2005-01-20 Benoit Regrain * src/gdcmDebug.h : remove the Debug test in the gdcmErrorMacro * src/gdcmDocument.[h|cxx] : rename the Initialise method to Initialize, to be complient with all the gdcm source code 2005-01-19 Benoit Regrain * src/gdcmDocEntry.h : DocEntry is now secure. User can't change the DictEntry or the VR. 2005-01-19 Benoit Regrain * gdcmPython/ : change GDCM_DATA_PATH to GDCM_DATA_ROOT to be complient with all in gdcm 2005-01-19 Benoit Regrain * Test/ : rename VTK tests to have a best name for the tests * gdcmPython/demo/*.py.in : Change the InitTraversal/GetNextEntry use to GetFirstEntry/GetNextEntry use 2005-01-18 Benoit Regrain * Test/ShowDicom.cxx, ShowDicomSeq.cxx, TestWriteWithVTK.cxx : change the test. Now it's on image content and not on the resulting visualisation... might solve the problem on linux when using the OpenGL drivers 2005-01-18 Jean-Pierre Roux * ENH for DicomDir, DicomDirPatient, DicomDirStudy, DicomDirSerie, DicomDirImage Dict, DictSet classes : -add method GetFirstEntry to replace call to InitTraversal+GetNextEntry -remove InitTraversal method. * UPD Test programs + Example programs 2005-01-18 Jean-Pierre Roux remove useless and never updated keyword \ingroup 2005-01-17 Benoit Regrain * src/gdcmUtil.cxx : bug fix to find the Windows MAC address. Now, there is no memory access violation * gdcmPython/demo : add python demos using VTK 2005-01-16 Jean-Pierre Roux * FIX 'Dictionnary' is now spelt 'Dictionary' 'wether' is now spelt 'whether' 'archieve' is now spelt 'archive' ;-) 2005-01-15 Jean-Pierre Roux * ADD DicomDir, DicomDirPatient, DicomDirStudy, DicomDirSerie, DicomDirImage related methods, in order not to expose internal mechanisms InitTraversal(); GetNextEntry(); * REM methods that exposed internal mechanisms : DicomDir::GetDicomDirPatients() DicomDirPatient::GetDicomDirStudies() DicomDirStudy::GetDicomDirSeries() DicomDirSerie::GetDicomDirImages() * UPD Test programs : makeDicomDir.cxx BuildUpDicomDir.cxx TestDicomDir.cxx * UPD Example program PrintDicomDir.cxx * ADD DictSet methods InitTraversal() GetNextEntry() 2005-01-15 Mathieu Malaterre * Removed the Print/indent/default parameter mess. There is absolutely no reason to have to methods, moreover with the second taking the ostream as *SECOND* parameter. This was clearly a bad hack to get things compile. 2005-01-15 Mathieu Malaterre * Complete rewrite of the GetMacAddress code. Now the code is *much* smaller (no more MacOSX specific crap). A lot more POSIX oriented. Unfortunately the main code does not work on SunOS, thus provide a specific code for this platform only (and Win32 of course). Since this seems to be working, change CreateUniqueUID to use GetMACAddress instead of the problematic GctestetIPAddress 2005-01-14 Mathieu Malaterre * Unfortunately to be able to test gdcmDirList I had to break the API a little. Now the class is not a std::list anymore but has a member std::vector (more ITK compatible). Allow unit testing on Win32 and shared libs. 2005-01-14 Mathieu Malaterre * Update SerieHeader to take into account a Serie Instance UID to properly sort DICOM files 2005-01-13 Jean-Pierre Roux * ENH - Comment out Mathieu's (dangerous) Super Hack for dealing with BIGENDIAN processors - Move equivalent stuff to BinEntry::WriteContent When necessary, 16 Bits Pixels are swapped in a small buffer and then written. This avoid allocating a huge buffer, in PixelWriteConvertor, and avoid modifying the Pixel Area. Note : Probabely, the same operation will have to be done when we want to write image with Big Endian Transfert Syntax, and we are working on Little Endian Processor 2005-01-14 Benoit Regrain * src/gdcmDocument.[h|cxx] : comment all methods concerning a flat hash table. * src/gdcmElementSet.[h|cxx] : rename Initialize into InitTraversal * src/gdcmDict.[h|cxx] : add InitTraversal/getNextEntry methods to parse all the dict content. * src/gdcmDictEntry.cxx : add a carriage return at the end of the DictEntry print * Test/TestDict.cxx : add a new test for the dict classes 2005-01-13 Mathieu Malaterre * src/gdcmDebug.h : Adding an option to redirect debug stream to a file. Debug is yanked if compiled with NDEBUG 2005-01-13 Benoit Regrain * src/gdcmDictSet.h : set the default output to the os variable * src/gdcmDictEntry.[h|cxx] : add the Print method * gdcmPython/demo/ : add a new test 2005-01-13 Jean-Pierre Roux * merging of Test/PrintDicomDir and Test/TestDicomDir * removal of now redundant Test/PrintDicomDir * enhancement of Example/PrintDicomDir 2005-01-13 Benoit Regrain * Now, python test might work on systems * Add the PrintDicomDir test 2005-01-13 Jean-Pierre Roux * FIX : First entry following group 0002 was lost for Explicit Big Endian Transfer Syntax files (group and elem not swaped) 2005-01-12 Jean-Pierre Roux * FIX : Old quick and dirty 'optimistic' heuristic to deal with Big Endian Transfer Syntax supposed the group following 0002 begins always by element 0000 (element 0000 is *optional*) To avoid further troubles, let's be pessimistic, and use Document::HandleOutOfGroup0002() method * FIX : comparison between GDCM_NOTLOADED and Transfer Syntax (related pb not yet solved) 2005-01-12 Benoit Regrain * Bug fix for the python part use * Now, PrintHeader.py pass... but outside the ctest use. shit ! 2005-01-12 Benoit Regrain * gdcmPython/gdcm.i : bug fix when compiling with MSCV 2005-01-11 Mathieu Malaterre * Untangle TransferSynatx from gdcm::Document. Now Document only manipulate a string and should ask the global TS dict what are the propreties of the transfer syntax 2005-01-11 Jean-Pierre Roux * Replace confusing name SwitchSwapToBigEndian name by SwitchByteSwapCode * Add the Document::HandleOutOfGroup0002(uint16_t group) method to swap the Swap Code, at parsing time, when we come out of group 0002 and Transfer Syntax is Big Endian We should be able to read now 'true DICOM" Big Endian coded images * Add optional run time SetDebugOn (last param) for PrintHeader, PrintFile * Replace the french 'Transfert Syntax' by the english 'Transfer Syntax' 2005-01-10 Mathieu Malaterre * Hopefully fix the bug on MacOSX and static global initialization. This is the only -minor- patch I found that both please MacOSX and VS6. Other patch would be to declare a const std::string & GDCM_UNFOUND() instead, but this would require a lot of change. Another approach would be that Global create those string and GDCM_UNFOUND becomes a pointer to a string (which gdcm::Global would destroy at exit). 2005-01-08 Mathieu Malaterre * Fix bug on MacOSX with static initialization in a multy threaded environment. static const string in a header file used to be ill initialized provoquing the freeze of any tests. patch should solve this issue. 2005-01-08 Jean-Pierre Roux * According to Benoit's suggestion, and without any objection from anybody - methods SetxxxByNumber and GetxxxByNumber renamed as Setxxx and Getxxx - methods Dict::Print() and Dict::PrintByKey() merged into Dict::Print() - method gdcmDicomDirObject::GetEntry() renamed as gdcmDicomDirObject::GetEntryHT() to avoid confusion (and compile error) 2005-01-07 Mathieu Malaterre * Now gdcm::Debug is clearly a copy/paste of VTK approach. You can manipulate you debug/warning message just as c++ streams which make them very convinient to use. Once this is stabilize I will change the ostringstrem to be redirected to a file (ofstream). * Properly support C99 extension: __FUNCTION__ which allow us to display the name of the function call (GNUC also allow __PRETTY_FUNCTION__ for c++) 2005-01-07 Jean-Pierre Roux * Removal of useless and dangerous methods : GetEntryByName, GetEntryVRByName, GetDocEntryByName, SetEntryByName GetDocEntryByName, GetEntryByName, GetDictEntryByName * Removal of usless methods : Dict::PrintByName, Dict::GetDictEntryByName * Commenting out of probabely useless methods : Dict::GetDictEntryNames() Dict::GetDictEntryNamesByCategory() DictSet::GetPubDictEntryNames() DictSet::GetPubDictEntryNamesByCategory() * ENH : New Dicom Dictionary (with Value Multiplicity) is now used * ENH : Use dicomTS.dic as described in 2004 version * ENH : Removal out of the Dicom Dictionary of non dicom 'fourth' field Add to the Dicom Dictionary of Dicom 'Value Multiplicity' field Add Accessors on VM (Value Multiplicity), and VM related methods * ADD : Add a list of 'Dicom Attribute types', as found in http://medical.nema.org/dicom/2004/04_15PU.PDF Unused till now... * ADD : Add dicomGroupNameAbbreviations.dic should be used to write a method to replace the former Dict::GetDictEntryNamesByCategory() 2005-01-07 Benoit Regrain * src/gdcmDocEntry.[h|cxx] : now the ReadLength is the length of the data to read in the file... and only it ! Length is the efective length of the data in the DocEntry structure 2005-01-07 Mathieu Malaterre * Change the gdcmDebug approach. Remov the global static debug 'dbg'. And now use a static function call instead, with a global variable. i This is much closer to the VTK approach. Hopefully should be bulletproof and easier to use...hopefully 2005-01-06 Mathieu Malaterre * Adding GetMACAddres very alpha for now. This is tricky to be cross plateform. 2005-01-06 Benoit Regrain * src/gdcmDocument.[h|cxx] : remove all copy of DocEntry when parsing a file 2005-01-06 Benoit Regrain * src/gdcmDocEntrySet.[h|cxx], gdcmDocument.[h|cxx] : amelioration of ValEntry, BinEntry, SeqEntry creation or replace 2005-01-06 Benoit Regrain * src/gdcmDictEntry.h : now, the IsVRUnknown is correct * src/gdcmDocument.[h|cxx] : simplify the search of VR value when parsing a file * src/gdcmDocEntrySet.cxx : now the created DocEntry without values is good when specifying the VR * src/gdcmVR.[h|cxx] : add usefull method to test the validity of a VR * src/gdcmDocEntry.cxx : amelioration of print 2005-01-05 Jean-Pierre Roux * ADD : Add the method Util::IsCurrentProcessorBigEndian (we'll need it for 'Explicit VR Big Endian' Transfert Syntax) * ADD Method Document::ComputeGroupLength * ENH : now parsing creates a Vitual DictEntry for Pixels Element, in order to allow further VR modification by user * REM : removal of once-called method File::WriteBase integration of its code in formerly one-line method File::Write 2005-01-05 Benoit Regrain * src/gdcmCommon.h : add the GDCM_UNKNOWN constant. This constant is to replace the different values "??", "Unkn", "Unknown". * src/gdcmDicomDirElement.h, gdcmDictEntry.h, gdcmDictSet.h, gdcmDocEntry.cxx, gdcmDocEntrySet.[h|cxx], gdcmDocument.h, gdcmSQItem.cxx, gdcmVR.cxx : use the GDCM_UNKNOWN constant. * Appears a bug in gdcmDictEntry : IsVRUnknown always returns false... bad 2004-12-16 Benoit Regrain * src/gdcmBase.[h|cxx] : new base class. Contains the PrintLevel and an empty Print Method * Set the gdcm::Base class to some Printable classes 2004-12-16 Benoit Regrain * src/gdcmFile.[h|cxx] : add the Print method * src/gdcmPixelReadConvert.[h|cxx] : add the generalized Print method * src/gdcmDocEntrySet.h : generalize the Print with the PrintLevel * src/gdcmDocument.h : remove the PrintLevel informations * Example/PrintFile.cxx : use the new gdcm::File::Print 2004-12-16 Benoit Regrain * src/gdcmFile.cxx : Add the code of ReplaceOrCreateByNumber to not have problems when compiling with the python wrapping 2004-12-16 Benoit Regrain * src/gdcmFile.cxx : bug fix. Omitted a Push in the DocEntryArchive when writting in ImplicitVR 2004-12-12 Jean-Michel Rouet * src/gdcmPixelReadConvert.[h|cxx], src/gdcmJpeg*.cxx : new handling of JPEG decompression, especially when dicom frames are split into several JPEG Fragments. This makes use of jpeg decompression from memory buffer. This solves reading for example gdcm-JPEG-Lossless_Thoravision.dcm. 2004-12-10 Benoit Regrain * src/gdcmHeader.cxx : change the initialisation of default header. Now, this header is readable by gdm, e-film, DicomWorks 2004-12-10 Benoit Regrain * src/gdcmFile.[h|cxx], gdcmPixelReadConvert.[h|cxx] : change the API. Rename Decompressed to Raw * Use the API changes in gdcm::File. * vtk/vtkGdcmWriter.[h|cxx] : add the possibility to write in other modes Memory leaks fixed 2004-12-10 Benoit Regrain * vtk/vtkGdcmWriter.cxx, Example/WriteDicomSimple.cxx : add comments for each added entry in the header. Replace the 'Planes' field by the 'Number of Frames' field 2004-12-09 Benoit Regrain * vtk/vtkGdcmWriter.[h|cxx] : now can write stack of images. * vtk/vtkWriteDicom.cxx : can write 2D stack or 3D image 2004-12-09 Benoit Regrain * Example/WriteDicomSimple.cxx : example to write a dicom file from nothing. At this time, this image isn't readable by e-film... waiting JPR help to solve it. 2004-12-09 Benoit Regrain * src/gdcmPixelReadConvert.cxx : bug fix when would forcing load of a DocEntry. Now use methods of the Document ! 2004-12-09 Benoit Regrain * Test/ShowDicomSeq.cxx : bug fix 2004-12-08 Benoit Regrain * vtk/vtkGdcmReader.[h|cxx] : bug fix. Plane order isn't inverted * vtk/vtkGdcmWriter.[h|cxx] : correctly write images (the Y axis is inverted) * Test/ShowDicomSeq.cxx : new test to verify the use of AddFileName method * Test/ShowDicom.cxx, TestWriteWithVTK.cxx : set the threshold of regression test to 0.0 * Test/TestCopyRescaleDicom.cxx : remove unused variable * Test/CMakeLists.txt : add the creation of the gdcmDataSeqImages.h file containing found sequences 2004-12-07 Benoit Regrain * Test/ShowDicom.cxx, TestWriteWithVTK.cxx : bug fix, now this test pass not at all time * Test/TestCopyRescaleDicom.cxx : rearrange the test to correctly pass... Some fields in BinEntry must be copied to not seg fault when making the : gdcm::File *copy = new gdcm::File( copyH ); and tests are now made on good variables 2004-12-07 Benoit Regrain * vtk/vtkGdcmWriter.[h|cxx] : add a first version of vtkGdcmWriter * src/gdcmValEntry.cxx : bug fix when setting the value. Problems of odd length * src/gdcmHeader.cxx : Remove a useless call to Util::DicomString * Add vtkGdcmWriter example and test 2004-12-07 Benoit Regrain * Test/TestUtil.cxx : reformat the source code * vtk/vtkGdcmReader.cxx : remove and change prints * src/gdcmValEntry.[cxx|h] : now set the length of the value when calling SetValue * src/gdcmBinEntry.[cxx|h] : SetValue method don't set the length * src/*.cxx : remove all useless call to SetLength of a ValEntry object 2004-12-07 Benoit Regrain * src/gdcmPixelWriteConvert.[h|cxx] : ficnished this class * src/gdcmFile.cxx : finished the correctly use of PixelWriteConvert 2004-12-06 Benoit Regrain * src/gdcmDocument.cxx : bug fix when opening the file. All read is followed by an eof to prevent all bad read of the file... and in this case, the file isn't readable. 2004-12-06 Benoit Regrain * Example/Volume2Dicom.cxx : comment unused variables * Test/PrintDicomDir.cxx : comment unused variables * Test/BuildUpDicomDir.cxx : remove dbg.Verbose. Remove the FIXME. * src/SQItem.[h|cxx] : remove the PtagHT variable. Remove the AddDocEntry method that is redondant with AddEntry. * src/gdcmDocEntrySet.h : add pure virtual methods common to ElementSet and SQItem 2004-12-04 Benoit Regrain * Bug fix due my last commit (compilation under Windows). * Example/Volume2Dicom : bug fix in the file and reformatting source code * src/gdcmFile.h : bug fix. Variable type and variable name had same name 2004-12-03 Mathieu Malaterre * Huge cleanup: - Remove printf / sprintf - include iostream AFTER gdcm so we don't get warnings - GDCM_NO_ANSI_STRING_STREAM shouldn't be used explitely ouside of gdcm source - Also remove tons of include from header files, hopefully this should speeup the compilation time, since it was becoming a dog slow. - Remove gdcm.h as it include way too many files and slow down compilation (plus it is not up to date) - remove 'using namespace std' this is BAD ! 2004-12-03 Benoit Regrain * Remove memory leaks on the DicomDir * Remove some useless data in DicomDirObject * Add usefull methods in SQItem, to be complient withe the ElementSet 2004-12-03 Benoit Regrain * src/gdcmFile.[h|cxx] : now use FileType instead of TWriteType. 2004-12-03 Benoit Regrain * src/gdcmPixelWriteConvert.