From 4b9841d895ea450bc2d07c38e40277725717b93a Mon Sep 17 00:00:00 2001
From: Gauthier Bouilhol <bouilhol@creatis.insa-lyon.fr>
Date: Fri, 7 Oct 2011 14:26:33 +0200
Subject: [PATCH] clitkDicomWave2Text tool added
---
tools/CMakeLists.txt | 5 ++
tools/clitkDicomWave2Text.cxx | 104 ++++++++++++++++++++++++++++++++++
tools/clitkDicomWave2Text.ggo | 8 +++
tools/clitkDicomWave2Text.h | 30 ++++++++++
4 files changed, 147 insertions(+)
create mode 100644 tools/clitkDicomWave2Text.cxx
create mode 100644 tools/clitkDicomWave2Text.ggo
create mode 100644 tools/clitkDicomWave2Text.h
diff --git a/tools/CMakeLists.txt b/tools/CMakeLists.txt
index f5a62b4..925c1f8 100644
--- a/tools/CMakeLists.txt
+++ b/tools/CMakeLists.txt
@@ -35,6 +35,11 @@ IF (CLITK_BUILD_TOOLS)
TARGET_LINK_LIBRARIES(clitkDicom2Image clitkCommon ${ITK_LIBRARIES})
SET(TOOLS_INSTALL ${TOOLS_INSTALL} clitkDicom2Image)
+ WRAP_GGO(clitkDicomWave2Text_GGO_C clitkDicomWave2Text.ggo)
+ ADD_EXECUTABLE(clitkDicomWave2Text clitkDicomWave2Text.cxx ${clitkDicomWave2Text_GGO_C})
+ TARGET_LINK_LIBRARIES(clitkDicomWave2Text clitkCommon ${ITK_LIBRARIES})
+ SET(TOOLS_INSTALL ${TOOLS_INSTALL} clitkDicomWave2Text)
+
WRAP_GGO(clitkImageInfo_GGO_C clitkImageInfo.ggo)
ADD_EXECUTABLE(clitkImageInfo clitkImageInfo.cxx ${clitkImageInfo_GGO_C})
TARGET_LINK_LIBRARIES(clitkImageInfo clitkCommon ${ITK_LIBRARIES})
diff --git a/tools/clitkDicomWave2Text.cxx b/tools/clitkDicomWave2Text.cxx
new file mode 100644
index 0000000..2ceef2d
--- /dev/null
+++ b/tools/clitkDicomWave2Text.cxx
@@ -0,0 +1,104 @@
+#include "clitkDicomWave2Text.h"
+#include "clitkDicomWave2Text_ggo.h"
+
+//gdcm include
+#include "gdcmUtil.h"
+#include "gdcmFile.h"
+#include "gdcmBinEntry.h"
+#include "gdcmValEntry.h"
+#include "gdcmSeqEntry.h"
+#include "gdcmSQItem.h"
+#include "gdcmSerieHelper.h"
+
+#include <iostream>
+#include <fstream>
+
+//==========================================================================================================================
+
+int main(int argc, char * argv[]) {
+
+//-----------------------------------------------------------------------------
+// init command line
+GGO(clitkDicomWave2Text, args_info);
+//-----------------------------------------------------------------------------
+
+//-----------------------------------------------------------------------
+// opening dicom input file
+gdcm::File * mDCMFile = new gdcm::File();
+mDCMFile->SetFileName(args_info.InputFile_arg);
+mDCMFile->AddForceLoadElement(0x01e1,0x1018); //Load wave data no matter its size
+
+if (!mDCMFile->OpenFile ()) {
+ std::cerr << "Sorry, the file does not exist or does not appear to be a DICOM file. Abort." << std::endl;
+ exit(0);
+}
+mDCMFile->Load();
+std::cout << "File: "<< args_info.InputFile_arg << " loaded !"<< std::endl;
+
+
+//-----------------------------------------------------------------------
+// read data
+gdcm::DocEntrySet* item = mDCMFile;
+#define T short
+
+gdcm::BinEntry* entry = item->GetBinEntry(0x01e1,0x1018);
+DD(entry);
+T* buffer = reinterpret_cast<T*>(entry->GetBinArea());
+int length=item->GetEntryLength(0x01e1,0x1018)/sizeof(T);
+std::ofstream text_file(args_info.OutputFile_arg, std::ios::out | std::ios::trunc);
+if(text_file)
+{
+ std::string stat="";
+ text_file << "COMPLETE_WAVE" << '\t' << "MASK" << '\t' << "AQUISITION_PROFIL" << '\t' << "END-INHALE" << '\t' << "END-EXHALE" << '\t' << "AQUISITION_WAVE" << '\t' << "WAVE_STATISTICS" << '\t' << "MASK" << std::endl;
+ for (int i=0;i<length-76;i+=2)
+ {
+ if ( i < 74 )
+ {
+ switch(i)
+ {
+ case 68 :
+ stat="Total points";
+ break;
+ case 70 :
+ stat="Sampling rate (Hz)";
+ break;
+ default :
+ stat="";
+ break;
+ }
+
+ if (buffer[i+75] == 0)
