--- /dev/null
+/*=========================================================================
+
+ Program: gdcm
+ Module: $RCSfile: vtkgdcmSerieViewer2.cxx,v $
+ Language: C++
+ Date: $Date: 2005/12/09 12:54:05 $
+ Version: $Revision: 1.1 $
+
+ Copyright (c) CREATIS (Centre de Recherche et d'Applications en Traitement de
+ l'Image). All rights reserved. See Doc/License.txt or
+ http://www.creatis.insa-lyon.fr/Public/Gdcm/License.html for details.
+
+ This software is distributed WITHOUT ANY WARRANTY; without even
+ the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ PURPOSE. See the above copyright notices for more information.
+
+=========================================================================*/
+// This example illustrates how the vtkGdcmReader vtk class can
+// use the result of gdcm::SerieHelper constructor and check
+// the various Setters :
+// SerieHelper::SetOrderToReverse,
+// SerieHelper::SetUserLessThanFunction
+// SerieHelper::SetLoadMode
+// vtkGdcmReader::SetUserFunction
+// vtkGdcmReader::SetCoherentFileList
+// Usage:
+// * the Directory name that contains the Dicom images constituting the stack
+// should be given as command line argument (keyword : dirname=),
+// * you can navigate through the stack by hitting any character key,
+// * the produced vtk file is named "foo.vtk" (in the invocation directory).
+//
+//----------------------------------------------------------------------------
+#include <vtkRenderWindowInteractor.h>
+#include <vtkImageViewer2.h>
+#include <vtkStructuredPoints.h>
+#include <vtkStructuredPointsWriter.h>
+#include <vtkCommand.h>
+#include <vtkRenderer.h>
+#include <vtkImageMapToColors.h>
+#include <vtkLookupTable.h>
+
+#include "vtkGdcmReader.h"
+#include "gdcmDocument.h" // for NO_SHADOWSEQ
+#include "gdcmSerieHelper.h"
+#include "gdcmDebug.h"
+#include "gdcmDataEntry.h"
+
+#include "gdcmArgMgr.h" // for Argument Manager functions
+#include <string.h> // for strcmp
+#ifndef vtkFloatingPointType
+#define vtkFloatingPointType float
+#endif
+
+void userSuppliedMirrorFunction (uint8_t *im, gdcm::File *f);
+void userSuppliedTopDownFunction(uint8_t *im, gdcm::File *f);
+bool userSuppliedLessThanFunction(gdcm::File *f1, gdcm::File *f2);
+bool userSuppliedLessThanFunction2(gdcm::File *f1, gdcm::File *f2);
+
+int orderNb;
+uint16_t *elemsToOrderOn;
+
+//----------------------------------------------------------------------------
+// Callback for the interaction
+class vtkgdcmObserver : public vtkCommand
+{
+public:
+ virtual char const *GetClassName() const
+ {
+ return "vtkgdcmObserver";
+ }
+
+ static vtkgdcmObserver *New()
+ {
+ return new vtkgdcmObserver;
+ }
+
+ vtkgdcmObserver()
+ {
+ this->ImageViewer = NULL;
+ }
+
+ virtual void Execute(vtkObject *, unsigned long event, void* )
+ {
+ if ( this->ImageViewer )
+ {
+ if ( event == vtkCommand::CharEvent )
+ {
+ int max = ImageViewer->GetWholeZMax();
+ int slice = (ImageViewer->GetZSlice() + 1 ) % ++max;
+ ImageViewer->SetZSlice( slice );
+ ImageViewer->GetRenderer()->ResetCameraClippingRange();
+ ImageViewer->Render();
+ }
+ }
+ }
+ vtkImageViewer2 *ImageViewer;
+};
+
+int main(int argc, char *argv[])
+{
+ START_USAGE(usage)