[h|cxx] : new class to write data (and in the future, with convertion) * src/gdcmFile.[h|cxx] : the PixelWriteConverter instance replace Pixel_Data and ImageDataSize values. Remove the method to get the PixelReadConverter from the output of the class 2004-12-03 Benoit Regrain * Rename src/gdcmPixelConvert.[h|cxx] to src/gdcmPixelReadConvert.[h|cxx] 2004-12-02 Benoit Regrain * vtk/vtkGdcmReader.cxx : correct error in vtkDebugMacro, vtkWarningMacro and vtkErrorMacro use. * gdcmPython/gdcm.i : corrections to avoid warnings at compilation 2004-12-02 Benoit Regrain * Test/TestCopyDicom.cxx : the new dicom created is created empty, without file name in input * src/gdcmSeqEntry.cxx : bug fix in destruction of an element * src/gdcmHeader.cxx : bug fix. Keep the string, otherwise it is destroyed. The string leaves only in the fonction. So when we make a .c_str(), we get the pointeur on the first element, element that will be destroyed immediately after thee instruction. * src/gdcmDocument.cxx : remove memory leaks. Bug fix when testing if the file has been opened : the test must be made on the content of the pointer and not directly on the pointer ! Code formatting 2004-12-02 Benoit Regrain * gdcmPython/gdcm.i : change gdcmHeaderHelper to gdcmSerieHeader. Now, the python part recompiles 2004-11-30 Benoit Regrain * Test/ShowDicom.cxx : Change the test to only open one vtkImageViewer. Otherwise, under linux (Graphic card : NVidia / SE : FedoraCore 1) the X session is killed (for my computer... it seems to not be identic on all linux) 2004-11-30 Benoit Regrain * Test/ShowDicom.cxx : now can be used with an off-screen rendering to avoid problems (otherwise, the difference test between the visible image and the reference is incorrect. If the reference is greater than the screen resolution, it's produce errors). Can be used for only one image. Can be used with a visible flag. * vtk/vtkGdcmReader.cxx : remove commented codes. * vtk/vtkGdcmReader.h : add the gdcmCommon.h include file to avoid warnings under windows at compilation * vtk/vtkgdcmViewer.cxx : reformat the file. Apply a default window/level for grayscale images * vtk/GdcmToBaseline.cxx : new program to easy create the reference image 2004-11-30 Benoit Regrain * src/gdcmFile.[h|cxx] : bug fix for ACR-LIBIDO files when writting the file * Test/TestAllReadCompareDicom.cxx, TestReadWriteReadCompare.cxx : add tests on the image size X, Y, Z 2004-11-26 Benoit Regrain * Remove some useless methods in gdcm::Document, gdcm::Header and gdcm::File * Rename gdcmHeaderHelper.[h|cxx] to gdcmSerieHeader.[h|cxx] to be coherent between the class name and the file name 2004-11-25 Benoit Regrain * src/ : fix compilation warnings for the Write method (2 different proto). So Rename 'Write(ifstream* fp' into 'WriteContent(ifstream* fp' fix compilation warnings for the gdcm::Document::TransferSyntaxStrings variable... create a static method in gdcm::Document to access to this variable content. 2004-11-25 Benoit Regrain * src/gdcmDocument.[h|cxx] : set the Transfert Syntax values to the header file, to be accessed by other files (like gdcmFile). Remove commented code. Move the change of the header to the gdcmFile, using the DocEntryArchive * src/gdcmHeader.[h|cxx] : the write is completely made in the Header. To be sure of that (and simplify calls), the Write of the header now gets a file name and not a file pointer (std::ifstream). * src/gdcmFile.[h|cxx] : apply the write file type to the header, using the DocEntryArchive. Remove all open of the written file 2004-11-25 Benoit Regrain * vtk/vtkGdcmReader.cxx : compilation bug fix for the vtk part 2004-11-25 Benoit Regrain * src/gdcmDocument.cxx : fix bug... test if the fp is opened to use it * src/gdcmPixelConvert.cxx : calculate the image size when while the grab of the header. * src/gdcmFile.[h|cxx] : remove PixelRead and ImageDataSizeRaw variables and some corresponding methods. Write correctly the file and check before write * Test/TestCopyDicom.cxx, TestReadWriteReadCompare.cxx, TestAllReadCompareDicom.cxx : pass the write of images to RGB and test is now on RGB data (as before my last commit * Example/PrintHeader.cxx, PrintFile.cxx : repad files. 2004-11-24 Benoit Regrain * src/gdcmBinEntry.cxx, gdcmSeqEntry.cxx, gdcmSQItem.cxx, gdcmValEntry.cxx : Add a print information of the type of the entry * src/gdcmDocument.cxx : add the write of the preambule of a Dicom file. It was in the gdcmFile, and all write have been regrouped * src/gdcmFile.[h|cxx] : add methods to get the Raw data elements and size. Write correctly all dicom files (in decompressed mode only at this time) * Test/ : test on files are now made using Raw data and not color data if any. * Example/PrintFile.cxx : add more printings 2004-11-24 Benoit Regrain * Amelioration of code, remove some code copy. For the loading of BinEntry (in gdcmDocument), add the test to verify if the file is already opened or not. 2004-11-24 Benoit Regrain * src/gdcmDocEntryArchive.[h|cxx] : bug fix and add a method to temporary remove a DocEntry in the header (push an empty DocEntry) * src/gdcmFile.[h|cxx] : remove some useless variables, methods and code lines. Bug fix in the initialization of the PixelConvert and the DocEntryArchive * src/gdcmElementSet.[h|cxx] : add methods Initialize and GetNext to use in TestCopyDicom (now this test can run under windows... but fails) * Test/TestCopyDicom.cxx : amelioration of the test : - test the pixels written - add test points to quickly find where is the error - can set a file name input and output in arguments * Test/TestAllReadCompareDicom.cxx, TestReadWriteReadCompare.cxx : amelioration of the test output 2004-11-23 Benoit Regrain * src/gdcmDocEntryArchive.cxx : complete the print function, that prints all replaced DocEntry's * src/gdcmFile.[h|cxx] : remove all changes of the header when getting data. Now, each needed DocEntry to modify is duplicated, modified and inserted to the header using DocEntryArchive. Thus, after save, we can restore the header initial state. 2004-11-22 Benoit Regrain * src/gdcmFile.h : fix compilation errors on zorglub linuc computer 2004-11-19 Benoit Regrain * src/gdcmDocEntry.cxx : remove the copy of the DictEntry... there isn't correct to copy it. The DictEntry is specified at the DocEntry creation, then, it musn't change in the time. * src/gdcmDocEntryArchive.[h|cxx] : new class. It's goal is to change the header correctly. At this time, the change is only made for the first level of the Document. In the future, it might consider sequences. The change is made by replacing a DocEntry by an other that is created outside the class. The old value is kept. When we restore the header status, the added DocEntry is deleted and replaced by the old value. * src/gdcmElementSet.h : Set the DocEntryArchive like friend. * src/gdcmFile.[h|cxx] : Use the gdcmDocEntryArchive. Add methods to set the write type to explicit VR, implicit VR or ACR. Add methods to set the write mode to native, decompressed or RGB (but not used at this time) 2004-11-15 Benoit Regrain * src/gdcmSeqEntry.cxx : add initialisation of variable SeqTerm * src/gdcmDocument.cxx : add delete of DocEntry's to remove some memory leaks 2004-11-15 Benoit Regrain * src/gdcmDocument.cxx : now, when using the ReplaceOrCreateByNumber to set a BinEntry, the binArea is copied (like to set a ValEntry, the string is copied). * Test/TestCopyDicom.cxx, Example/TestCopyDicom.cxx : the image data isn't set because already copied when copying the BinEntry's of the header * Test/TestAllReadCompareDicom.cxx : remove warnings 2004-11-15 Benoit Regrain * FIX : now, the DocEntries are all deleted in the gdcmElementSet. Two problems appear when doing it : - with the gdcmFile : when the GetImageData method is called, the pixels are stored in the gdcmPixelConvert, but a gdcmBinEntry link to these data (pixels). And each structure destruct the data when it's destructed. So we have two destructions for the same data. To solve it, a flag is added in the gdcmBinEntry to indicate if the BinEntry owns the data or not. If it doesn't own data, then they will not destroyed by the gdcmBinEntry. - with the gdcmDicomDir : the sequences (gdcmSQItem) contain DocEntry elements. The DicomDir* (DicomDirPatient, etc.) inherit from SQItem. Thus destruct the DicomDir* elements and the TagHT of the ElementSet create a double destruction of the same DocEntry's. So, to solve it, the TagHT is simply cleared and the DicomDir* elements are destroyed. * TODO : add an entry concerning memory leaks in the DicomDir 2004-11-15 Benoit Regrain * FIX : src/gdcmDocument.cxx Remove obvious code in the destructor * FIX : src/gdcmPixelConvert : Set to NULL the deleted structures in the squeeze method 2004-11-15 Benoit Regrain * FIX: src/gdcmUtil.cxx : to compile with MSVC6 * src/gdcmDocument.cxx : fix memory leaks. Fix possible bugs : use an object after it have been deleted 2004-11-16 Eric Boix * FIX: src/* fix the doxygen warnings. * src/gdcmVR.cxx: removed some redundant tests (e.g. LO) * src/gdcmDocument.cxx: FIX ::ComputeRLEInfo() rleSegmentOffsetTable[] was erroneously defined with a size of 15 instead of 16. [many thanks to Jean Michel Rouet for pointing out this bug]. 2004-11-15 Mathieu Malaterre 1. Finish merging JMR patch for writting DICOM from scratch 2. Fix -hopefully- bug with MONOCHROME and space vs null character 3. Use const ref when possible 4. Add a new function InitializeDefaultHeader, which create a template DICOM header (CT image for now) 5. A few more comments 6. CreateUniqueUID can now be called without parameter" 2004-11-15 Mathieu Malaterre * ENH: Slightly bigger patch: 1. Getting toward full integration of JMR patch for writting dicom from scratch 2. Update Test to test part of this patch: CreateUniqueUID 3. File was not close properly in gdcmDict 4. Use of typedef is to be prefered when possible (gdcmDict.cxx) 5. Use of const ref instead of copy (speed issue) 6. Remove temporary (duplicate) string in TranslateToKey 7. Mark extremely dangerous code as such (gdcmDocument.cxx and AddEntry fallback case) 8. Do not repeat virtual in subclasses 9. Implemented in gdcm::Util two new function: GetIPAddress, and CreateUniqueUID 2004-11-15 Mathieu Malaterre * Apply first patch toward better string comparison when dealing with broken DICOM files. Essentially the string could be padded with a space instead of a null character as defined by standard 2004-11-15 Benoit Regrain * src/gdcmDocument.[cxx|h] : fix memory leaks. The return is suppressed because never used... and in the same time, that's remove some memory leaks 2004-11-15 Benoit Regrain * src/gdcmFile.cxx : now delete the PixelConvert instance. * In examples and tests : change the type of image data variables from void* to uint8_t*. Remmove all delete on image data variables 2004-11-10 Benoit Regrain * src/gdcmDocument.cxx : Set the file pointer TP to 0 in the constructors. Verify the file pointer value before open the file, and if it's not null, a verbose message is generated. Close correctly the file when the file isn't considered dicom-like. The correctly close is a call to CloseFile. When closing the file pointer, test if its not null to close the file. * src/gdcmPixelConvert.cxx : bug fix for the SIEMENS_GBS_III-16-ACR_NEMA_1.acr file. For an uncompressed image, the copied data correspond in the least case to the image size (calculated) or the image size specified in the header. A verbose is generated if these two size mismatch 2004-11-09 Benoit Regrain * Test/TestAllReadCompareDicom.cxx : test the existence of the directory using an 'ifstream' other than a 'FILE *'. The previous solution ('FILE *') break under windows (with msvc6 compilation). 2004-11-09 Benoit Regrain * src/gdcmDicomDir.h : bug fix for the last Boix's commit (problem when compiling with MSVC6) 2004-11-09 Benoit Regrain * Bugs fix for the Windows build with VC6 * CMakeLists.txt : bug fix - The include of the VTK lib is made only when it's needed (only for projects required VTK). If the VTK is included in all projects, there is conflicts with the jpeg lib of vtk when compiling the gdcmjpeg[8,12,16] projects. The first conflict is on the jmorecfg.h file. * src/gdcmUtil.h : export binary_write methods. Otherwise, there's problems when compiling the gdcm_wrap.cxx file (created by the compilation of the gdcm.i file) * vtk/vtkGdcmDemo.cxx : remove the use of std namespace for the cerr use (like it's already made for the cout use). Otherwise, conflict with the std::cerr of vtk. 2004-11-09 Eric Boix * src/gdcmDicomDit.h the Method typedef is now local to DicomDir class. * gdcmPython/gdcm.i: - comments on the DicomDir::Method related usage added. - now that we use the namespace gdcm, a lot of internal classes do NOT need to be wrapped anymore. * gdcmPython/demo/DicomDirProgressMethod.py (that uses the above DicomDir::Method) new example added. 2004-11-05 Mathieu Malaterre * Improve string manipulation. I now inforce the notion of 'DicomString' A DicomString can contain as many \0 as they want and it is *always* of even length. We only support odd length for very rare case. And in the near future this should be removed. 2004-11-03 Mathieu Malaterre * /binary_write/ gdcm source. Now even on big endian we are writting little endian. This should -heopfully- fix some tests 2004-11-03 Mathieu Malaterre * Now the dictionary is compiled into gdcm lib. This is a default behavior, thus any dic file specified is picked before failback to the one comiled into lib 2004-10-27 Mathieu Malaterre * Change internals for gdcmDict. Don't use any 'new' any more. This should definitely solve any leak problem, and we should be as fast as before, as long as don't modify too much the dictionary. 2004-10-25 Mathieu Malaterre * STYLE: ivars should start with a capital letter. * Accessors should be const to avoid people starting modifying stuff (since this is a ref). * remove 'virtual' as Style specify subclasses shouldn't reuse the keyword 2004-10-22 Eric Boix * Doc/Dicom2004_Part5.pdf added (thanks to JPR). * Dicts/dicomTS2004.dic, dicomV3VM2004.dic, groupNameAbbreviations2004.dic new 2004 dictionaries added (thanks to JPR). * FIX dashboard warning RLEFrame::NumberFragments is now of type unsigned int * CLEANUP_ROUND (15) for gdcmPixelConvert - RLEFrame::NumberFragments is now of type unsigned int - gdcmFile::GetImageData(), GetImageDataIntoVector(), GetImageDataRaw() are now all based on PixelConverter. ::GetImageDataIntoVectorRaw() no longer exists. 2004-10-21 Mathieu Malaterre * Initial work in gathering all transfer syntax accessors. clearly IsDecompressed/IsJPEG2000/IsJPEGLossless/IsRLELossless shouldn't be all ivars, but only one transfersyntax (class) ivar with equivalent method on the class. 2004-10-21 Mathieu Malaterre * Removed all FILE* ref and replace by ifstream/ofstream. For now I use a temp solution with the two files jdatadst.cxx and jdatasrc.cxx, this need to be discussed (plus I didn't like having a 2000 lines patch not commited) 2004-10-21 Eric Boix * src/gdcmDocument.cxx: wrong type on return fixed (thanks dashboard) * CLEANUP_ROUND (14) for gdcmPixelConvert - PixelConvert::GetLutRGBA(FILE*) is now GetLutRGBA() (no fp needed) - PixelConvert::BuildRGBImage()(FILE*) is now BuildRGBImage() (no fp needed) - File::GetImageDataIntoVector() doesn't need unnecessary OpenFile() and CloseFile() anymore. - File::GetImageDataRaw() doesn't call GetImageDataIntoVectorRaw() anymore and hence avoids storing a copy of PixelConvert::Decompressed into File::Pixel_Data. 2004-10-20 Eric Boix * src/gdcmDocument.cxx ftell() return properly stored in a long (i.e. no longer depends on's programmers PMS = Preposterous Mood Swings ;). * CLEANUP_ROUND (13) for gdcmPixelConvert Substituted File::ParsePixelData() with PixelConvert::Print() new method: - src/gdcmParsePixels.cxx removed (only contained File::ParsePixelData()) - src/gdcmRLEFrame.cxx, gdcmJPEGFragment.cxx added. Added a ::Print() method to those classes. - src/gdcmFile.