strncmp("ElementType = VTK_LONG",mystring,22)==0) { newImage->SetScalarTypeToLong(); dataSize=sizeof(long); }
+ if (strncmp("ElementType = MET_DOUBLE",mystring,24)==0) { newImage->SetScalarTypeToDouble(); dataSize=sizeof(double); }
+ if (strncmp("ElementType = VTK_DOUBLE",mystring,24)==0) { newImage->SetScalarTypeToDouble(); dataSize=sizeof(double); }
+ } // while
+ fclose(ffIn);
+ newImage->Initialize();
+ int fd;
+ long long ret;
+ std::size_t found;
+ std::string filename;
+ found = fileNameIn.find_last_of("/\\");
+ filename = fileNameIn.substr(0,found+1) + elementdatafile ;
+ long long pos;
+ long long lsize = dimX*dimY*width *dataSize;
+#if defined(_WIN32)
+ _sopen_s( &fd, filename.c_str(), _O_RDONLY, _SH_DENYNO, 0 );
+#else
+ fd = open ( filename.c_str() , O_RDONLY|O_LARGEFILE );
+#endif // defined(_WIN32)
+ if (fd < 0)
+ {
+ printf("EED ReadMHDPlane::Read64lseek WARNNING! raw file not exist\n");
+ fprintf(stderr, "%s\n", strerror(errno));
+ newImage=CreateDefaultImage();
+// exit(1);
+ }
+ if ((plane=="XY") && (fd>=0))
+ {
+ newImage->SetSpacing( spcX,spcY,spcZ );
+ newImage->SetDimensions( dimX,dimY,width );
+ newImage->SetWholeExtent(0, dimX-1,0,dimY-1,0,width-1 );
+ newImage->SetExtent(0, dimX-1,0,dimY-1,0,width-1 );
+ newImage->SetNumberOfScalarComponents(1);
+ newImage->AllocateScalars();
+ newImage->Update();
+ pos = dimX*dimY*(long long)slice*dataSize;
+#if defined(_WIN32)
+ if (_lseeki64( fd, pos, SEEK_SET ) < 0)
+#else
+ if (lseek64(fd, pos, SEEK_SET) < 0)
+#endif // defined(_WIN32)
+ {
+ printf("EED ReadMHDPlane::Read64lseek \n");
+ fprintf(stderr, "Failed seeking to %lld, %s\n", pos, strerror(errno));
+ exit(1);
+ }
+ if ((ret = read(fd, newImage->GetScalarPointer() , lsize)) < 0)
+ {
+ fprintf(stderr, "Failed reading: %s\n", strerror(errno));
+ exit(1);
+ }
+ } // if PLANE XY
+ if ((plane=="ZX") && (fd>=0))
+ {
+ newImage->SetSpacing( spcX,spcZ,spcY );
+ newImage->SetDimensions( dimX,dimZ,width );
+ newImage->SetWholeExtent(0, dimX-1,0,dimZ-1,0,width-1 );
+ newImage->SetExtent(0, dimX-1,0,dimZ-1,0,width-1 );
+ newImage->SetNumberOfScalarComponents(1);
+ newImage->AllocateScalars();
+ newImage->Update();
+ int iWidth;
+ for (iWidth=0;iWidth<width;iWidth++)
+ {
+ copy_ZX_plane(fd,newImage,slice+iWidth,iWidth,dimX,dimY,dimZ,dataSize);
+ }
+ } // if PLANE XZ
+ if ((plane=="YZ") && (fd>=0))
+ {
+ newImage->SetSpacing( spcY,spcZ,spcX );
+ newImage->SetDimensions( dimY,dimZ,width );
+ newImage->SetWholeExtent(0, dimY-1,0,dimZ-1,0,width-1 );
+ newImage->SetExtent(0, dimY-1,0,dimZ-1,0,width-1 );
+ newImage->SetNumberOfScalarComponents(1);
+ newImage->AllocateScalars();
+ newImage->Update();
+ int iWidth;
+ for (iWidth=0;iWidth<width;iWidth++)
+ {
+ copy_YZ_plane(fd,newImage,slice+iWidth,iWidth,dimX,dimY,dimZ,dataSize);
+ }
+ } // if PLANE YZ
+#if defined(_WIN32)
+ _close (fd);
+#else
+ close (fd);
+#endif // defined(_WIN32)
+ } else {
+ newImage=CreateDefaultImage();
+ } // if ffIn
bbSetOutputOut( newImage );
+ bbSetOutputOut2( ChangeOrientation(newImage) );
}
}
-void ReadMHDPlane::copy_XZ_plane(int fd,vtkImageData *newImage,int slice,int iWidth,int dimX,int dimY,int dimZ,int dataSize)
+void ReadMHDPlane::copy_ZX_plane(int fd,vtkImageData *newImage,int slice,int iWidth,int dimX,int dimY,int dimZ,int dataSize)
{
long long int j;
long long ret;
{
if (bbGetInputType()==0)
{
- ReadNormalMHD();
+ //-- Split FileName
+ std::string inputfilename;
+ std::size_t found = bbGetInputFileName().find_last_of("/\\");
+ std::string path = bbGetInputFileName().substr(0,found+1);
+ std::string filename = bbGetInputFileName().substr(found+1);
+#ifdef _WIN32
+ path=path+"YZ_ZX\\";
+#else
+ path=path+"YZ_ZX/";
+#endif
+ if (bbGetInputDirectionPlane()=="XY") { inputfilename = bbGetInputFileName(); } // if XY
+ if (bbGetInputDirectionPlane()=="YZ") { inputfilename = path+filename+"_YZ.mhd"; } // if YZ
+ if (bbGetInputDirectionPlane()=="ZX") { inputfilename = path+filename+"_ZX.mhd"; } // if XZ
+ Read64lseek( inputfilename ,"XY");
}
if (bbGetInputType()==1)
{
- Read64lseek();
+ Read64lseek( bbGetInputFileName(), bbGetInputDirectionPlane() );
}
}
git://git.creatis.insa-lyon.fr / creaVtk.git / commitdiff