+ " \n vtkgdcmSerieViewer2 : \n",
+ " Display a 'Serie' (same Serie UID) within a Directory ",
+ " You can navigate through the stack by hitting any character key. ",
+ " usage: vtkgdcmSerieViewer dirname=sourcedirectory ",
+ " [noshadowseq][noshadow][noseq] ",
+ " [reverse] [{[mirror]|[topdown]|[rotate]}] ",
+ " [order=] [check][debug] ",
+ " sourcedirectory : name of the directory holding the images ",
+ " if it holds more than one serie, ",
+ " only the first one id displayed. ",
+ " 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 ",
+ " reverse : user wants to sort the images reverse order ",
+ " mirror : user wants to 'mirror' the images | just some simple ",
+ " topdown : user wants to 'topdown' the images| examples of user ",
+ " rotate : NOT YET MADE (useless?) | supplied functions ",
+ " check : user wants to force more coherence checking ",
+ " order= : group1-elem1,group2-elem2,... (in hexa, no space) ",
+ " if we want to use them as a sort criterium ",
+ " Right now : ValEntries only -just an example- ",
+ " or ",
+ " order= : order=name if we want to sort on file name (why not ?) ",
+ " 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 = gdcm::LD_ALL;
+ if ( am->ArgMgrDefined("noshadowseq") )
+ loadMode |= gdcm::LD_NOSHADOWSEQ;
+ else
+ {
+ if ( am->ArgMgrDefined("noshadow") )
+ loadMode |= gdcm::LD_NOSHADOW;
+ if ( am->ArgMgrDefined("noseq") )
+ loadMode |= gdcm::LD_NOSEQ;
+ }
+
+ int reverse = am->ArgMgrDefined("reverse");
+
+ int mirror = am->ArgMgrDefined("mirror");
+ int topdown = am->ArgMgrDefined("topdown");
+ int rotate = am->ArgMgrDefined("rotate");
+
+ if ( mirror && topdown )
+ {
+ std::cout << "mirror *OR* topDown !"
+ << std::endl;
+ delete am;
+ return 0;
+ }
+ if ( rotate )
+ {
+ std::cout << "'rotate' undealt with -> ignored !"
+ << std::endl;
+ }
+
+ int check = am->ArgMgrDefined("check");
+
+ // This is so ugly, a cstring is NOT a char * (god damit!)
+ bool bname = ( strcmp(am->ArgMgrGetString("order", (char*)"not found"),"name")==0 );
+ if (bname)
+ elemsToOrderOn = am->ArgMgrGetXInt16Enum("order", &orderNb);
+
+ 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 ----------------------
+
+ gdcm::SerieHelper *sh = gdcm::SerieHelper::New();
+ sh->SetLoadMode(loadMode);
+ if (reverse)
+ sh->SetSortOrderToReverse();
+ sh->SetDirectory( dirName, true);
+
+ // Just to see
+
+ int nbFiles;
+ // For all the 'Single Serie UID' FileSets of the gdcm::Serie
+ gdcm::FileList *l = sh->GetFirstSingleSerieUIDFileSet();
+ if (l == 0 )
+ {
+ std::cout << "Oops! No 'Single Serie UID' FileSet found ?!?" << std::endl;
+ return 0;
+ }
+
+ if (bname)
+ sh->SetUserLessThanFunction(userSuppliedLessThanFunction2);
+ else if (orderNb != 0)
+ sh->SetUserLessThanFunction(userSuppliedLessThanFunction);
+
+ while (l)
+ {
+ nbFiles = l->size() ;
+ if ( l->size() > 1 )
+ {
+ std::cout << "Sort list : " << nbFiles << " long" << std::endl;
+ sh->OrderFileList(l); // sort the list
+ break; // The first one is OK. user will have to check
+ }
+ else
+ {
+ std::cout << "Oops! Empty 'Single Serie UID' FileSet found ?!?"
+ << std::endl;
+ }
+ l = sh->GetNextSingleSerieUIDFileSet();
+ }
+
+ if (check)
+ {
+ if ( !sh->IsCoherent(l) ) // just be sure (?)