[cxx|h]: -- Added a ::Print() method. -- PixelConverter is now a reference instead of a member. -- gdcmPython/gdcm.i: added "using namespace gdcm" in order for gdcm_wrap.cxx to "understand" File::GetPixelConverter() 2004-10-18 Eric Boix * Doc/CMakeLists.txt, doxygen.config.in: when dot is present the collaboration diagram and inheritance diagram should be generated with doxygen. * Doc/Website/Sidebar.html: Dashboard is now also in the sidebar. * gdcmPython/gdcm.i: gdcmRLEFramesInfo.h gdcmJPEGFragmentsInfo.h are pointlessly wrapped (see http://www.creatis.insa-lyon.fr/pipermail/dcmlib/2004-October/000692.html ) * CLEANUP_ROUND (12) for gdcmPixelConvert (sugar is my friend stage) - Header::GetLUTRGBA() moved to PixelConvert::GetLutRGBA() - vtk/vtkGdcmReader.cxx: adapted to displacment of Header::GetLUTRGBA() - Document::RLEInfo and JPEGInfo are now pointer members (Swig thing) - src/gdcmFile.[cxx|h] and gdcmPixelConvert.[cxx|h]: -- File::Initialise: PixelConverter setup moved away to PixelConverter::GrabInformationsFromHeader() -- File::GetImageDataIntoVector(): Lut R + Lut G + Lut B color table interpretation moved away to PixelConverter::BuildRGBImage() 2004-10-16 Mathieu Malaterre * Remove GDCM_EXPORT keyword from gdcm::DirList due to : http://support.microsoft.com/support/kb/articles/Q168/9/58.ASP 2004-10-15 Eric Boix * src/gdcmDebug.cxx last ditch attempt to get warning/error messages displayed on Win32 when a brutal abort() occurs (because of uncatched exception). See TODO new entry of this commit for more on this. * TODO added new entry. * CLEANUP_ROUND (12) for gdcmPixelConvert (nicotine is my friend stage) src/gdcmFile.[cxx|h] and gdcmPixelConvert.[cxx|h]: - HandleColor is no longer called from gdcmFile.cxx - gdcmPixelConvert.cxx clean up on method arguments and internal variable names for semantical coherence. 2004-10-14 Mathieu Malaterre * Finished lossless transition, not only do we now read all lossless jpeg images, without the need of the Cornwell lib, but we do read them properly now * To reduce code (well to avoid code duplication), I defined a common place for jpeg read/write: gdcmJpeg.cxx. Now gdcmJpeg[8,12 16] include this file and redefine symbols. This is not perfect but this the best solution I found for a compilation time jpeg option. 2004-10-13 Mathieu Malaterre * Update jpeg ijg lib to support lossless jpeg implementation For more info look in jpeg/libijg/README.GDCM.txt for necessary steps to reproduce at home. * Also added a special copyright for dcmtk since we use their bugfixes. Thanks dcmtk crew ! 2004-10-13 Eric Boix * Doc/Website/MailingList.html added (Sidebar.html changed accordingly). * gdcmPython/gdcm.i: fix for compilation of wrappers (Note: %include order matters, as stated in warning note at begining of %include section). * src/gdcmDicomDir*.[cxx|h]: coding style * src/gdcmDocument.h: doxygen \ref seems uncompatible with \todo. * src/gdcmJpeg8.cxx: doxygen fix. * CLEANUP_ROUND (12) for gdcmPixelConvert (seing the ligth stage) src/gdcmFile.[cxx|h] and gdcmPixelConvert.[cxx|h]: color handling moved from File:: to PixelConvert::. 2004-10-12 Eric Boix * CLEANUP_ROUND (11) for gdcmPixelConvert (cafeine is my friend stage) src/gdcmFile.[cxx|h] and gdcmPixelConvert.[cxx|h]: - more code moved away from File:: to PixelConvert:: - fat setup of PixelConverter set in place in File::Initialise. 2004-10-12 Mathieu Malaterre * Apply patch for namespace in gdcm. Didn't rename files for keeping a sort of namespace at the file system level. So now you should convert your examples like this: gdcmHeader -> gdcm::Header It would be nice if people keep in mind to no open the namespace, since it allows compilation on broken plateform which were defining common symbol in the standart namespace (like LP, Unknown ...) 2004-10-10 Eric Boix * CLEANUP_ROUND (10) for gdcmPixelConvert (Xanax is my friend stage) The JPEG fragments are now parsed at the same stage than the RLE information. All code related to JPEG is now in gdcmPixelConvert: - src/gdcmJPEGFragment.h and gdcmJPEGFragmentsInfo.[h|cxx] added - src/gdcmJpeg12.cxx, gdcmJpeg2000.cxx and gdcmJpeg8.cxx no longer export a gdcmFile:: method. Those are simply global functions (for the time being this is better than having them attach to either gdcmFile:: or gdcmPixelConvert::). - src/gdcmDocument.[cxx|h], gdcmDocument:: now parser the JPEG fragments and stores the result in a gdcmJPEGFragmentsInfo. - src/gdcmFile.[cxx|h] and gdcmPixelConvert.[cxx|h]: all JPEG related code (among other stuff) moved away from gdcmFile:; to gdcmPixelConvert:: 2004-10-08 Eric Boix * src/gdcmCommon.h now declares int8_t for non stdint.h plateforms. * CLEANUP_ROUND (7) for gdcmPixelConvert (lost at sea) - src/gdcmFile.h gdcmPixelConvert.cxx gdcmPixelConvert.h gdcmRLE.cxx: clean up of RLE related code. * CLEANUP_ROUND (8) for gdcmPixelConvert (end of RLE nigthmare) - src/gdcmRLE.cxx removed - src/gdcmPixelConvert.cxx all RLE code is now in PixelConvert:: - src/CMakeLists.txt gdcmFile.[cxx|h] changed accordingly - src/gdcmRLEFrame*.h gdcmPixelConvert is now a friend class. * CLEANUP_ROUND (9) for gdcmPixelConvert - src/gdcmFile.[cxx|h} gdcmPixelConvert.[cxx|h], SwapZone(), ConvertReorderEndianity(), ConvertDecmpres12BitsTo16Bits() moved away from gdcmFile:: to gdcmPixelConvert::. 2004-10-07 Eric Boix * CLEANUP_ROUND (5) for gdcmPixelConvert (Upshit creek without a paddle) - src/gdcmDocument.[cxx|h] Parse7Fe0 renamed to ComputeRLEInfo. This is because Parse7Fe0 used to parse the pixels to compute the length. This task was passed over to FindDocEntryLengthOB() a long time ago, EXCEPT I had forgotten the OW case... Hence Parse7Fe0 was no longer necessary. When renaming to ComputeRLEInfo we just recylce the code for parsing RLE fragments and computing offsets. * CLEANUP_ROUND (6) for gdcmPixelConvert (man, I need a paddle bad) - src/gdcmRLE.cxx: is now much simpler and avoids code replication with the retired Parse7Fe0(). - src/gdcmRLEFrame.h: type fix for properly computing OffSet[] - src/gdcmDocument.cxx: segments offset are now correct + clean up. 2004-10-06 Eric Boix * CLEANUP_ROUND (3) for gdcmPixelConvert (nightmare stage) - src/gdcmRLEFramesInfo.[cxx|h], gdcmRLEFrame.h added - src/gdcmDocument.[cxx|h] ::Parse7FE0 now sets up the RLEInfo. - src/CMakeLists.txt: alphabetic order reodering + new entries. * CLEANUP_ROUND (4) for gdcmPixelConvert - src/gdcmDocument.[cxx|h] ::ParseDES and ::ParseSQ no longer bother to return an unused length. 2004-10-09 Mathieu Malaterre * Remove all sprintf from the code to centralize in one spot in gdcmUtil this should be cleanner from the plane view. The iostream are erally a pain to use to do simple stuff. 2004-10-04 Mathieu Malaterre * Redo the compilation of the ijg jpeg library. Now only one source is necesseray. No need to rename file by hand what so ever. CMake handle the copying of the file within different directory, configure header file to modify some symbol. The only addition made to ijg wasd a mangle table so that symbol are different whether we are within 8bits or 12bits. 2004-10-01 Eric Boix * Added documentation of vtkgdcmReader on Website: - testvtkGdcmReader.cxx renamed to vtkGdcmDemo.cxx (to be compatible with it's binary name). - vtk/vtkGdcmDemo.cxx and vtkgdcmViewer.cxx: added comments for the Website to be more complete. - Doc/doxygen.config.in: vtk/vtkGdcmReader.cxx now appears on doxygenated documentation. - Doc/DoxyVtkGdcmReaderExamples.txt added (see http://www.creatis.insa-lyon.fr/Public/Gdcm/html.developper/ DoxyVtkGdmReaderExamples.html ) * src/win32, vtk/win32 manually maintained .dsp and .dsw removed. * CLEANUP_ROUND (3) for gdcmPixelConvert - src/gdcmFile.cxx, gdcmFile.h splitting GetImageDataIntoVectorRaw 2004-09-29 Eric Boix * CLEANUP_ROUND (2) for gdcmPixelConvert - src/gdcmFile.cxx, gdcmFile.h splitting GetImageDataIntoVectorRaw 2004-09-29 Eric Boix * CLEANUP_ROUND for gdcmPixelConvert: - src/gdcmFile.cxx, gdcmFile.h, gdcmHeader.cxx, gdcmHeader.h clean up - src/gdcmPixelStuff[h|cxx] removed - src/gdcmPixelConvert[h|cxx] added. Preparatory work included. - src/CMakeLists.txt changed accordingly * GDCMHOME clean up: - MANIFEST.in, WrapSwig.py, WrapVTK.py, distutilsWrapping.py and gdcmVersion.py moved to newly created ATTIC related gdcmPython/SetupOldies/ directory. * Autotools clean up: - */*/Makefile.am removed AT EXCEPTION of gdcmPython/Makefile.am - autogen.sh configure.in acinclude.m4 python.m4 removed 2004-09-27 Eric Boix * src/*.cxx *.h Reference to License.htm fixed to License.html. * Doc/CMakeLists.txt, doxygen.config.in: fix. * Doc/Website/ConformanceSummary.html, minimal conformance statement added. 2004-09-24 Eric Boix * TODO updated with Mathieu suggestions. I proposed a template for describing TODO entries and used it for new entries. * Added Doc/Website/CodingStyle.html, Developpers.html, DeveloppersPython.html, GdcmDataCvs.html and DownloadVersion0_1.html, DownloadVersion0_3.html. * Some Doc/*.txt Doxygen files (which do not really concern the documentation itself, but the website) moved to html and placed in directory Doc/Website: - Doc/DoxyDevelInstal.txt moved to Doc/Website/Developpers.html - Doc/DoxyInstallation.txt moved to Doc/Website/Installation.html - Doc/DoxyIntroduction.txt included in Doc/Website/Main.html * Doc/DoxyfileDeveloppers, DoxyfileUsers, Makefile.am oldies removed. * CMakeLists.txt changed accordingly. * DEVELOPPER spread out in Doc/Website/Developpers.html, CodingStyle.html, DeveloppersPython.html * INSTALL nows refers to Doc/Website/Installation.html 2004-09-23 Eric Boix * Added Doc/Website directory, that contains a first raw version of gdcm Web site. 2004-09-23 Jean-Pierre Roux * FIX In order not to be poluted any longer by casting problems, the member VoidArea of gdcmBinEntry is now uint8_t* (instead of void *) we can now delete[] it safely * VoidArea is now called BinArea (less confusing name), and all the methods called ...VoidArea... are now ... BinArea... * class gdcmObject is now called gdcmDicomDirObject (less confusing name) 2004-09-22 Eric Boix * src/gdcmDocument.cxx: gdcmDocument::~gdcmDocument() doesn't clear (nor clear) TagHT, which is an inherited member of gdcmElementSet. It is up to the destructor of gdcmElementSet to clean up TagHt and it's pointed content. 2004-09-21 Eric Boix * Test/CMakeLists.txt: update to follow gdcmData renamings. * src/gdcmCommon.h, gdcmDocument.cxx: doxygen typos 2004-09-17 Eric Boix * ENH: added some utility method that builds a flat dictionary holding all the Dicom entries contained in the recursive structure of a gdcmElementSet. Refer to add FlatHashTablePrint.cxx for an example of usage. - src/gdcmDocument.[h|cxx] added BuildFlatHashTableRecurse() and BuildFlatHashTable() that build a flat dictionary. - src/gdcmElementSet.h: added a new private GetTag() accessor. gdcmDocument is now a friend of gdcmElementSet. - src/gdcmElementSet.cxx: clean up. - Example/FlatHashTablePrint.cxx added. - Example/CmakeLists.txt changed accordingly 2004-09-16 Eric Boix * gdcmDocEntrySet::SQDepthLevel and gdcmDocEntrySet::BaseTagKey attributes moved away from gdcmDocEntrySet (since this class is an abstract class acting like an interface). SQDepthLevel and BaseTagKey are now in class - src/gdcmDocEntrySet.[h|cxx] removal of SQDepthLevel and BaseTagKey and associated accessors. Doxygenation of the class. - src/gdcmSQItem.[h|cxx] SQDepthLevel and BaseTagKey and associated accessors added. - src/gdcmSeqEntry.[h|cxx]: constructor doesn't handle depth anymore. Use SQDepthLevel accessor instead. ::Print() adapted. - src/gdcmElementSet.cxx changed according to changes in gdcmSeqEntry. - src/gdcmDocument.cxx changed accordingly. 2004-09-13 Eric Boix * Preparation of writing a gdcmHeader iterator: generalisation of gdcmTagKey - The following is the doxygen comment of the typedef declaration of gdcmTagKey in src/gdcmCommon.h: gdcmTagKey is made to old an "universal" (as in URL, Universal Ressource Locator) key to a gdcmDocEntry i.e. a dicom tag. A dicom tag always has a group and an element, but a set of tags embeded in various (optionally nested) sequences and sharing the same group and element all share the same (group, element) "identifier". Hence the (group, element) cannot be used as an identifier (in gdcm we shall refer to a "TagKey") of a tag. In order to construct a proper tag identifier (i.e. a key) we consider the following definition of a TagKey: - let Group, Element be the string representation of the group and element dicom tag members, - let ItemNumber be the string representation of the integer index of the considered item number of a sequence, Let the key of a tag embeded in a sequence, noted SeqTag, be the form: /ItemNumber#Group|Element where "/", "#" and "|" are characters acting as separators. Then the general form of a gdcmTagKey is given by: Group|Element where means NO or many instances of SeqTag. Hence the gdcmTagKey of a tag not "leaving" in a sequence is the string e.g. 0028|1201 but the gdcmTagKey of a tag "embeded" is the first item of a sequence, itself nested in the third item of a sequence is the string e.g. 0004|1220/2#0008|0082/0#0008|0090 - src/gdcmDocEntry.h: added a new Key (of type gdcmTagKey) member, in order to hold the new sequence compatible key. Previously, the GetKey() method would look in the underlying gdcmDictEntry. - src/gdcmDocEntry.cxx: -- constructor now copies the underlying DictEntry key, in the local Key member. -- ::Print: displays the member Key, instead of the (group, element). - src/gdcmCommon.h: added some comments on typedef gdcmTagKey. - src/gdcmDocEntrySet.h:xi -- ::ParseDES() now setups the gdcmTagKey of the sequence it is parsing. -- now has a new BaseTagKey member. -- STYLE. * src/gdcmValEntry.[h|cxx], src/gdcmBinEntry.[h|cxx]: the member VoidArea, previously a member of gdcmValEntry, moved to gdcmBinEntry were is truly belongs. This poses the problem with the semantics of the following lines LoadEntryVoidArea(0x0028,0x1201); // R LUT LoadEntryVoidArea(0x0028,0x1202); // G LUT LoadEntryVoidArea(0x0028,0x1203); // B LUT in gdcmDocument::gdcmDocument(std::string const & ). Please refer to the long FIXME note for what the problem is. Nevertheless in order to get things working the dicom dictionary was altered ! Please fix things urgently... * Dicts/dicomV3.dic WRONGLY altered (this means we introduced a uncorrect information), see above note on moving the member VoidArea. Nevertheless the following entries previously correctly set as US are now inproperly set to OW: 0028 1201 OW IMG Red Palette Color Lookup Table Data 0028 1202 OW IMG Green Palette Color Lookup Table Data 0028 1203 OW IMG Blue Palette Color Lookup Table Data * src/gdcmDocEntry.[h|cxx], src/gdcmSeqEntry.h: SQDepthLevel member of gdcmDocEntry moved to gdcmSeqEntry. * src/gdcmSeqEntry.cxx: STYLE. 2004-08-04 Eric Boix * Test/TestAllEntryVerify.cxx minor fix and added comments. 2004-08-03 Eric Boix * gdcmPython/testSuite.py: all the test suite in python is now moved to it's C++ version (see gdcmData/TestAllEntryVerifyReference.txt) * Test/CMakeLists.txt adapted to renaming of files in gdcmData * gdcm/TODO and src/gdcmDictSet.h cleaned up frow the "TODO Swig" oldies 2004-08-02 Eric Boix * gdcmPython/CMakeLists.txt: SWIG_FLAGS doesn't declare includeall to avoid inclusion recursion until STL is reached. * src/gdcmDocument.[h|cxx]: exceptions substituted to errno C-style mecanism. errno.h is not included in gdcm anymore. * src/gdcmException.h: introduced new gdcmFormatUnexpected class (gdcmFormatError now inherits from gdcmFormatUnexpected). * TODO updated * gdcmPython/testSuite.py checks on CR-MONO1-10-chest.dcm moved to gdcmData/TestAllEntryVerifyReference.txt * Test/TestAllEntryVerify.cxx is now effective (used always return true) * src/gdcmDocument.[cxx|h]: constructors no longer use the bool exception_on_error parameter. - src/gdcmFile.[cxx|h], src/gdcmHeader.[cxx|h] changed accordingly, - vtk/vtkGdcmReader.cxx changed accordingly, - Example/*.cxx and Test/*.cxx changed accordingly. 2004-07-06 Eric Boix * src/gdcmDicomDir.cxx, gdcmDocEntrySet.cxx: removed inclusion of errno.h * src/gdcmDocument.[h|cxx], gdcmFile.[h|cxx], gdcmHeader.