Program: gdcm
Module: $RCSfile: vtkgdcmSerieViewer.cxx,v $
Language: C++
- Date: $Date: 2005/07/29 15:24:04 $
- Version: $Revision: 1.3 $
+ Date: $Date: 2005/07/30 18:37:48 $
+ Version: $Revision: 1.4 $
Copyright (c) CREATIS (Centre de Recherche et d'Applications en Traitement de
l'Image). All rights reserved. See Doc/License.txt or
// a stack of Dicom images into a native vtk volume.
//
// Usage:
-// * the filenames of the Dicom images constituting the stack should be
-// given as command line arguments,
+// * the Directory name that contains the Dicom images constituting the stack
+// should be given as command line argument,
// * you can navigate through the stack by hitting any character key,
// * the produced vtk file is named "foo.vtk" (in the invocation directory).
//
#include "gdcmDocument.h" // for NO_SHADOWSEQ
#include "gdcmSerieHelper.h"
#include "gdcmDebug.h"
+#include "gdcmArgMgr.h" // for Argument Manager functions
#ifndef vtkFloatingPointType
#define vtkFloatingPointType float
#endif
+void userSuppliedMirrorFunction (uint8_t *im, gdcm::File *f);
+void userSuppliedTopDownFunction(uint8_t *im, gdcm::File *f);
+
//----------------------------------------------------------------------------
// Callback for the interaction
class vtkgdcmObserver : public vtkCommand
{
return "vtkgdcmObserver";
}
+
static vtkgdcmObserver *New()
{
return new vtkgdcmObserver;
}
+
vtkgdcmObserver()
{
this->ImageViewer = NULL;
}
+
virtual void Execute(vtkObject *, unsigned long event, void* )
{
if ( this->ImageViewer )
vtkImageViewer *ImageViewer;
};
-
int main(int argc, char *argv[])
{
- if( argc == 1 )
+ START_USAGE(usage)
+ " \n vtkgdcmSerieViewer : \n",
+ " Display a Serie within a Directory ",
+ " You can navigate through the stack by hitting any character key. ",
+ " usage: vtkgdcmSerieViewer filein=fileName [noshadowseq][noshadow][noseq] ",
+ " [reverse] [{[mirror]|[topdown]|[rotate]}] ",
+ " [check][debug] ",
+ " noshadowseq: user doesn't want to load Private Sequences ",
+ " noshadow : user doesn't want to load Private groups (odd number) ",
+ " noseq : user doesn't want to load Sequences ",
+ " mirror : user wants to 'mirror' the images | just some simple ",
+ " topdown : user wants to 'topdown' the images| examples of user ",
+ " rotate : user wants NOT YET MADE | supplied functions ",
+ " debug : user wants to run the program in 'debug mode' ",
+ FINISH_USAGE
+
+
+ // Initialize Arguments Manager
+ gdcm::ArgMgr *am= new gdcm::ArgMgr(argc, argv);
+
+ if (argc == 1 || am->ArgMgrDefined("usage") )
+ {
+ am->ArgMgrUsage(usage); // Display 'usage'
+ delete am;
+ return 0;
+ }
+
+ char *dirName = am->ArgMgrWantString("dirname",usage);
+
+ int loadMode = 0x00000000;
+ if ( am->ArgMgrDefined("noshadowseq") )
+ loadMode |= NO_SHADOWSEQ;
+ else
+ {
+ if ( am->ArgMgrDefined("noshadow") )
+ loadMode |= NO_SHADOW;
+ if ( am->ArgMgrDefined("noseq") )
+ loadMode |= NO_SEQ;
+ }
+
+ bool reverse = am->ArgMgrDefined("reverse");
+
+ bool mirror = am->ArgMgrDefined("mirror");
+ bool topdown = am->ArgMgrDefined("topdown");
+ bool rotate = am->ArgMgrDefined("rotate");
+
+ bool check = am->ArgMgrDefined("check");
+
+ if ( (int)mirror + (int)topdown + (int)rotate > 1)
{
- std::cout << "Usage : vtkgdcmSerieViewer directoryName [reverse] [debug]"
+ std::cout << "mirror *OR* topDown *OR* rotate !"
<< std::endl;
+ delete am;
return 0;
}
- if( argc > 3 )
- gdcm::Debug::DebugOn();
-
- vtkGdcmReader *reader = vtkGdcmReader::New();
- reader->AllowLookupTableOff();
+ if (am->ArgMgrDefined("debug"))
+ gdcm::Debug::DebugOn();
+
+ /* if unused Param we give up */
+ if ( am->ArgMgrPrintUnusedLabels() )
+ {
+ am->ArgMgrUsage(usage);
+ delete am;
+ return 0;
+ }
+
+ delete am; // we don't need Argument Manager any longer
+ // ----------------------- End Arguments Manager ----------------------
+
// ------------ to check Coherent File List as a parameter
gdcm::SerieHelper *sh = new gdcm::SerieHelper();
- sh->SetLoadMode(NO_SHADOWSEQ);
- if (argc > 2)
- sh->SetSortOrderToReverse(); // just to check
- sh->SetDirectory( argv[1], true);
+ sh->SetLoadMode(loadMode);
+ if (reverse)
+ sh->SetSortOrderToReverse();
+ sh->SetDirectory( dirName, true);
// Just to see
l = sh->GetNextCoherentFileList();
}
+ if (check)
+ {
+ if ( !sh->IsCoherent(l) ) // just be sure (?)