+ {
+ std::cout << "Files are not coherent. Stop everything " << std::endl;
+ sh->Delete();
+ 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);
+ //---------------------------------------------------------
+
+ // 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:
+ reader->GetOutput()->Print( cout );
+
+ vtkRenderWindowInteractor *iren = vtkRenderWindowInteractor::New();
+
+ vtkImageViewer2 *viewer = vtkImageViewer2::New();
+
+ if( reader->GetLookupTable() )
+ {
+ //convert to color:
+ vtkImageMapToColors *map = vtkImageMapToColors::New ();
+ map->SetInput (reader->GetOutput());
+ map->SetLookupTable (reader->GetLookupTable());
+ map->SetOutputFormatToRGB();
+ viewer->SetInput ( map->GetOutput() );
+ map->Delete();
+ }
+ else
+ {
+ vtkFloatingPointType *range = reader->GetOutput()->GetScalarRange();
+ viewer->SetColorLevel (0.5 * (range[1] + range[0]));
+ viewer->SetColorWindow (range[1] - range[0]);
+
+ viewer->SetInput ( reader->GetOutput() );
+ }
+ viewer->SetupInteractor (iren);
+
+ //vtkFloatingPointType *range = reader->GetOutput()->GetScalarRange();
+ //viewer->SetColorWindow (range[1] - range[0]);
+ //viewer->SetColorLevel (0.5 * (range[1] + range[0]));
+
+ // Here is where we setup the observer,
+ vtkgdcmObserver *obs = vtkgdcmObserver::New();
+ obs->ImageViewer = viewer;
+ iren->AddObserver(vtkCommand::CharEvent,obs);
+ obs->Delete();
+
+ //viewer->Render();
+ iren->Initialize();
+ iren->Start();
+
+ //if you wish you can export dicom to a vtk file
+ vtkStructuredPointsWriter *writer = vtkStructuredPointsWriter::New();
+ writer->SetInput( reader->GetOutput());
+ writer->SetFileName( "foo.vtk" );
+ writer->SetFileTypeToBinary();
+ //writer->Write();
+
+ reader->Delete();
+ iren->Delete();
+ viewer->Delete();
+ writer->Delete();
+
+ 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) \
+ { \
+ i = nx / 2; \
+ 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;
+}
+
+// --------------------------------------------------------
+// This is just a *very* simple example of user supplied 'LessThan' function
+// It's *not* part of gdcm.
+//
+// Note : orderNb and elemsToOrderOn are here global variables.
+// Within a 'normal' function they would't be any orderNb and elemsToOrderOn var
+// User *knows* on what field(s) he wants to compare;
+// He just writes a decent function.
+// Here, we want to get info from the command line Argument Manager.
+//
+// Warning : it's up to 'vtkgdcmSerieViewer' user to find a suitable data set !
+// --------------------------------------------------------
+
+
+bool userSuppliedLessThanFunction(gdcm::File *f1, gdcm::File *f2)
+{
+ // for *this* user supplied function, I supposed only ValEntries are checked.
+//
+ std::string s1, s2;
+ gdcm::DataEntry *e1,*e2;
+ for (int ri=0; ri<orderNb; ri++)
+ {
+ std::cout << std::hex << elemsToOrderOn[2*ri] << "|"
+ << elemsToOrderOn[2*ri+1]
+ << std::endl;
+
+ e1= f1->GetDataEntry( elemsToOrderOn[2*ri],
+ elemsToOrderOn[2*ri+1]);
+
+ e2= f2->GetDataEntry( elemsToOrderOn[2*ri],
+ elemsToOrderOn[2*ri+1]);
+ if(!e2 || !e2)
+ {
+ std::cout << std::hex << elemsToOrderOn[2*ri] << "|"
+ << elemsToOrderOn[2*ri+1]
+ << " not found" << std::endl;
+ continue;
+ }
+ s1 = e1->GetString();
+ s2 = e2->GetString();
+ std::cout << "[" << s1 << "] vs [" << s2 << "]" << std::endl;
+ if ( s1 < s2 )
+ return true;
+ else if (s1 == s2 )
+ continue;
+ else
+ return false;
+ }
+ return false; // all fields equal
+}
+
+// --------------------------------------------------------
+// This is just an other *very* simple example of user supplied 'LessThan'
+// function
+// It's *not* part of gdcm.
+//
+// Warning : it's up to 'vtkgdcmSerieViewer' user to find a suitable data set !
+// --------------------------------------------------------
+
+bool userSuppliedLessThanFunction2(gdcm::File *f1, gdcm::File *f2)
+{
+ std::cout << "[" << f1->GetFileName() << "] vs ["
+ << f2->GetFileName() << "]" << std::endl;
+ return f1->GetFileName() < f2->GetFileName();
+}
git://git.creatis.insa-lyon.fr / gdcm.git / commitdiff