[h|cxx]: enable_sequences removed from gdcmHeader constructor and dependencies. * Example/PrintHeader.cxx: fixed accordingly (enable_sequences removal). * gdcmPython/demo/PrintHeader.py: dummy fix. * src/gdcmDocument.[h|cxx], gdcmFile.[h|cxx], gdcmHeader.[h|cxx]: skip_shadow removed from gdcmHeader constructor and dependencies. * Example/*.cxx and Test/*.cxx changed accordingly. 2004-07-27 Eric Boix * Test/CMakeLists.txt: newly re-introduced SIEMENS_Sonata-12-MONO2-SQ.dcm in gdcmData (previously known as E00001S03I0015.dcm) is blacklisted. 2004-07-21 Jean-Pierre Roux * FIX Now, Parsing and Printing a DICOMDIR do work! ( troubles remain in makeDicomDir and BuildUpDicomDir :-( 2004-07-20 Jean-Pierre Roux * FIX Some brain damaged headers have Zero-Lenght fields for 'Transfert Syntax UID', or 'Media Stored SOP Class UID'. 2004-07-19 Benoit Regrain * src/gdcmCommon.h, gdcmDict.cxx, gdcmTS.cxx : bug fix for msvc6 compilation * src/gdcmDebug.[h|cxx] : bug fix for msvc6 compilation. Replace the dbg variable (instance of gdcmDebug) by a definition macro, and the instance is now in static in the gdcmDebug class * src/gdcmSQItem.h : (FIXME) remove an undefined method * Test/PrintAllDocument.cxx : bug fix in the result of the test 2004-07-06 Eric Boix * WARNING: ctest now depends more tightly on gdcmData. You should check out gdcmData properly for things to run smoothly... * src/gdcmDocument.cxx MAX_SIZE_LOAD_ELEMENT_VALUE is set back to 0xfff (4096) for "ctest -R TestAllEntryVerify" to be able to run (i.e. we need the pixels not be loaded in order to use the ValEntry that displays position and size). * Test/TestAllEntryVerify.cxx a new low level test now seems fair. This is a C++ based equivalent of gdcmPython/testSuite.py that should be deprecated. If you have any doubts about the advantages of a modern scripting language (read Python) versus grass root C++ (i.e. without lex + yacc, because of gdcm commitement to MS-VC++, sighhh), I suggest you compare TestAllEntryVerify.cxx (639 lines, without the reference file gdcmData/TestAllEntryVerifyReference.txt) and testSuite.py. Anyhow, consider documenting the gdcmData images in gdcmData/TestAllEntryVerifyReference.txt (and please run ctest before commiting changes). * Test/CMakeLists.txt: - now uses TestAllEntryVerify.cxx - specific comments on oldACR00001.ima (now renamed in gdcmData to SIEMENS_GBS_III-16-ACR_NEMA_1.acr) moved away to gdcmData/TestAllEntryVerifyReference.txt * TODO updated. 2004-07-02 Eric Boix * src/*.[h|cxx] : typedef clean up - guint16 and guint32 removed. Use ISO C uint16_t, uint32_t instead. - TagKey renamed to gdcmTagKey (for external usage) - VRKey renamed to gdcmVRKey (for external usage) - removal of typedef duplication. - Removed all unecessary inline keyword from class inline definitions. - Some method|function(void) declarations replaced with method|function(). * src/jpeg/libijg12/jdhuff12.c: - printf polluting ctest removed. - TAB removal for comminting * Test: - TestAllReadCompareDicom.cxx: added a test that compares all the images in gdcmDataImages.h with corresponding images in gdcmData/BaselineDicom/. When baseline images are not present this test creates them. Note: we need to validate each reference image, but before that I'd like to rename them with a more explicit name... - CMakeLists.txt: changed accordingly. * Example/*.cxx: examples now only include gdcm.h (as opposed to including each header needed). 2004-07-01 Eric Boix * Test/*.cxx and Example/*.cxx: moved some examples away from the test suite to the Example directory. Are concerned: - PrintHeader.cxx - TestDcm2Acr.cxx - TestFindTags.cxx - TestWrite.cxx was - TestWriteSimple.cxx * Test/CMakeLists.txt: added some comments on reasons for black listing image gdcmData/oldACR00001.ima 2004-06-30 Eric Boix * Test/CmakeList.txt: removed the following from black list (to be coherent with removal from gdcmData): - gdcm-MR-PHILIPS-16-Multi-Seq.fixed.dcm - gdcm-MR-PHILIPS-16.dcm - US.3405.1.dcm Added the following because after last cvs update, they cause ctest -R TestReadWriteReadCompare to segfault: - gdcm-MR-SIEMENS-16-1.acr - oldACR00001.ima * Test/TestReadWriteReadCompare.cxx was properly written (with a call to gdcmFile::SetImageData()) BUT since gdcmFile is brain damaged (see new comments in this file) we temporarily (sigh) move to a weaker form of test... * Test/CmakeList.txt: with the change to Test/TestReadWriteReadCompare.cxx we don't need to black list the following images anymore: - 8BitsUncompressedColor.dcm - OT-PAL-8-face.dcm - US-PAL-8-10x-echo.dcm * src/gdcmDocument.[h|cxx]: RE-Reverting to version 1.42 with the proper fixes and the beautified code ;-) This fixes the bug introduced in version 1.42 (when beautifying) that made the parsing of 8BitsRunLengthColor.dcm unproper. Note: ctest was blind to this bug (this means we need to still improve the test suite). The bug could be detected by using gdcmbin/bin/PrintDocument $GDCM_DATA/8BitsRunLengthColor.dcm or by using gdcmbin/bin/ReadWrite $GDCM_DATA/8BitsRunLengthColor.dcm and by displaying the (garbage) produced file temp.XDCM... 2004-06-29 Jean-Pierre Roux FIX : - remove Frog's beautified, but never checked 'Parse7FE0' code, - replace by uggly but working old code :-( A lot of things should be OK again. It's really urgent to have a test suite that *tests*, to prevent Frog's beautifying sessions to break all the stuff (twice, withing a fortnigh ...) 2004-06-28 Eric Boix * Test/TestWriteRead.cxx and TestReadWrite.cxx merged (because of redundancy) to added Test/TestReadWriteReadCompare.cxx * Test/CmakeList.txt: because the compare test of Test/TestReadWriteReadCompare.cxx fails, the following images are black listed: - 8BitsUncompressedColor.dcm - OT-PAL-8-face.dcm - US-PAL-8-10x-echo.dcm * src/gdcmDocument.cxx: for broken (non DICOM V3 conformal) images (e.g. gdcm-JPEG-LossLess3a.dcm see comments in gdcm/gdcmPython/testSuite.py for details) ::FindDocLengthOB() had and ad-hoc kludge. This kludge is now removed, and on encountering such an image (OB field brain damaged) we set errno. Then in ::FindDocLength() we "fix" the length as being ALL what remains in the file (until EOF). We then proceed, hoping for the best... This fixes a SegFault in ShowDicom when trying to write such an image. * Test/CmakeList.txt: 8BitsRunLengthColor.dcm is now blacklisted (because TestWriteRead breaks on it, after a non conformal commit?). ctest now runs properly, except for MakeDicomDir (which was always broken) and the Python related stuff (still not fixed). 2004-06-24 Jean-Pierre Roux ADD : Examples/WriteRead, that acts like the former Test/TestWriteRead FIX : Test/TestReadWrite now iterates on all the file names (instead of infinite loop) ENH : Test/TestWriteRead now iterates on all the file names 2004-06-28 Eric Boix * Test/TestReadWrite.cxx: now uses all the images of gdcmData. 2004-06-24 Jean-Pierre Roux FIX : - now Write drops LUT Descriptors and LUTs (if any) when SamplesPerPixel =3 - now Write is no longer confused by 'BitsAllocated = 12" and 'BitsStored=12" - "UN" value representation Elements are now written correctly (their legth is stored on 4 bytes -just like OB, OW, and SQ-) ENH : - now gdcmHeader has its own Write methods (in order to split the job that has not to be done for gdcmDicomDir) 2004-06-23 Eric Boix * Test/PrintAllDocument.cxx: looping on files is now effective. It used to loop on the same image until memory went out. Note: this means we still have gobs of memory loss in PrintDocument * src/gdcmDocument.cxx: fixes problem on parsing on file gdcmData/16BitsJpegLosslessGrayScale.dcm. 2004-06-24 Jean-Pierre Roux FIX : Write - All the Sequences and Sequence Item are now written as 'no length' stuff, and a Sequence Delimitor aor an Item Delimitor is added a the end, when necessary. - A lot of brain-damaged images, that were read correctly are now written correctly - length compatible BinEntry are now loaded correctly (even for odd groups) Note : only Explicit Value Representation was checked. (question : is implicit VR really necessary for gdcm ?) 2004-06-23 Eric Boix * DEVELOPPER: added a proposition of coding style. * src/gdcmDocEntry.h: removed every inline declaration (for test of coding style). 2004-06-23 Eric Boix * gdcmDocEntry::PrintCommonPart() and ::WriteCommonPart() removed. Use the gdcmDocEntry::Print() and Write() instead. * src/gdcmDocument.cxx: bug fix. 2004-06-22 Jean-Pierre Roux FIX : gdcmDocument.cxx - Now we do recognize the JpegLossLess format (there was a misstyping in code 'beautyfication' :-( - Now we automaticaticaly load the Luts, if any 2004-06-22 Jean-Pierre Roux In order : to write Sequences, whatever their imbrication level, : to allow user to create his own Sequences a lot of modif where necessary (adding, moving, or virtualising methods) WARNING : save your own sources *before* cvs up ! - gdcmBinEntry ADD virtual void Write(FILE *fp, FileType filetype); - gdcmDocEntry ADD virtual void Write(FILE *fp, FileType filetype); ADD void gdcmDocEntry::WriteCommonPart(FILE *fp, FileType filetype); - gdcmDocEntrySet ADD virtual void Write (FILE *fp, FileType filetype)=0; ADD virtual gdcmDocEntry *GetDocEntryByNumber(guint16 group,guint16 element) = 0; ADD gdcmDocEntry *GetDocEntryByName(std::string name); ADD virtual std::string GetEntryByNumber(guint16 group,guint16 element) = 0; ADD std::string GetEntryByName(TagName name); ADD gdcmDictEntry *NewVirtualDictEntry(guint16 group, guint16 element, std::string vr = "unkn", std::string fourth = "unkn", std::string name = "unkn"); ADD gdcmValEntry *NewValEntryByNumber(guint16 group, guint16 element); ADD gdcmBinEntry *NewBinEntryByNumber(guint16 group, guint16 element); ADD gdcmDocEntry *NewDocEntryByNumber(guint16 group, guint16 element); ADD gdcmDocEntry *NewDocEntryByName (std::string Name); ADD gdcmDictEntry *GetDictEntryByName (std::string Name); ADD gdcmDictEntry *GetDictEntryByNumber(guint16, guint16); REM virtual gdcmDocEntry *NewDocEntryByNumber(guint16 group, guint16 element)=0; REM virtual gdcmDocEntry *NewDocEntryByName (std::string Name)=0; - gdcmDocument ADD virtual bool WriteF(FileType type); // New stuff, with recursive exploration ADD virtual std::string GetEntryByName (TagName tagName); ADD virtual std::string GetEntryVRByName (TagName tagName); REM virtual bool Write(FILE *, FileType); REM virtual void WriteEntryTagVRLength(gdcmDocEntry *tag, FILE *_fp, FileType type); REM virtual void WriteEntryValue(gdcmDocEntry *tag,FILE *_fp,FileType type); REM virtual bool WriteEntry(gdcmDocEntry *tag,FILE *_fp,FileType type); REM virtual bool WriteEntries(FILE *_fp,FileType type); REM virtual std::string GetEntryByName (std::string tagName); REM virtual std::string GetEntryVRByName (std::string tagName); REM gdcmDictEntry *GetDictEntryByName (std::string Name); REM gdcmDictEntry *GetDictEntryByNumber(guint16, guint16); REM gdcmDictEntry *NewVirtualDictEntry(guint16 group, guint16 element, std::string vr = "unkn", std::string fourth = "unkn", std::string name = "unkn"); REM gdcmDocEntry *NewDocEntryByNumber(guint16 group, guint16 element); REM gdcmDocEntry *NewDocEntryByName (std::string Name); REM gdcmValEntry *NewValEntryByNumber(guint16 group, guint16 element); REM gdcmBinEntry *NewBinEntryByNumber(guint16 group, guint16 element); - gdcmElementSet ADD virtual void Write(FILE *fp, FileType filetype); - gdcmSeqEntry ADD virtual void Write(FILE *fp,FileType filetype); - gdcmSQItem ADD virtual void Write(FILE *fp, FileType filetype); ADD virtual std::string GetEntryByNumber(guint16 group, guint16 element); REM std::string GetEntryByNumber(guint16 group, guint16 element); REM std::string GetEntryByName(TagName name); - gdcmValEntry ADD virtual void gdcmValEntry::Write(FILE *fp, FileType filetype); 2004-06-21 Eric Boix * Test/TestWriteSimple.cxx: fix to gdcmHeader-gdcmHeaderHelper revamping. The default constructor invoked by the line gdcmHeader *f1 = new gdcmHeader( header ); was gdcmHeader::gdcmHeader(bool) instead of the expected gdcmHeader::gdcmHeader(std::string const &, bool = false, bool, bool). Hence the parsing wasn't executed... See also below. * src/gdcmHeader.h: the declaration of gdcmHeader::gdcmHeader(bool) as explicit constructor didn't do the trick to fix the above problem. Could anyone explain why ? * src/gdcmBinEntry.cxx, gdcmValEntry.cxx: gdcmBinEntry::Print() now properly calls gdcmValEntry::Print() (that was weed out from code related to gdcmBinEntry). 2004-06-20 Eric Boix * In order to fix memory leaks: - Test/TestWriteSimple.cxx: added cleaning of free store through some delete calls. - src/gdcmBinEntry.cxx: fix to avoid SegFault. - src/gdcmDicomDir.[cxx|h]: fixed initialisation in constructor gdcmDicomDir::gdcmDicomDir(bool) [either the constructor itself (through the call to ::AddDicomDirMeta()) or the destructor would crash when deleting uninitialized ::metaElems]. - src/gdcmDictEntry.cxx: annotation of ununderstood memory leak. - src/gdcmDocument.cxx: -- ::~gdcmDocument() destructor now cleans up all dictionary entries from dynamic stores. -- ::ParseDES() misplaced deletion of temporary NewDocEntry was causing memory leaks. - src/gdcmSQItem.cxx: -- ::~gdcmSQItem() dummy code cleaned (learned that deletion is cleanly handled with polymophism: sorry but my milage is low). -- ::SetEntryByNumber(string, guint16, guint16) now cleanly allocates a gdcmValENtry, and makes no assumption on type (gdcmDocEntry, gdcmSeqEntry vs gdcmValEntry) of existing entry (when present). This avoids SegFaulting. - src/gdcmSQItem.h: coding style. * Conclusion: - Test/TestWriteSimple still severely sucks. The output image content (when $(GDCMDATA_HOME)/012345.002.050.dcm in input) is brain damaged when displayed with vtkgdcmViewer. - on memory leaks: TestWriteSimple leaks really less (see entry of 2004-06-18 in Changelog file for the call to valgrind). - on segfaults: ctest now passes all the tests but one (no more segfaults). * Erroneous leading white fix: - src/gdcmDict.cxx: getline(from,xxx) doesn't remove the leading white[s] (as opposed to from >> xxx, that removes it [them]. - src/gdcmTS.cxx: ditto. - gdcmPython/testSuite.py: dirty related kludge removed. * src/*: remaining references to gdcmParser removed. * src/*[cxx|h]: added copy[way]left header. 2004-06-18 Eric Boix * In order to fix writing of dicom files: - Test/TestWriteSimple.cxx: a simpler example of writing. - Test/CMakeLists.txt changed accordingly. - src/gdcmDocument.cxx: -- The destructor now recursilvely removes potential sequences. -- Bug fix in ::IsJPEG2000() -- ::ReplaceOrCreateByNumber(std::string, guint16, guint16) now handles promotion of gdcmDocEntry to gdcmValEntry in a cleaner manner. -- ::GetValEntryByNumber(guint16, guint16) now defined (as opposed to only declared) and build on top of ::GetDocEntryByNumber(guint16, guint16). -- ::SetEntryByNumber() now uses GetValEntryByNumber(group, element) - src/gdcmElementSet.[h|cxx]: added ::RemoveEntry(gdcmDocEntry *) for usage in destructor and treatement of promotion in ::ReplaceOrCreateByNumber(). - src/gdcmSQItem.cxx: destructor should better handle his job. Test/TestWriteSimple now runs (or at least it DOES something). * We can now start hutting memory links. A good starting point is: valgrind -q --skin=memcheck --leak-check=yes --leak-resolution=high --num-callers=100 --show-reachable=yes gdcmTests TestWriteSimple $(GDCMDATA_HOME)/012345.002.050.dcm foo.dcm 2004-06-18 Eric Boix * Valgrind note: after Mathieu Malaterre teached me how to read the valgrind FAQ ;-] (see http://valgrind.kde.org/faq.html), I learned that: Using gcc, you can force the STL to use malloc and to free memory as soon as possible by globally disabling memory caching. With 3.2.2 and later, you should export the environment variable GLIBCPP_FORCE_NEW before running your program. By setting GLIBCPP_FORCE_NEW, STL related memory leak messages of gdcm simply vanish (it is still not clear to me, whether this means that STL std::string leaks or if valgrind believes it leaks...). * Fixing of SegFault of Test/makeDicomDir (as shown by ctest or by running bin/gdcmTests makeDicomDir): - src/gdcmDicomDir.cxx: dynamic casting used + clean up. - Test/makeDicomDir.cxx now properly traps empty lists and returns with 1. NOW, makeDicomDir cleanly fails (in ctest terminology) instead of SegFaulting (I drowned in DicomDir related code when trying to understand why the list is empty...). * src/gdcmDocument.h: first BSD license header try. * Doc/License.txt added. 