+ {
+ std::cout << "Files are not coherent. Stop everything " << std::endl;
+ delete sh;
+ return 0;
+ }
+ }
+
+ vtkGdcmReader *reader = vtkGdcmReader::New();
+ reader->AllowLookupTableOff();
+
+ if (mirror)
+ reader->SetUserFunction (userSuppliedMirrorFunction);
+ else if (topdown)
+ reader->SetUserFunction (userSuppliedTopDownFunction);
+
// Only the first FileList is dealt with (just an example)
// (The files will not be parsed twice by the reader)
reader->SetCoherentFileList(l);
//---------------------------------------------------------
-
-// TODO : allow user to choose Load Mode
-
- // reader->SetLoadMode(NO_SHADOWSEQ);
+ // because we passed a Coherent File List from a SerieHelper,
+ // setting LoadMode is useless in this case
+ // reader->SetLoadMode(NO_SHADOWSEQ);
reader->Update();
//print debug info:
return 0;
}
+
+
+// --------------------------------------------------------
+// This is just a *very* simple example of user supplied function
+// to mirror (why not ?) the image
+// It's *not* part of gdcm.
+// --------------------------------------------------------
+
+#define UF(ty) \
+ int i, j; \
+ ty *imj; \
+ ty tamp; \
+ for (j=0;j<ny;j++) \
+ { \
+ imj = (ty *)im +j*nx; \
+ for (i=0;i<nx/2;i++) \
+ { \
+ tamp =imj[i]; \
+ imj[i] =imj[nx-1-i]; \
+ imj[nx-1-i]=tamp; \
+ } \
+ } \
+ if (nx%2 != 0) \
+ { \
+ for (j=0;j<ny;j++) \
+ { \
+ imj = (ty *)im +j*nx; \
+ tamp =imj[i]; \
+ imj[i] =imj[nx/2+1]; \
+ imj[nx/2+1]=tamp; \
+ } \
+ }
+
+void userSuppliedMirrorFunction(uint8_t *im, gdcm::File *f)
+{
+ if (f->GetZSize() != 1)
+ {
+ std::cout << "mirror : Multiframe images not yet dealt with" << std::endl;
+ return;
+ }
+
+ if (f->GetSamplesPerPixel() != 1 || f->GetBitsAllocated() == 24)
+ {
+ std::cout << "mirror : RGB / YBR not yet dealt with" << std::endl;
+ return;
+ }
+ int nx = f->GetXSize();
+ int ny = f->GetYSize();
+
+ std::string pixelType = f->GetPixelType();
+ if ( pixelType == "8U" || pixelType == "8S" )
+ {
+ UF(uint8_t)
+ return;
+ }
+ if ( pixelType == "16U" || pixelType == "16S")
+ {
+ UF(uint16_t)
+ return;
+ }
+ std::cout << "mirror : Pixel Size (!=8, !=16) not yet dealt with"
+ << std::endl;
+ return;
+}
+
+
+// --------------------------------------------------------
+// This is just a *very* simple example of user supplied function
+// to topdown (why not ?) the image
+// It's *not* part of gdcm.
+// --------------------------------------------------------
+
+#define UF2(ty) \
+ int i, j; \
+ ty *imj, *imJ; \
+ ty tamp; \
+ for (j=0;j<ny/2;j++) \
+ { \
+ imj = (ty *)im +j*nx; \
+ imJ = (ty *)im +(ny-1-j)*nx; \
+ for (i=0;i<nx;i++) \
+ { \
+ tamp =imj[i]; \
+ imj[i] =imJ[i]; \
+ imJ[i] =tamp; \
+ } \
+ }
+
+void userSuppliedTopDownFunction(uint8_t *im, gdcm::File *f)
+{
+ if (f->GetZSize() != 1)
+ {
+ std::cout << "mirror : Multiframe images not yet dealt with" << std::endl;
+ return;
+ }
+
+ if (f->GetSamplesPerPixel() != 1 || f->GetBitsAllocated() == 24)
+ {
+ std::cout << "mirror : RGB / YBR not yet dealt with" << std::endl;
+ return;
+ }
+ int nx = f->GetXSize();
+ int ny = f->GetYSize();
+
+ std::string pixelType = f->GetPixelType();
+ if ( pixelType == "8U" || pixelType == "8S" )
+ {
+ UF2(uint8_t)
+ return;
+ }
+ if ( pixelType == "16U" || pixelType == "16S")
+ {
+ UF2(uint16_t)
+ return;
+ }
+ std::cout << "topdown : Pixel Size (!=8, !=16) not yet dealt with"
+ << std::endl;
+ return;
+}
+
+
+
+
git://git.creatis.insa-lyon.fr / gdcm.git / commitdiff