+ text_file << buffer[i+74] << '\t' << buffer[i+75] << '\t' << 0 << '\t' << " " << '\t' << " " << '\t' << " " << '\t' << buffer[i] << '\t' << buffer[i+1] << '\t' << stat << std::endl;
+ if (buffer[i+75] == 16384)
+ text_file << buffer[i+74] << '\t' << buffer[i+75] << '\t' << 0 << '\t' << buffer[i+74] << '\t' << " " << '\t' << " " << '\t' << buffer[i] << '\t' << buffer[i+1] << '\t' << stat << std::endl;
+ if (buffer[i+75] == 256)
+ text_file << buffer[i+74] << '\t' << buffer[i+75] << '\t' << 0 << '\t' << " " << '\t' << buffer[i+74] << '\t' << " " << '\t' << buffer[i] << '\t' << buffer[i+1] << '\t' << stat << std::endl;
+ if (buffer[i+75] == -32768)
+ text_file << buffer[i+74] << '\t' << buffer[i+75] << '\t' << 1 << '\t' << " " << '\t' << " " << '\t' << buffer[i+74] << '\t' << buffer[i] << '\t' << buffer[i+1] << '\t' << stat << std::endl;
+ if (buffer[i+75] == -16384)
+ text_file << buffer[i+74] << '\t' << buffer[i+75] << '\t' << 1 << '\t' << buffer[i+74] << '\t' << " " << '\t' << buffer[i+74] << '\t' << buffer[i] << '\t' << buffer[i+1] << '\t' << stat << std::endl;
+ if (buffer[i+75] == -32512)
+ text_file << buffer[i+74] << '\t' << buffer[i+75] << '\t' << 1 << '\t' << " " << '\t' << buffer[i+74] << '\t' << buffer[i+74] << '\t' << buffer[i] << '\t' << buffer[i+1] << '\t' << stat << std::endl;
+ }
+ else
+ {
+ if (buffer[i+75] == 0)
+ text_file << buffer[i+74] << '\t' << buffer[i+75] << '\t' << 0 << '\t' << " " << '\t' << " " << '\t' << " " << '\t' << " " << '\t' << " " << std::endl;
+ if (buffer[i+75] == 16384)
+ text_file << buffer[i+74] << '\t' << buffer[i+75] << '\t' << 0 << '\t' << buffer[i+74] << '\t' << " " << '\t' << " " << '\t' << " " << '\t' << " " << std::endl;
+ if (buffer[i+75] == 256)
+ text_file << buffer[i+74] << '\t' << buffer[i+75] << '\t' << 0 << '\t' << " " << '\t' << buffer[i+74] << '\t' << " " << '\t' << " " << '\t' << " " << std::endl;
+ if (buffer[i+75] == -32768)
+ text_file << buffer[i+74] << '\t' << buffer[i+75] << '\t' << 1 << '\t' << " " << '\t' << " " << '\t' << buffer[i+74] << '\t' << " " << '\t' << " " << std::endl;
+ if (buffer[i+75] == -16384)
+ text_file << buffer[i+74] << '\t' << buffer[i+75] << '\t' << 1 << '\t' << buffer[i+74] << '\t' << " " << '\t' << buffer[i+74] << '\t' << " " << '\t' << " " << std::endl;
+ if (buffer[i+75] == -32512)
+ text_file << buffer[i+74] << '\t' << buffer[i+75] << '\t' << 1 << '\t' << " " << '\t' << buffer[i+74] << '\t' << buffer[i+74] << '\t' << " " << '\t' << " " << std::endl;
+ }
+ }
+ text_file.close();
+}
+else
+ std::cerr << "Error openning "<< args_info.OutputFile_arg << std::endl;
+
+}
diff --git a/tools/clitkDicomWave2Text.ggo b/tools/clitkDicomWave2Text.ggo
new file mode 100644
index 0000000..26542a0
--- /dev/null
+++ b/tools/clitkDicomWave2Text.ggo
@@ -0,0 +1,8 @@
+# file DicomWave2Text
+package "DicomWave2Text"
+version "1.0"
+purpose "Extract data from a Dicom wave file to a text file"
+option "config" - "config file" string no
+option "InputFile" i "Dicom inputfile name" string no
+option "OutputFile" o "Text outputfile name" string no
+option "Verbose" v "verbose" int no
diff --git a/tools/clitkDicomWave2Text.h b/tools/clitkDicomWave2Text.h
new file mode 100644
index 0000000..fa49267
--- /dev/null
+++ b/tools/clitkDicomWave2Text.h
@@ -0,0 +1,30 @@
+#ifndef CLITKDICOMWAVE2TEXT_H
+#define CLITKDICOMWAVE2TEXT_H
+
+#include "clitkCommon.h"
+//gdcm include
+#include "gdcmUtil.h"
+#include "gdcmFile.h"
+#include "gdcmValEntry.h"
+#include "gdcmSeqEntry.h"
+#include "gdcmSQItem.h"
+#include "gdcmSerieHelper.h"
+
+
+namespace clitk {
+
+ //---------------------------------------------------------------------
+ class DicomWave2Text
+ {
+
+ public:
+ //constructor;
+ DicomWave2Text();
+ //destructor;
+ ~DicomWave2Text();
+
+ };
+
+} // end namespace
+
+#endif
--
2.49.0