2004-06-15 Eric Boix * src/gdcmDocument.[h|cxx]: - Clean up of the Transfer related predicates. They are now all based on new method isGivenTransferSyntax, that (should) handle properly the padding problem. - general clean up, simplification, and coding style. - Specific clean up of Parse7FE0() (umproperly named actually). * gdcmPython/testSuite.py: an odd temporary kludge introduced. 2004-06-14 Jean-Pierre Roux * gdcmSeqEntry.cxx - fix the display of Sequence Delimitor (SQDepthLevel pb) - fix the display of SQItem ordinal number - add the GetSQItemByOrdinalNumber method - remove some useless never written private methods 2004-06-14 Jean-Pierre Roux * gdcmBinEntry.cxx - adding a constructor taking a gdcmDocEntry as an input param - ReplaceOrCreateByNumber now returns : a gdcmBinEntry * if a Binary (void *) value is passed as a param a gdcmValEntry * if a string value is passed as a param * dcmDocument.cxx - SetEntryByNumber now allows setting gdcmValEntry or gdcmBinEntry, according to the param type (no longer sets a gdcmDocEntry) - GetValEntryByNumber, GetBinEntryByNumber added - NewValEntryByNumber and NewBinEntryByNumber added * gdcmFile.cxx - Pixel Data are now linked to the (7fe0,0010) elements, after reading * gdcmSQItem.h - GetSQItemNumber and SetSQItemNumber added, to provide a (relative) Item identier inside a given Sequence \warning : some pb remaining around this number will be solved asap - AddEntry now takes the Item Number as a param * gdcmValEntry.cxx - adding a constructor taking a gdcmDocEntry as an input param 2004-06-14 Eric Boix * Memory leak hunt with the following command: valgrind --leak-check=yes --leak-resolution=high --num-callers=40 --show-reachable=yes gdcmTests PrintDocument It looks like many (all?) leaks are due to the STL (or a bad usage of the STL. The lines producing the leaks now have a comment with a "MEMORY LEAK" tag: you can retrieve them with grep "MEMORY LEAK" src/* Here are two typical examples which I can't help fixing: ----- #include int main() { std::string name; char * test = "babo"; name = test; //// <--- valgrind detects 960 bytes lost in //// call to std::string::operator=(char const*) name.clear(); //// Doesn't help ! return 0; } ----- #include #include int main() { std::string line; std::cout << "Type a bunch of characters followed by RETURN: "; getline(std::cin, line); //// <--- valgrind dectects a loss //// of 1320 bytes in call to /// std::basic_istream<>& std::getline<> return 0; } ----- 2004-06-10 Eric Boix * src/gdcmHeader.[cxx|h]: - Predicates on the Transfer syntax (of the form Is[JPEG|RLE]*) and related, moved away to gdcmDocument. - Accessors (on the form [Get|Set]Entry*) set up to expose publicly the corresponding protected accessors of inherited class gdcmDocument, removed ! As a consequence gdcmFile had to be declared friend of class gdcmDocument (see below). - operator< moved to gdcmDocument (in fact it belongs to gdcmDicomDir). - Clean up of undefined or unused methods. * src/gdcmFile.[cxx|h]: added SetEntryByNumber (in order to take into account the changes to gdcmHeader.h). * src/gdcmDocument.h: - gdcmFile is now a friend class (in order to take into account the changes to gdcmHeader.h). - Predicates on the Transfer syntax (of the form Is[JPEG|RLE]*) added (see changes to gdcmHeader.h). - Accessors (reading on the form GetEntry*) are now public. - Clean up of undefined or unused methods. * src/gdcmDocument.cxx: - adaptation to changes to gdcmDocument.h - ::OpenFile now writes a verbose message when file cannot be opened. - some std::string properly set to VRKey * src/gdcmDicomDir.h: historical references to gdcmHeader changed to references to gdcmDocument. * Test/TestFindTags.cxx: changed accordingly to above changes. * gdcmPython/testSuite.py: adapted to renaming of acr files in cvs repository gdcmData. 2004-06-09 Eric Boix * src/gdcmValEntry.h: member voidArea type changed from char* to void*. * src/gdcmBinEntry.h: member voidArea commented out, since it potentially conflicts with gdcmValEntry::voidArea. * src/gdcmValEntry.cxx: unmatching comment wiped out. * src/gdcmVR.[h|cxx]: added two predicates that partition the possible Value representation between StringRepresentable and BinaryRepresentable. * src/gdcmDocument.cxx: - method ParseDES: proper indentation restored and usage of gdcmVR::IsVROfGdcmStringRepresentable wired in. - method LoadDocEntry: the fingerprint left in the SetValue() of unloaded entries (length > MaxSizeLoadEntry) had curiously been removed. Reverting to previous code segment with the proper dynamic_cast< gdcmValEntry* >. Note: this was (partially) breaking the python test suite (gdcmPython/testSuite.py) that made usage of the above fingerprint to check presence of "Pixel Data". * src/gdcmDocEntry.h: coding style. * gdcmPython/__init__.py: environement variable GDCM_DATA_PATH is now taken into account. * gdcmPython/gdcm.i: adaptation to the new internal representation of gdcm (exit gdcmParser, hello gdcmDocument). * gdcmPython/testSuite.py: quick and dirty fix for loading vtkgdcmPython on posix. * gdcmPython/demo/PrintHeader.py: doesn't use the gdcmDocument::Print() anymore, but instead prints the loaded Python dictionary. * .... alas, the python testSuite is still broken. 2004-05-18 Benoit Regrain * gdcmPython/gdcm.i : remove useless lines concerning the gdcmGlobal gdcmGlob * gdcmPython/setup.py : replace the use of cvar.gdcmGlob to gdcmGlobal * src/gdcmUtil.h : export methods 2004-05-16 Mathieu Malaterre * Some more cleanup/enhancement in gdcmPython/CMakeLists.txt getting close to right behavior * Initial addition of automatic python testing * Initial addition of automatic image comparison 2004-05-04 Benoit Regrain * src/gdcmCommon.h, gdcmDicomDir.cxx, gdcmFile.cxx, gdcmHeaderHelper.h, gdcmParser.cxx, gdcmParser.h : bug fix for the Microsoft .Net compilation 2004-05-04 Benoit Regrain * src/gdcmFile.cxx, gdcmHeader.cxx : bug fix for the msvc compilation * Test/ShowDicom.cxx : bug fix for msvc compilation * vtk/vtkgdcmViewer.cxx : bug fix for msvc compilation 2004-05-04 Jean-Pierre Roux * ADD Taking into account the 'Dicom Sequences' leads up to introduce new concepts (and new classes) : a 'gdcmDocument' is composed of a set of Doc Entries, that are - elementary gdcmDocEntries (former gdcmHeaderEntries) - Sequence Doc Entries (gdcmSeqEntries) a Sequence is composed of Items. Each item is a set of Doc Entries (this is recursive) The non uniqueness of the 'Dicom tag' is due to this recursivity (never taken into account) Our unability to add a new 'entry' in the header at the proper location (neither in the H-Table (map or multimap), nor in the Chained List is also due to this recursivity. Don't try, right now, to use/modify/compile these new sources : nothing is finished. We just commit all the stuff, 'as is', in order not to loose it. 2004-05-04 Benoit Regrain * vtk/vtkGdcmReader.cxx : bug fix in the setting of file name 2004-05-03 Benoit Regrain * vtk/vtkGdcmReader.cxx : bug fix when loading a list of files using the file prefix (SetFilePrefix) 2004-05-02 Mathieu Malaterre * Add a new test: ShowDicom, for now this is just the c++ version of checkRead.sh, later it will be able to compare the image read against a baseline. * Replace the DEBUG on the stack with a global entry in cmake interface: GDCM_DEBUG, so you can turn verbosity ON/OFF for debug statement. 2004-04-30 Mathieu Malaterre * Add an example subdir, with a real example on how to read + write a dicom image 2004-04-30 Eric Boix * Doc/gdcmUML.xmi added raw UML class view (umbrello format) * Doc/CMakeLists.txt: the main page is now properly differentiated between the developper and user version. * Doc/doxygen.config.in: dropped search related obsolete flags * src/gdcmParser.h, gdcmHeader.h: doxygenation 2004-04-29 Eric Boix * DEVELOPPER: added some helpfull comments for compile/test/install when using cmake. 2004-04-29 Mathieu Malaterre * ENH: 1. Remove remp solution of gdcmTests.cxx+ gdcmMain directly in src directory, now generated in the build dir. 2. Tests as mentionned smarter 3. Some clean up 4. Add a new method in gdcmDict that return the PubDict by name this is interesting for 3rd party lib like ITK, where we could set the institution name / patient name... * ENH: 1. Now the test suite is working for real 2. All binaries are now output in the gdcm-bin directory (this was not true before) 2004-04-28 Jean-Pierre Roux * ENH add the provisional gdcmHeader::SQDepthLevel to allow SeQuence indented printing of Dicom Header. * ENH merge methods gdcmParser::Parse and gdcmParser::LoadHeaderEntries into the single gdcmParser::LoadHeaderEntries for efficiency purpose. Computation of SQDepthLevel is now part of gdcmHeader constructor * ENH add self defined param 'new' to PrintHeader to 'show' the SeQuence tree-like structure of a Dicom Header. * FIX Test code cleaning 2004-04-25 Mathieu Malaterre * ENH: Adding automatic testing 1. Need a DartConfig.cmake to submit to public 2. Add a test driver gdcmTest.cxx 3. gdcmTestMain, an helper for the main test driver gdcmTest 4. Files in Test don't have a main anymore, this becomes interesting when we add more and more tests, thus dsw don't have to load too many projects * ENH: Adding a GDCM_DATA_ROOT for testing * ENH: Remove redundancie about GDCM_DICT stuff, now we only need to modify one file instead of seven + some small cleanup 2004-04-22 Jean-Pierre Roux * ENH Minor changes to the Print() methods. * ADD gdcmParser::PrintEntryNiceSQ() to allow SQ-indented Header printing. Example given with : > PrintHeader fileName 2 new (SQ based tree-like structure still to be done for the Header ...) 2004-04-22 Mathieu Malaterre * ENH: Some cosmetic clean up for compilation with -W -Wall -Werror 1. I have added some unsigned where needed 2. Some function parameter not used -> (void) 3. In gdcmDicomDir.cxx, add GDCM_DICOMDIR_NONE case 4. g++ don't like character '\' in comment 5. #define jpeg_create_decompress jCreaDecompress this really need to be fixed 6. virtualize destructor of gdcmObject ... leakage 7. sscanf(g->first.c_str(),"%x",&gr_bid); this also really need to be fixed 8. gdcm/src/jpeg/libijg8/CMakeLists.txt, remove compression file (as we only do decompression, right ?) * ENH: Change malloc/calloc/free with c++ equivalent 2004-04-21 Jean-Pierre Roux * FIX gdcmHeaderHelper::GetXSpacing when a single value is found (bug ?), xpacing is now defaulted to yspacing 2004-04-19 Jean-Pierre Roux * ADD gdcmData/Wrist.pap (PAPYRUS 3.0 -single frame-) for checking purpose * ENH add parameters : bool exception_on_error = false, bool enable_sequences = false, bool ignore_shadow = false to the gdcmFile constructors to be full gdcmParser compliant * FIX vtk/vtkGdcmReader.cxx now uses enable_sequences = true in gdcmFile to allow reading of PAPYRUS 3.0 files 2004-04-06 Jean-Pierre Roux * ADD gdcmData/E00001S03I0015.dcm for SQ checking purpose 2004-04-02 Jean-Pierre Roux * ADD : Test/checksequence.sh, for a general recap on SQ pb * FIX : gdcmParser::WriteEntryTagVRLength emprovement of special treatement for Philips spurious Tag fffe|0000 while rewritting Dicom files 2004-03-30 Jean-Pierre Roux * FIX gdcmParser::ReplaceOrCreateByNumber shouldn't seg fault any more for ACR file, written out as DICOM files (hope so...) 2004-03-30 Eric Boix * src/gdcmParser.[cxx|h] and gdcmHeader.[cxx.h]: gdcmHeader::Write split in WriteEntryTagVRLength and WriteEntryValue. Those methods were moved to base class gdcmParser and only the specialisation is kept in gdcmHeader. * src/gdcmParser.[cxx|h]: ReplaceOrCreateByNumber(char*, guint16, guint16) trashed out (because ReplaceOrCreateByNumber(string, guint16, guint16) already does the job. * src/gdcmDicomDir.[cxx|h]: WriteDicomDirEntries renamed to WriteEntries (to be consistent with gdcmParser::WriteEntries). 2004-03-30 Benoit Regrain * vtk/vtkGdcmReader.[h|cxx] : fix the read of 3 gdcmHeader when making an upate of the object's instance. It's passed to 2 in the unfavorable case : one in the ExecuteInformation, one in the ExecuteData 2004-03-29 Jean-Pierre Roux * ENH : Check on file type to be written moved from gdcmParser::WriteEntry to gdcmParser::WriteEntries * FIX : gdcmObject::ResetBoundaries now stops properly when end-of-list is reached : gdcmVersion modified (as Benoit Regrain asked) 2004-03-29 Eric Boix * src/gdcmParser.cxx: removal of all TAB character. Indentation fixed. * src/gdcmUtil.cxx: added forgotten iostream include. * src/gdcmCommon.h: FileType enum entry DICOMDIR removed (since equivalent to ExplicitVR in existing code). 2004-03-27 Eric Boix * src/gdcmUtil.[cxx|h] split in two. Additional file gdcmGlobal.[cxx|h] now contains all the gdcmGlobal related code. * minor coding style and doxygenation changes. 2004-03-26 Eric Boix * src/gdcmUtil.[cxx|h] split in two. Additional file gdcmDebug.[cxx|h] now contains all the Debug related code. * minor clean-up of includes in src/*.cxx * src/gdcmUtil.[cxx|h] _cleanString C style function (replaced with CreateCleanString) removed. * src/gdcmUtil.[cxx|h] _CreateCleanString renamed to CreateCleanString * Doc/DoxyMainPageUser.txt added. * Doc/Doc/DoxyfileUsers updated to version 1.3.4 of Doxygen. * src/gdcmCommon.h now defines getcwd for Win32 (moved away from src/gdcmDirList.cxx) 2004-03-24 Jean-Pierre Roux * FIX a lot of little surface modifications to be doxygen 1.3.6 compliant 2004-03-23 Jean-Pierre Roux * FIX Now gdcmFile::SwapZone doesn't seg faults any longer for big endian made volumes * ENH Now gdcmParser constructor and destructor are protected to forbid end user to instanciate class gdcmParser (only gdcmHeader and gdcmDicomDir are meaningfull) 2004-03-22 Benoit Regrain * FIX : src/gdcmDicomDir.cxx : make windows compilable * FIX : gdcmPython/gdcm.i : change gdcmStudy to gdcmDicomDirStudy and gdcmSerie to gdcmDicomDirSerie 2004-03-19 Jean-Pierre Roux * ENH Now the tree-like structure describing a DICOMDIR comming from an already existing DICOMDIR file is consistent with the home-made tree-like structure build ex-nihilo or build from the files held (recursively) in a Directory functions gdcmDicomDir::CheckBoundaries() gdcmObject::SetBoundaries() added 2004-03-17 Jean-Pierre Roux * REM (Eric Boix bug) : removal of meaningless gdcmDicomDirImage::NewImage function. * FIX now file names and directory name are written properly in the DICOMDIR * FIX now gdcmDicomDir constructor may be call without any trick about the name 2004-03-16 Eric Boix * FIX (JPR bug) : src/gdcmDicomDirImage.cxx added missing definition of gdcmDicomDirImage::NewImage as empty function. 2004-02-28 Jean-Pierre Roux * ENH add gdcmDicomDir:NewPatient add gdcmDicomDirPatient:NewStudy add gdcmDicomDirStudy:NewSerie add gdcmDicomDirSerie:NewImage to allow making gdcDicomDir object. * ADD PrintDicomDir executable that uses gdcmDicomDir tree-like structure (as opposite to the gdcmHeader chained list) 2004-02-11 Benoit Regrain * FIX : memory leaks and the set of ArgDelete methods in gdcmDicomDir when using from python 2004-02-10 Benoit Regrain * FIX : bug fix in the gdcmDirList for the recursivity in directories * FIX : in gdcmDicomDir when the directory is empty * ENH : add callback and methods to get the progression of dicomDir directory parsing 2004-02-06 Jean-Pierre Roux * ENH : - now gdcmDicomDir::CreateDicomDir() returns also the meta elements - GDCM_META added to gdcmDicomDirType - class gdcmMeta created * ENH : - A brief summary is now displayed at the beginning of 'testDicomDir' to help disaster magnitude estimation * REM : Now useless Test/explDICOMDIR.cxx 2004-02-05 Benoit Regrain * ENH : add methods in gdcmObject to get the hash table or the list of header entries * FIX : wrapping python for ListPatient, ListStudy, ListSerie, ListImage * FIX : wrapping python for TagHeaderEntryHT 2004-02-04 Benoit Regrain * FIX : even length for some strings when writting the dicom dir * FIX : sort the images in the dicom dir * FIX : Bug fix for python use of dicom dir * ADD : a python demo 2004-02-04 Jean-Pierre Roux * FIX : Final solution (?) for icone embedded images * FIX : dicomVR.dic Overlay group is not *only* 6000, but 60xxx (see http://medical.nema.org/dicom/2003/03_06PU.PDF) add groups 6002, 6004, 6006, to allow 'clean' parsing of gdcmData/gdcm-MR-SIEMENS-16.acr1 * ENH add gdcmData/checkWriteExplicit.sh gdcmData/checkWriteImplicit.sh to make full checking easier 2004-02-04 Benoit Regrain * FIX : WriteEntries : coding style & logic in parameters * FIX : Set the elements to create the DicomDir in a dictionary file 2004-02-03 Benoit Regrain * gdcmDirList : to parse a hard drive directory in recursive (or not) * gdcmDicomDir : add the load of directory * Bug fix and print add-on 2004-02-03 Jean-Pierre Roux * ENH gdcmParser : allows "DICM" files, with NO group '0002' * FIX handling 'non string elements' unsecure area (LUT, overlays, etc) * FIX Dicts/dicomV3.dic : Add a few missing 'group length' Elements * FIX gdcmParser.cxx : 'group length' elements are now considered as integers, even for shadow groups, when file is Implicit VR 2004-02-02 Jean-Pierre Roux * FIX : gdcmWrite : equal_range() for multimap doesn't return a 'second' iterator on last of the last synonym :-( * FIX : gdcmWrite::WriteBase : method stops if Pixels not yet Read (except for DICOMDIR ;-) * ENH gdcmData/checkWrite.sh :modif for full check of Explicit VR writting * FIX taking into account the possible 7fe0,0010 multiplicity * FIX add GRPixel,NumPixel,countGrPixel (gdcmParser protected members) to allow removal of references to 7fe0,0010, to deal with ACR-NEMA images, when 0028,0200 is meaningfull 2004-01-31 Jean-Pierre Roux * FIX gdcmParser::WriteEntries : when a VR is tagged as 'Unknown' no longer writes 'Un' on disk * FIX SQ elements with actual length are now dealt with corectly * FIX gdcmFile::WriteBase make the difference, for color images, between the length (for Palette expanded images) and Raw Length (non expanded image + Palette) * FIX Dicts/dicomV3.dic : removal of 'CTX' (context dependant) VR (that broke Write). Replaced by UL. Aware user will reload the field if he thinks it's necesssary 2004-01-30 Jean-Pierre Roux * gdcmParser::CheckSwap() now defaults the filetype to ACR when 'dirty Acr' is found, to be compliant with the new IsReadable() methods. * gdcmHeaderHelper :add Pixel Type 'FD', for dealing with 'double' images. (no DOUBLE images in kosher DICOM, but so usefull for people that miss them ;-) * add Test/testDicomDir.cxx, Test/makeDicomDir.cxx , Test/explDICOMDIR.cxx DICOMDIR related utilities (not checked as Windoze compliant) 2004-01-28 Jean-Pierre Roux * upgrade GdcmHeaderEntry Print Method for DICOMDIR 2004-01-27 Jean-Pierre Roux * gdcmParser constructor has a new boolean param,'ignore_shadow', to allow skipping the shadow elements, to save memory space. The TRUE value for this param has to be used with a FALSE value for the 'enable_sequence' param. ('public elements' may be embedded in 'shadow Sequences') * gdcmHeader methods now deal with 'embedded icones images' in the header (even when an 'icone image sequence' is announced by the element (0x0088,0x0200), but there is NO icone at all ... * gdcmHeader sometimes Image Location value doesn't follow the supposed processor endianity (see gdcmData/cr172241.dcm). Fixed * gdcmHeader add the method IterHT GetHeaderEntrySameNumber(grPixel,numPixel); to get *all* the Header Entries with the same tag. GetHeaderEntrySameName is probabely *useless* (no meaning : Name is *not* an identifier within the Dictionary) 2004-01-26 Benoit Regrain * Bug fix in the print of hexadecimal representations. Remove long fields in the print and add a third level of print to print them 2004-01-23 Benoit Regrain * Bug fix on field having a VR = 'UI'. Assume that is a string field * Bug fix on test suite after remove the strip made on not string fields * Split the IsReadable method between gdcmParser which test that the file is dicom and gdcmHeader which test that it's an image file 2004-01-22 Benoit Regrain * DicomDir : clean code, add methods, set variables in protected or private * gdcmUtil : bug fix for the clean string method 2004-01-19 Benoit Regrain * Add the use of shadow dictionaries * bug fix and coding style 2004-01-19 Benoit Regrain * src/gdcmFile.cxx : bug fix concerning the close of file * src/gdcmParser.[h|cxx] : remove obvious Pub informations * Add the update of header entries using the shadow library 2004-01-19 Benoit Regrain * removal of file gdcmHeader2.cxx * split class gdcmHeader into gdcmParser and gdcmHeader, with gdcmHeader inheriting from gdcmParser. This split is to prepare the integration of dicom dir parsing * bug fix under python 2004-01-16 Jean-Pierre Roux * REM removal of class gdcmHeaderEntrySet * REM removal of files gdcmHeaderEntrySet.cxx, gdcmHeaderEntrySet.h * ADD add file gdcmHeader2.cxx * ADD add method gdcmHeader::SetPrintLevel (for PrintHeader) 2004-01-15 Benoit Regrain * src/gdcmDicSet.[h|cxx] : add virtual entries to have a reference of entries created while parsing the header. Thus, they will be destroyed when the gdcmDictSet will be destroyed * src/gdcmHeader.cxx, gdcmHeaderEntrySet.cxx : uses virtual entries of gdcmDictSet 2004-01-15 Benoit Regrain * vtk/vtkGdcmReader.cxx : bug fix : before, with python only, the program made a fatal error because of the memory release at the end of program. The problem was in vtkGdcmReader::ExecuteData where we were allocate some memory and vtk seems to have some problems with that. * src/gdcmHeaderEntrySet.cxx : bug fix for std lib and cout 2004-01-14 Benoit Regrain * src/gdcmHeaderEntry.[h|cxx] : gdcmElValue -> gdcmHeaderEntry * src/gdcmHeaderEntrySet.[h|cxx] : gdcmElValSet -> gdcmHeaderEntrySet * src/*.[h|cxx] : make changes due to class name changes * gdcmPython/demo/*.py : bug fix due to method names 2004-01-13 Benoit Regrain * src/*.[h|cxx] : coding style * vtk/*.[h|cxx] : coding style 2004-01-13 Benoit Regrain * gdcmPython/testSuite.py : test the readable flag of file for tests * src/gdcmDict.cxx, gdcmElValSet.cxx : bug fix under windows for prints. It's lied to the stl compilation by MSVC (windows, always windows...) * src/gdcmIdo.h, gdcmHeaderIdo.cxx : remove the Ido unused files 2004-01-12 Benoit Regrain * src/*.h : add comments * src/gdcmDictSet.h : set the method BuildDictPath in public * src/gdcmTS.cxx, gdcmVR.cxx : use now a dictionary file other than to be directly setted in the source code * Dicts/dicomTS.dic, dicomVR.dic : 2 new dictionary files loaded by gdcmTS and gdcmVR 2004-01-09 Benoit Regrain * gdcmPython/gdcmVersion.py : add a gdcmVERSION variable information * setup.py : use a reference to gdcmVERSION 2004-01-07 Benoit Regrain * Modification to compile with the distutils. * Bug fix in code 2003-12-10 Benoit Regrain * gdcmHeader is now aggregating gdcmFile, and not derived into. Thus, we can use a gdcmHeaderHelper to load data * gdcmPython/testSuite.py : make the testSuite compliant with modifications made in the source code 2003-12-10 Benoit Regrain * Update Windows projects and .cvsignore files 2003-11-12 Jean-Pierre Roux * ENH gdcmHeader constructor has one more parameter (default value : false) that allows the user to 'go inside' the SeQuences only if he wants to. gdcmElValSet:Print takes it into account 2003-11-12 Mathieu Malaterre * ENH: Update gdcmPython/CMakeLists * FIX: (gdcmHeaderHelper) GetRescale and GetSlope * FIX: (gdcmElValSet) char 'tag' was overiding private members (VC++) 2003-11-10 Jean-Pierre Roux * FIX : gdcmHeader::LoadElements is now based on the ListTag listElem member, not longer on the TagElValueHT tagHt member * ENH : PrintPubElVal shows (temporarily) both results, with the tagHt member and the listElem member. (it's easier to 'see' the problems when using Printheader) * FIX : old private member LgrElem is now splitted into ReadLength : Length actually found on disk (updated only if bug fixing is necessary), for internal use only UsableLength : Updated by FixFoundLength, to fix a bug or to allow Parser going on. Will allow to re-write a kosher header when a SeQuence with a length (not 0000) is found Warning : gdcmFile::Write still uses the TagHt (not ListElem) because gdcmElValSet::Add does not update ListElem (to be written) 2003-11-07 Jean-Pierre Roux * FIX misstyping in Transfert Syntax name table * ENH gdcmHeader::FixFoundLength now allow to 'go inside' tge SeQuences when they have an actual length (not 0000 nor FFFFF) (Nobody should care of it, but DICOMDIR explorers) 2003-11-06 Mathieu Malaterre * ENH: vtkgdcmViewer now works with LUT dicom (OT-PAL-face ...) 2003-11-05 Mathieu Malaterre * ENH: vtkGdcmReader now supports LUT ! (vtkgdcmViewer for now is not able to use them though) 2003-11-05 Jean-Pierre Roux * in testSuite.py : new files names for checking the package * FIX : Forgot to commit gdcmFile::GetImageDataSizeRaw(); that returns the pixel area size to the *aware* (vtk) user that DOESN'T want to turn the PALETTE COLOR image into an RGB image 2003-11-05 Benoit Regrain * in testSuite.py : Modify the rules for checking the paths : Explicit error messages * in __init__.py : Related modif 2003-11-03 Jean-Pierre Roux * add gdcmHeaderHelper::GetNumberOfScalarComponentsRaw() to be used by aware (vtk) users that want to manage LUT (and no to turn the PALETTE image into an RGB pixels one) * GetPixelType now returns 8U for 24 Bits images (vtkGdcmReader compliant) 2003-10-31 Jean-Pierre Roux * Removal of *all* gdcmData images and add them again in order to loose the 'history' of un-anonymised images 2003-10-31 Jean-Pierre Roux * RMV : removal of useless jBitsInJsample.h for both 8 and 12 Bits JPEG Lossy Libraries 2003-10-31 Jean-Pierre Roux * ENH : Add the functions gdcmFile::GetImageDataRaw gdcmFile::GetImageDataIntoVectorRaw that act as GetImageData and GetImageDataIntoVector except the making of an RGB Plane from Gray Plane + LUT Intended to aware (vtk) users who know how to manage such an image : After gdcmHeader : GetLUTRGBA return a R,G,B,A LUT if any lgrTotaleRaw gives the 'Raw' length GetImageDataRaw returns the gray Plane * FIX : no more dirty trick for 'Segmented xxx Palette Color Lookup' images (They stay Grey, just like with other Dicom viewers :-( 2003-10-30 Jean-Pierre Roux * FIX : a VC++ intended syntax modif broke the 12/12 Bytes expanding 2003-10-29 Mathieu Malaterre * ENH: Can be used like this '$vtkgdcmViewer *.dcm' with *.dcm being coherents dicom files. 2003-10-29 Mathieu Malaterre * FIX: DOH ! Forgot about windo$e users, they couldn't read lossless jpeg, from medcon lib ! * ENH: Turn it into DOS file type to match libgdcmijpeg8.dsp file type * ENH: Two steps is necessary to please VC++ compiler... * FIX: DOH ! libgdcmijpg8 -> libgdcmljpeg * ENH: Add include dir to medcon lib * FIX: only one function is being exported for now ! You should use GLOBAL(return type) see ljpg/jpeg.h for more info 2003-10-29 Jean-Pierre Roux * adding gdcmHeader::GetLUTRGBA returns a 4 * 256 Bytes Reg/Green/Blue/Alpha vtk compliant LUT --> Mathieu, the modif u're waiting for is not yet committed * removal of now useless GetLUTRed,GetLUTGreen,GetLUTBlue,GetLUTRGB 2003-10-27 Jean-Pierre Roux * adding some xmedcon breaker files (courtesy of Loïc Boussel) 00191113.dcm DermaColorLossLess.dcm MxTwinLossLess.dcm RadBWLossLess.dcm * ENH: For version prior to vtkImageViewer2 -r 1.19 * FIX: avoid pb with xmedcon-breaker CT McTwin Elscint images 2003-10-27 Mathieu Malaterre * Removal of ido stuff in CMakeLists.txt 2003-10-24 Mathieu Malaterre * ENH: vtkGdcmReader.cxx can now read multiframe dicom * FIX: remove a call to ->Modified ... see comments * FIX: vtkgdcmViewer.cxx was writting ASCII file...this is so slooooow ! 2003-10-23 Mathieu Malaterre * FIX: Problem with path for libvtkgdcmPython * ENH: Try adding a search script for python site-package * RMV: Remove some file from medcon lib that are not necessary * FIX: gdcm/Makefile.am fix for generating ljpg medcon * ENH: CMakeLists.txt now generate 'pygdcm.so' instead of 'libpygdcm.so' * FIX: More pragma disable fro VC++, I don't think I break something as it is also disable in VTK/ITK. But it fasten debug compilation time. 2003-10-23 Jean-Pierre Roux * gdcm now deals with 16 Bits Run Length Encoded images (they are compressed as 2 planes images, one for the high Bytes, the other for low Bytes) 2003-10-22 Jean-Pierre Roux * Now CheckRead takes into account : - the bugged 'Leonardo' Siemens images - the XA images, sent thru the burning VPRO station * add I9000001.dcm, a GE dlx XA image, thru the VEPRO burning station (breaks DicomWorks) 2003-10-22 Mathieu Malaterre * FIX: When copying a Makefile.am to CMakeLists.txt one should remove the '\' 2003-10-22 Jean-Pierre Roux * in gdcmData adding a bugged 'Leonardo' Siemens image (wrong lengths in header) OK with gdcm, KO with the other viewers :-) * add a GE dlx XA image, thru the VEPRO burning station (breaks DicomWorks) 2003-10-21 Jean-Pierre Roux * in gdcmData add the checkvtkgdcmViewer.sh shell script for a brutal checking of vtkgdcmViewer compliance 2003-10-21 Jean-Pierre Roux * add the files for 'xmedcon' Jpeg Lossless library * call of 'xmedcom' Jpeg Lossles libray (instead of the old LibIDO one) 2003-10-21 Jean-Pierre Roux * 'Compacted Files' (12 Bits Allocate, 12 Bits Stored) are now dealt with 2003-10-21 Jean-Pierre Roux * garbage Siemens 'Leonardo' images dealt with (the patch is easy to remove) * cosmetic changes to avoid warnings 2003-10-20 Mathieu Malaterre * ENH: vtkgdcmViewer now autoscale color/window level on start-up, no need to press 'r' now. 2003-10-20 Jean-Pierre Roux * upgrade of checkRead.sh checkWrite.sh according to new Jpeg Lossless decompressor * add US.3405.1.dcm, a genuine RGB medical file ... * add gdcm-ACR-LibIDO.acr, unnormalized Rectangular LibIDO format image * add CLIP0001-Sequoia-U11.dcm, US 'Clip', from SEQUOIA machine, UNIT 11, Hop Cardio 2003-10-15 Jean-Pierre Roux * general anonymisation in gdcmData * adding the 'color files' from http://www.leadtools.com/SDK/Medical/DICOM/ltdc19.htm * adding some well knowed bugged-header images * adding checkRead.sk, checkReadColor.sh, checkWrite.sh, waiting for their inclusion in Python testsuite 2003-10-15 Jean-Pierre Roux * gdcmHeader::gdcmHeader(const char *InFilename, bool exception_on_error) no longer seg faults when file is not found 2003-10-14 Jean-Pierre Roux * Emprovement of reading for Dicom encapsulated Jpeg LossLess MultiFrame images 2003-10-14 Mathieu Malaterre * TODO: *.in file to genereate a UseGDCM later 2003-10-14 Jean-Pierre Roux * Some supposed-to-be Dicom Images have no preamble. OpenFile takes it into account * Jpeg LossLess 24 Bits images doesn't break any longer gdcm * Missing elements added in dicomV3.dic (just to be affraid : have a look at ftp://medical.nema.org/medical/dicom/2003/01v03dif/01v03_06.pdf and do it again next year ;-> 2003-10-13 Jean-Pierre Roux * According to PS 3.3-2003 C.11.1.1.2 p 619, when each pixel of a PALETTE COLOR is stored on 2 Bytes, theese 2 Bytes must be equal. But there are NOT. It's fixed ! 2003-10-13 Mathieu Malaterre * FIX: "jpeglib.h" was not found on VC++ * FIX: vtkgdcm was not being installed 2003-10-10 Jean-Pierre Roux * ENH : OpenFile closes the file if it *really* doesn't look like an ACR-NEMA / DICOM one. * FIX : testWrite no longer writes an empty file if the source file is not gdcm Readable * ENH : One more JPEG LossLess type "JPEG Baseline (Process 14)" is now decoded. 2003-10-10 Mathieu Malaterre * FIX: CMake generate now documentation * ENH: out of source doc build ! * ENH: Generate both user and dev documentation * ENH: Should work on windows too * ENH: Only one doxygen config.in file is needed * FIX: make install should be ok now on ùnix plateform * FIX: PATH to dictionary was wrong (missing /) * ENH: OpenFile, return true if the file looks like an ACR or DICOM file 2003-10-09 Mathieu Malaterre * vtkGdcmReader is now able to read rgb dicom file. * src/gdcmHeaderHelper : GetNumberOfScalarComponents() * added a gdcmViewer to vtk test, use mouse to control window level & window width 2003-10-09 Mathieu Malaterre * CMake-ification of gdcm, we have now two build system * FIX: on cygwin Wsock32 doesn't exist * FIX: force jpeg dir to the local one (gdcm/src/jpeg) 2003-10-06 Emanuel Ollart * FIX : compilation process wad broken. Changed gdcmViewer_sources to vtkgdcmViewer_sources 2003-10-06 Mathieu Malaterre * change gdcmViewer -> vtkgdcmViewer * change GetXSpacing and GetYSpacing "%f\\%" is parsed backward 2003-10-06 Jean-Pierre Roux * FIX :A few nasty patches to allow the reading of a lot of nasty images ( e.g : well known GE images with a wrong elem length, : Philips MRI Images with a wrong Huffman table) * still to be done : allow the reading of bugged LEONARDO Siemens images 2003-10-03 Jean-Pierre Roux * Odd length strings are padded with '\0' (not with spaces, to remain compliant with already defined strings, like Transfert Syntax UID and others) 2003-10-03 Jean-Pierre Roux * ENH :gdcmHeaderHelper::GetNumberOfScalarComponents() added, to allow displaying RGB images (not only by affim ;-) 2003-10-03 Mathieu Malaterre * vtkGdcmReader is now able to read rgb dicom file. * src/gdcmHeaderHelper : GetNumberOfScalarComponents() 2003-10-03 Jean-Pierre Roux * A few nasty patches to allow the reading of a lot of nasty images ( e.g : well known GE images with a wrong elem length, : Philips MRI Images with a wrong Huffman table) * still to be done : allow the reading of bugged LEONARDO Siemens images 2003-10-03 Jean-Pierre Roux * One more JPEG LossLess type "JPEG Baseline (Process 14)" is now decoded. 2003-10-03 Jean-Pierre Roux * gdcmHeaderHelper::GetNumberOfScalarComponents() added, to allow displaying RGB images (not only by affim ;-) 2003-10-03 Jean-Pierre Roux * gdcmFile::GetImageDataIntoVector now - deals with MultiFrames MultiFragments Run Length Encoded files - deals with YcBcR (YBR_FULL) files - deals with YBR_YBR_FULL_422 files (they work as RBG files ?!?) WARNING : nothing was checked for YBR_PARTIAL_422, YBR_ICT, YBR_RCT files. (no sample found :-( 2003-10-02 Mathieu Malaterre * src/*.cxx removed pragma thingies to src/gdcmCommon.h Two reasons: - clear things - third parties acces gdcm through header files, so won't suffer anymore VC++ complains 2003-09-30 Mathieu Malaterre * add argv[1] in testvtkGdcmReader.cxx * removed leaks 2003-09-24 Jean-Pierre Roux * The lines are now eigthy characters long.for gdcmHeader.cxx gdcmHeaderHelper.cxx gdcmParse.cxx 2003-09-22 Benoit Regrain * src/gdcmUtil.[cxx|h] : change the _CreateCleanString return value from char* to std::string. Thus, the use of strdup becomes useless. (see previous commis of Malaterre) * src/gdcmElValSet.cxx : reuse commented call to _CreateCleanString like before the last Malaterre's commit. 2003-09-19 Mathieu Malaterre * This commit should fix the Debug building under VC++, the problem was mainly a mixture of debug and release lib being loaded at startup. * I also remove a depency to a specific C function: strdup. Because I had to force the link to msvcrtd (whereas strdup is in libc). 2003-09-16 Benoit Regrain * "gdcm::Unfound" string changed to a constant variable (GDCM_UNFOUND) located in the gdcmCommon.h file. All use of reference of tha has been changed to now use the variable GDCM_UNFOUND. 2003-09-16 Eric Boix with JPR * Cosmetic changes: - gdcmPython/testSuite.py adapted to the JPR updated Dicts/dicomV3.dic Dicom dictionary. The test suite can now be run again. Note: I'm note very happy with the " (RET)" changes. I believe this RETAINED comment should be dropped when parsing the dictionary. - PACKAGER corrected - DEVELOPPER added. - AUTHORS updated and now in alphabetical order * Makefile.am now exports gdcm.dsw for Windoze users. 2003-09-11 Mathieu Malaterre * cygwin complains about missing std:: in subdir Test/ 2003-09-10 Mathieu Malaterre * remove some methods that are now in gdcmHeaderHelper 2003-09-10 Mathieu Malaterre * vtkGdcmReader set spacing and origin correctly 2003-09-09 Mathieu Malaterre * Fix a few delete/delete[] mismatch 2003-09-08 Mathieu Malaterre * src/gdcmHeaderHelper.[h cxx]: added new class that provide an interpretation to data given by gdcmHeader. For instance there are heuristics to get informations (look at different places). * it also include a specific class: gdcmSerieHeaderHelper devoted to sorting DICOM images based on different strategies. * modified Makefiles accordingly. 2003-09-05 Mathieu Malaterre * src/*.cxx : added pragma disable 4786/4251 to get rid of ~4300 warning when building in debug mode * vtk/win32/vtkgdcm.dsp : change /MT -> /MD and /MTd -> /MDd to match src/win32/gdcmdll.dsp * vtk/win32/vtkgdcm.dsp : added /nodefaultlib "mscvrt" for debug mode 2003-08-29 Mathieu Malaterre * Corrected a leak in vtkGdcmREader.cxx, the pSource was find thanks to valgrind. 2003-07-29 Mathieu Malaterre * src/win32/libgdcmjpeg12.dsp was not dos format * src/win32/libgdcmjpeg12.dsp : libgdcmijpeg12_EXPORTS -> LIBGDCMIJPEG12_EXPORTS * src/win32/gdcmdll.dsp: + /I "..\jpeg\libijg12" 2003-07-29 Benoit Regrain * src/gdcmHeader.h : add std:: prefix for stl elements... like others in the file * src/gdcmFile.cxx : bug fix in affectation type * src/jpeg/libijpeg12/jmorecfg12.h : export for windows modified... like in src/jpeg/libijpeg8/jmorecfg8.h (JPR : copy/paste exists !!!) * Modifs of MVSC projects to compile them. Not concerning 2 identic symbols... future problem ? 2003-07-29 Mathieu Malaterre * src/win32/libgdcmijpeg12.dsp was missing * modified gdcm.dsw accordingly 2003-07-28 Mathieu Malaterre * src/gdcmHeader.cxx : misplaced return 0.; for ACR/NEMA 2003-07-24 Benoit Regrain * src/jpeg/libijg12/.cvsignore, jconfig.* : ommited files while last commit of JPR (before his hollidays to facilitate our work). * setup.py : bug fix in code. Modifications made while the last commit of JPR. The code hasn't been tested before the commit... it's so useless to make that (for best programmer that is JPR) !!! 2003-07-08 Eric Boix * tagged the current version as Version0_3 (i.e. version 0.3) 2003-07-08 Benoit Regrain * vtk/testvtkGdcmReader.cxx : remove a symbol that is unused * src/jpeg/libijg8/jmorecfg.h : adding export symbol for windows * *.dsp : modifications to use new libgdcmijpeg8 library * setup.py : bug fix on VTKPATH variable * PACKAGER : adding all concerning windows 2003-07-07 Eric Boix * src/gdcmElValSet.cxx, gdcmFile.cxx: JPR bug fix, removal of garbage debug code. * TODO, vtk/vtkGdcmReader.cxx: upcoming fixes comments. * gdcmPython/testSuite.py: JPR bug fix, brutal erasement of test suite reported error. * PACKAGER file added (describes what a packager must do when packaging a new release). * MANIFEST.in, now declares jconfig.linux and jconfig.vc * configure.in: upgraded version number to 0.3.0 * fixing build of rpm (through rpm -ta): - Doc/Makefile.am exports proper doxygen files - src/jpeg/libijg8/Makefile.am exports the include files. 2003-07-07 Benoit Regrain * vtk/vtkGdcmReader.cxx : bug fix when loading only 1 file. * src/gdcmHeader.h : formatting code 2003-07-07 Benoit Regrain * vtk/vtkGdcmReader.[cxx|h] : bug fix when loading only one file. We were obtaining error message from vtk. Now, creation of file list is made in an internal list to prevent this problem. Bug fix when output is empty. Bug fix in update of progress value. Previous commit for this was a bad correction. * vtk/vtkGdcmReader.h : adding comments for InternalFileNaleList variable 2003-07-04 Benoit Regrain * src/gdcmHeader.h : added method to get the file name * vtk/vtkGdcmReader.[cxx|h] : bug fix concerning loading of bad dicom files. Added method to remove all files on the input Added FIXME comment concerning the bad parsing of header made by ExecuteInformation method (in ExecuteData method) 2003-07-03 Eric Boix * vtk/Makefile.am: vtkGdcmReader.h should now be cleany installed when using make instal. * src/gdcmFile.cxx : bug fix under Window after JPR commit RQ : the JPR doesn't appear in the ChangeLog... normal for him 2003-07-03 Benoit Regrain * setup.py : adding include dir of jpeg lib to compile all sources * */Win32/*.dsp : JPR fix for windows compilation 2003-07-02 Benoit Regrain * src/jpeg/libijg8/jconfig.* : JPR bug fix : now compile on both linux and WINDOWS ! * src/gdcmJpeg.cxx : JPR bug fix : erroneous include * src/win32/gdcmdll.dsp : JPR fix for windows compilation 2003-07-02 Eric Boix * setup.py is again effective on un*x (takes into account the addon of the jpeg library) * Doc/DoxyDevelInstal.txt added (developper's raw documentation) * Doc/Doxy* updated (includes above enhancements) * INSTALL now points to web documentation 2003-07-01 Eric Boix * src/gdcmHeader.h doesn't make unnecessary reference to gdcmUtil.h anymore. * gdcmPython/Makefile.am now avoids calling the wrappers for the clean target. * src/gdcm*.[cxx|h] : - to allow compilation with gcc 3.x -- clean up of STL usage (added explicit usage of std::) -- small fixes on exceptions. Note: linking not tested ! - clean of doxygen comments to avoid warnings at documentation building stage. * vtk/vtkGdcmReader.cxx: g++ warning message clean up (platform dependent convertion). 2003-06-20 Eric Boix * Clean up of previous JPR garbage commit (not even commented in the Changelog): - Test/Makefile.am removed the reference to unexisting testTS.cxx - moved all jpeg related files from src to src/jpeg/libijg8, with addition/modification of Makefile.am and configure.in. - the testSuite is still brain damage (not guilty). 2003-06-02 Benoit Regrain * WrapVTK.py : modifications to get correctly vtk source files to compile * vtk/vtkGdcmReader.cxx : modification for an already existing name (FileName -> Filename) 2003-06-11 Eric Boix * vtk/vtkGdcmReader.[cxx/h]: - UpdateProgress method should now be effective - removed the limitation on having only images loaded (as opposed to volumes), - when building a stack of images/volume, a lesser number of gdcmHeader and gdcmFile instances should be used (hopefully accelerating things). - when building a stack of images/volumes, files which are not loadable (wrong path-filename, wrong permissions on existing file, or file not parsable by gdcm) are replaced with a black image in the stack (for the caller to notice the problem). 2003-06-03 Eric Boix * vtk/vtkGdcmReader.cxx: hopefully corrected Z extent. 2003-06-02 Benoit Regrain * vtk/vtkGdcmReader[cxx|h] : makes correct code to remove conflicts between standard library (std) and vtk library (problems are found under Windows... thanks Windows !) 2003-05-30 Eric Boix * vtk/vtkGdcmReader[cxx|h] should now be volume aware (read ready for debug stage). * gdcmPython/demo/vtkGdcmReader.py: commented lines for volume test 2003-05-29 Eric Boix * vtk/vtkGdcmReader[cxx|h] preparation addons for loading volumes. 2003-05-28 Eric Boix * When compiling with distutils (see setup.py) the C++ compiler is called with different flags than the default ones (with automake). In order to fix all those warning, I compiled gdcm with the command make 'CXXFLAGS=-Wall -Wstrict-prototypes -D__STDC_LIMIT_MACROS' and went for warning fixes: - src/gdcmHeader.cxx, Test/dcm2acr.cxx, pourFindTaggs.cxx cleaned up from unused variables. - vtk/vtkGdcmReader.cxx: potential bug fix. * src/gdcmHeader.h: Doxygen warning cleanup 2003-05-27 Eric Boix * gdcmPython/gdcm.i: - typemaps correction to take into account the systematic replacement of "using namespace std" with std:: prefix e.g. std::list, std::string... (cf changes of 2003-05-21). - gdcmGlob global variable of type gdcmGlobal (defined in src/gdcmUtil.cxx and declared in gdcmPython/gdcm.i) is now exported to Python a as cvar. * gdcmPython/__init__.py now defines two functions GetPubDictTagNames() and GetPubDictTagNamesByCategory() as a replacement for deprecated gdcmDictSet.GetPubDictTagNames() and gdcmDictSet.GetPubDictTagNamesByCategory() class functions (i.e. C++ static methods). * gdcmPython/demo/printGroupedPublicDict.py is operational again, with the above changes. 2003-05-22 Benoit Regrain * setup.py, manifest.in : bug fix under linux 2003-05-22 Benoit Regrain * Modification of setup.py to compile vtk part too. Then, we have 2 wrappers which must work with same distutils. For that, we have a generic distutils in distusiltsWrapping.py ; with : - build_extWrap class to wrap generically all extensions, - ExtensionWrap base class for all wrapping extension that contains a wrapper - Wrapper interface which wrap sources + In WrapSwig.py we have extension and wrapper for Swig + In WrapVTK.py we have extension and wrapper for VTK * MANIFEST.in : modifications to consider vtk directory and new python files for compilation 2003-05-21 Eric Boix with Benoit Regrain * Added python wrappers of vtkGdcmReader vtk class (see the source in vtk/vtkGdcmReader.cxx) : - vtk/Makefile.am now builds a library - gdcmPython/Makefile.am now builds vtkgdcmPython a second import python library (as opposed to _gdcm.so wich are the python wrappers of gdcm). vtkgdcmPython.so uses the vtk python wrappers (vtkWrapPython and vtkWrapPythonInit utility) to build vtkgdcmPython import library. - configure.in has an additional flag --enable-vtk that needs to be set to enable compilation of vtk related code, that is: + vtk/vtkGdcmReader.so and + vtk/testvtkGdcmReader C++ demo of vtk wrappers of gdcm) + gdcmPython/vtkgdcmPython.so (see above) - gdcmPython/demo/vtkGdcmDemo.py corrected (some images cannot be read when compressed or when HighBit + 1 != BitsStored), - gdcmPython/demo/vtkGdcmReader.py added. This demo illustrates the usage of the python wrapper of vtkGdcmReader vtk class. * vtk/vtkGdcmReader.cxx: bug fixed (thanks to Benoit Regrain). * src/*.[h] all occurences of stl classes are now prefixed with std::, and all occurences of "using namespace std;" where removed. This is to avoid pollution of global namespace in included files. Apparently vtk does not avoid this pitfall: when using both gdcm and vtk (as in vtk/vtkGdcmReader.cxx) this ended up in a collision of various stl members (principally cout...). * gdcmPython/testSuite.py now cleanly removes temprory generated file. * gdcmPython/gdcm.i now declares a typemap for std::string (to comply with above changes) 2003-05-12 Eric Boix with JPR * src/gdcmHeader>[h/cxx] added gdcmHeader::GetPixelSize() * vtk/vtkGdcmReader.cxx now properly inports the image in the vtk data structure (an image Flip was required). * vtk/testvtkGdcmReader.cxx refers to gdcmData subdir instead of Data. * cosmetic changes in documentation. 2003-05-7 Eric Boix with JPR * src/gdcmHeader.cxx: the constructor no longer exits when an unexisting file is given as argument. * The subdirectory Data (containing all the images used for the test suite) is not part of this repository anymore. A new module containing those images is now available at :pserver:xxx@cvs.creatis.insa-lyon.fr:2402/cvs/public with the name gdcmData. All the python scripts (including the package initialisation file gdcmPython/__init__.py) were adapated to take this change into account (basically GDCM_DATA_PATH is now GDCM_TEST_DATA_PATH). 2003-05-5 Eric Boix with JPR * vtk subdir added. Contains vtkGdcmReader.[cxx|h] a vtk class inherinting from vtkImageReader and testvtkGdcmReader.cxx a small demo of the usage of this class. Compilation of this vtk part is only done when using the --enable-vtk at configure (or autogen.sh) stage. 2003-04-16 Eric Boix with JPR * More memory link related corrections and documentation fixes. Notes on valgrind: - maximum info is obtained with a command of the form: valgrind --leak-check=yes --leak-resolution=high --num-callers=40 --show-reachable=yes PrintHeader - the remaining reachable blocks seem to come from the STL allocation scheme through the usage of map and list. It looks like this memory cannot be freed but it is not a memory leak (in fact further invocation to the STL would recollect the unused memory allthough it cannot explicitely be freed). * gdcmPython/demo/vtkGdcmDemo.py added: this is a small demo of displaying an image parsed with gdcm and displayed with VTK. Note: some images don't seem to work e.g. python vtkGdcmDemo.py ../../Data/US-RGB-8-esopecho.dcm * src/gdcmHeader.x: dicom_vr and Dicts are not class members anymore. Allthough this weakens the semantics, it is a ditch attempt to make gdcm more thread friendly. 2003-04-15 Eric Boix with JPR * Memory link hunt (by using valgrind through the command valgrind --show-reachable=yes --leak-check=yes PrintHeader). - added src/gdcmVR.cxx gdcmVR.h that objectify the previous gdcmHeader::_dicom_vr. - gdcmHeader::InitVRDict transfered as gdcmVR::gdcmVR(). - gdcmHeader::dicom_vr is now of type gdcmVR* as opposed to VRHT*. - gdcmGlobal global object contained class added (see src/gdcmUtil.x) 2003-04-9 Eric Boix with JPR * src/Makefile.am now exports all the necessary include files at make install stage. 2003-04-9 JPR * UpdateGroupLength replaced by new one 2003-04-7 JPR * UpdateGroupLength re-written using H-Table (named UpdateGroupLengthNew untill checks are over) 2003-04-7 Eric Boix with JPR * Data/im_00001 renamed to gdcm-MR-PHILIPS-16-Multi-Seq.dcm * gdcmPython/testSuite.py now include a test of gdcmFile::Write. * src: - gdcmHeader::GetPubElValSet removed. - gdcmElValSet::WriteDcm, WriteAcr, WriteExplVR, revamped to UpdateGroupLength, WriteElements, Write. - gdcmHeader::FileType moved to gdcmCommon.h. The enum FileType doesn't contain TrueDicom anymore since ExplicitVR and ImplicitVR carried the same semantics. - src/gdcmHeaderIdo.cxx changed accordingly. - gdcmFile::WriteBase now regroups all the codes from previous versions of WriteDcm, WriteDcmImplVR, and WriteACR. - enum FileType moved to gdcmCommon.h * src/gdcmHeader.cxx AddDefault trashed * gdcmGetXSize added * getimageDataSize now calls gdcmGetXSize * Test/*.cxx changed to agree with above changes 2003-03-31 Eric Boix * src/gdcmHeader.h: LoadElements() is not a public method anymore (to avoid double call by end user). * Test/*.cxx LoadElements() doesn't need to be called explicitely by end user, since gdcmHeader::gdcmHeader now handles it. 2003-03-29 Eric Boix * gdcm/Doc many doxygen changes: - Doxyfile now has two different versions, DoxyfileUsers that generates the html.users end users oriented documentation and DoxyfileDeveloppers that generates the html.developper developper oriented documentation. - README changed accordingly - requirement.txt removed (old design info moved to TODO). - Additional files DoxyInstallation.txt, DoxyIntroduction.txt, DoxyMainPage.txt, DoxyPython.txt provide more information. - Note: the website http://www.creatis.insa-lyon.fr/Public/Gdcm/ can now be updated by simply regenerating the docs with doxygen and copying html.developper and html.users to tux:/home/httpd/html/Public/Gdcm * src/gdcmElValSet.cxx: stl .count() can only return 0 or 1. Hence all the tests in the form "if (.count() >1)" were removed. * src/gdcmFile.cxx: cosmetic changes to avoid messages of doxygen about ill-formed documentation sections. * src/gdcmHeader.cxx: ditto 2003-03-27 Eric Boix * setup.py fixed for un*x (needed macro for stdint.h) * Test/test.cxx renamed to PrintHeader.cxx to avoid collision on un*ces with sh-utils test utility. * gdcmPython/demo/test.py renamed to PrintHeader.py * gdcmPython/demo/ReorganiseFiles.py new demo script added. * gdcmPython/win32/gdcmpycomplet.dsp renamed to gdcmpyembedded.dsp. * gdcmPython/win32/gdcmpy.dsp trashed away (brain damaged). * src/gdcm*.cxx JPR's bad inclusion fixed. 2003-03-26 Eric Boix * src/gdcmHeader[h, cxx] gdcmHeader now has an IsReadable predicate. * gdcmPython/demo/test.py changed accordingly. 2003-03-25 Eric Boix * gdcmPython/Makefile.am fixed linking against libstdc++ * gdcmPython/_gdcm.so symbolic link to gdcmPython/.libs/pygdcm.so added. * Swig subdir (historical tests of swig version 1.3.17++) removed * Test/testChangeEntete.cxx some lines commented out in order to make compilation work. * src/gdcmHeader.cxx cleaned up wild JPR's dirty kludge. * src/gdcmElValSet.cxx cleaned up frog's forgotten debug message 2003-03-24 Eric Boix * src/gdcmHeader.cxx gdcmHeader::gdcmHeader now calls LoadElements(), hence the user doesn't need this explicit call. - gdcmPython/testSuite.py, gdcmPython/demo/*.py changed accordingly i.e. LoadElements() call removed. * src/gdcmCommon.h now defines UINT32_MAX (see stdint.h). - src/Makefile.am declares the proper flag for g++. * src/gdcmElValSet.h added gdcmElValSet::GenerateFreeTagKeyInGroup for adding user defined new tags. - src/gdcmHeader.cxx gdcmHeader::NewManualElValToPubDict added. - src/gdcmHeader.cxx gdcmHeader::AddAndDefaultElements now cleanly adds some gdcm added tags (like gdcmXSize, gdcmYSize...) 2003-03-17 Fabrice Bellet * Makefile.am, acinclude.m4, configure.in, python.m4, Dicts/Makefile.am, Doc/Makefile.am, Test/Makefile.am, gdcmPython/Makefile.am, src/Makefile.am : the project should properly compile and install with the autotools, included the python wrappers part. * gdcm.spec.in : added a spec file for RPM packaging. 2003-03-14 Benoit Regrain * src/gdcmUtils.cxx : redifinition of defaults parameters in code 2003-03-12 Eric Boix * gdcmPython/__init__.py fix of GDCM_DICT_PATH which was not to exported to the environement (see gdcmPython/testSuite.py for usage). * src/gdcmElValSet.[cxx/h], gdcmElValue.[cxx/h], gdcmFile.[cxx/h], gdcmHeader.[cxx/h]: ElValSet class renamed to gdcmElValSet, and ElValue class renamed to gdcmElValue for obvious consistency reasons. * src/gdcmElValSet.cxx, src/gdcmUtil.[cxx-h] Tokenize utility function moved away from gdcmElValSet.cxx to gdcmUtil.cxx. 2003-03-10 Eric Boix * gdcmPython/__init__.py doesn't crash anymore when running in in InstallMode or PreInstallMode but with an environment given value of GDCM_DICT_PATH. * src/gdcmDictSet.[cxx/h] coding style. 2003-03-06 Eric Boix * src/gdcmHeader.h and gdcmHeader.cxx Coding style + doxigenation. * src/gdcm.h general comments moved to TODO, and README * src/gdcm.h should now be seen as a user commodity (including it should suffice to fully use gdcm). It is nowhere including within any of the kernel files src/*.cxx and src/*.h. 2003-03-05 Eric Boix * src/gdcm.h splitted in gdcmCommon.h, gdcmDict.h, gdcmDictEntry.h, gdcmDictSet.h, gdcmElValSet.h, gdcmElValue.h, gdcmFile.h, gdcmHeader.h * src/gdcm*.cxx only include their corresponding include file (as opposed to gdcm.h) * gdcmPython/gdcm.i changed accordingly * Test/Makefile.am corrected and added NEWS, AUTHORS in order for the autogen.sh generated "make snapshot" command to work. * autogen.sh removed history related references to crea package. 2003-03-04 Eric Boix * distutilsSwigCPlusPlus.py work around some swig portability bug. 2003-03-03 Eric Boix * Eventually, python/gdcmPython was renamed to gdcmPython. This was done in a last ditch attempt to get setup.py _really_ operationnal. The python/gdcmPython layaout add the advantage of hidding away the python related distutils specific files (MANIFEST.in, setup.py, distutils*.py...) from the main directory. Alas, the src directory was out of scope (i.e. it's relative position to setup.py was ../src) which made things impossible to handle (see previous version of python/setup.py). Crossing fingers... 2003-02-20 Eric Boix * python/setup.py now works on Un*x. (harder than I thougth) * python/distutilsSwigCPlusPlus.py can now have include files among the list of sources. 2003-02-20 Benoit Regrain * src/gdcmHeader.cxx : bug fix - opening dicom file in binary !!! * modifications in MSVC projects 2003-02-19 Eric Boix * As stated by the first lines of Test/ExceptionAndPython/README, it looks like we can move back to original usage of exception within src/gdcm* and hence remove the errno stuff that was introduced as a quick and dirty fixture of this problem (added to the TODO). * Doc/Doxyfile configuration file for Doxygen and corresponding README file for usage added. * Test/testWrite.cxx added. This new test comes from a split of test.cxx that is now reverted to its original purpous i.e. testing the proper parsing of a Dicom related file. testWrite.cxx concentrates on testing the IO part of gdcm. * Test/bug1.cxx (containing a bug on WIn32) added. * src/gdcm.h, gdcmHeader.cxx, gdcmDictSet.cxx: - gdcmHeader::GetPubTagNames and gdcmHeader::GetPubTagNamesByCategory whose purpose is to publish the content of the TagNames of the Dicom public dictionary were not accessible without an instance of class gdcmHeader. - those methods are now static methods of gdcmDictSet and hence require no instances at all to be invocated. - within gdcmDictSet this change required to change some method to class methods (i.e. are now static) among which SetDictPath (renamed to BuildDictPath) and LoadDefaultPubDict. * python/gdcmPython/demo/printGroupedPublicDict.py changed to illustrate the above changes by calling the new method classes of gdcmDictSet. * python/gdcmPython/__init__.py now exposes gdcm.gdcmDictSet for the above to be effective. * python/gdcmPython: in order to wrap properly the above changes for Python, swig version now needs to be > 1.3.17. * python/gdcmPython/Makefile fixed to adapt itself to new configure/make shema introduced by Johan Montagnat (thanks for the contribution). Alas this Makefile cannot be turned into a proper Makefile.am without some heavy changes in the configure.in (for python dectection). * python/gdcmPython/gdcm.i: the out typemap map>* now avoids publishing the empty entries. 2003-02-13 Benoit Regrain * python/setup.py : bug fix concerning install under windows ExtraPath reused :-P * gdcm.dsw : bug fix concerning path for libraries for python !!! 2003-02-13 Benoit Regrain * Dicts/dicomV3.dic : remove double spaces !!! * src/gdcmElValSet.cxx : bug fix concerning windows compiler * python/gdcmPython/win32/gdcmpycomplet.dsp : bug fix concerning paths and links 2003-01-28 Eric Boix * src/gdcmHeader.cxx added a post header parsing AddAndDefaultElements method. Doxygenation. * src/gdcm.h clean up of JPR spurious comments. 2003-01-17 Eric Boix * python/distutilsSwigCPlusPlus.py now properly collects the shadow classes generated by "swig -c++" (gdcm.py in our case) when using "python setup.py install". * python/gdcmPython/__init__.py imports gdcm.py and only manually reexports the working classes. * src/gdcmHeader.cxx all the try/catch/throw calls were replaced by the classical C errno scheme. This is to prevent an obscure behavior of the python wrappers when importing wxPython.wx prior to gdcmPython (which ended up in an abort call). An illustration of this oddity can be found in the Test/ExceptionAndPython subdir (see the README file). This problem probably due to an combination of g++ and dynamic loading. * added Test/ExceptionAndPython (see above) 2003-01-17 Eric Boix * Changed the layout of the python part to avoid bloating main directory with setup.py, distutilsSwigCPlusPlus.py, MANIFEST.in i.e. the distutils arsenal. All the python related stuff is again in a python subdir, but the package itself is now in python/gdcmPython. * setup.py was cleaned up: - pythonIncludePath removed - python setup.py bdist target is now functional. * gdcmPython/__init__.py doesn't export FileName any more (to avoid collision with other packages). gdcmPython/demo/*.py changed accordingly. 2003-01-15 Eric Boix * python subdir moved to gdcmPython (preparation of distutils packaging). * gdcmPython/setup.py and distutilsSwigCPlusPlus.py added. The distutils installer is operational. * - gdcmPython/__init__.py now properly loads the swig generated shadow classes (from gdcm.py). - gdcmPython/demo/*.py changed to import the package gdcmPython instead of gdcmPython/demo/load.py. - gdcmPython/testSuite.py changed to import the package gdcmPython. 2002-12-16 Eric Boix * src/gdcm.h, src/gdcmHeader.cxx: added GetPubTagNames() resp. GetPubTagNamesByCategory() to gdcmHeader that return a list of the entries within the associated public Dicom dictionary resp. the same information but sorted by the fourth field (PAT, IMG, DIR) of the dictionary. - Dicts/dicomV3.dic Entries which had and unspecified fourth field are now in the "???" group. - python/gdcm.i changed accordingly, - python/demo/printGroupedPublicDict.py added, that gives an example of the above new functionalities in Python. 2002-12-11 Eric Boix * src/gdcm.h, gdcmHeader.cxx: - historic references to glib's g_malloc and g_free (#defined) were definitively removed. - gdcm.h: cosmetic changes (part of comments moved to Doc/requirements) * src/gdcmElValSet.cxx: - GetElement(guint32, guint32) renamed to GetElementByNumber. - GetElValue(guint32, guint32) renamed to GetElValueByNumber. - GetElValue(string) renamed to GetElValueByName. - Added GetElementByName(string). * src/gdcmHeader.cxx: added - GetPubElValRepByNumber(guint16, guint16) - GetPubElValRepByName(string) - GetShaElValRepByNumber(guint16, guint16) - GetShaElValRepByName(string) - GetShaElValByNumber(guint16, guint16) - GetShaElValRepByName(string) - GetElValRepByNumber(guint16, guint16) - GetElValRepByName(string) - GetElValByNumber(guint16, guint16) - GetElValRepByName(string) * Doc/requirements.txt added. 2002-12-9 Eric Boix * Test/Makefile building now depends on the one of libgdcm.so * src/gdcmHeader.cxx and gdcm.h are now OB (undefined length encoded pixel data) aware which enables finding the address (offset) of the pixel data of JPEG encoded DICOM files. This leaves only a single file in the testSuite whose pixel data address (offset) is unknown. * python/testSuite.py changed accordingly. 2002-12-6 Christophe Odet + Hugues Benoit-Cattin + Eric.Boix * VC++ has some strong limitations when working with the STL, as stated in http://support.microsoft.com/support/kb/articles/Q168/9/58.ASP : "Also note that some STL containers (map, set, queue, list, deque) cannot be exported. [...] Some STL classes contain nested classes. These classes can not be exported. [...] This is caused by a designed limitation that once a template class is instantiated, it can not be re-instantiated and exported." Since our usage of map<> is ubiquitous in gdcm, this "designed limitation" of VC++ is a pitfall. Hence the Python wrappers of gdcm cannot be incrementally linked against the c++ dynamic library. The dirty but only workaround is to forget about incremental link of dynamic libraries and to generate the Python wrappers library with the inclusions of the underlying C++ library. The following modifications concern this matter on Win32/VC++: - wrapping python correct with standalone wrapped dll (don't use separate dll under windows !!!!) - python21_d debug mode enabled (ask Frog how to use it :-) - NO problem with having an STL member of class for example string in C++ WITH THE RESTRICTION OF FORGETING ABOUT INCREMENTAL LINK. - Python test of dcmlib in Python is ok under windows on a large set (one) of image(s). * removed glib references * typedef's inserted in gdcm.i for correct swig type management 2002-11-27 Eric Boix * python/demo/*.py load.py extracted from test.py. Added explore.py that only displays required tags and testAll.py that parses all the files of the testsuite without using unittest. * python/testSuite.py other additional test on new files added. * Data/* new test files added accordingly to the testSuite. * src/gdcmHeader.cxx avoid overwriting of the dictionary when the vr in the file differs from the one of the dictionary. 2002-11-20 Eric Boix * src/gdcm.h and gdcmHeader.cxx gdcm no longer loads all the elements values, but limits itself to values which are below a user specified size (by default 1024 bytes). * python/gdcm.i : elements not loaded (because their size is above the user specified treshold) are exported with their TagKey as key of the python dictionary. This enables the testsuite to make some checks on the unloaded elements (since we have their offset and size). * python/testSuite.py - now tests for the existence and proper value of the pixel data - two new examples added. * Data/gdcm-MR-SIEMENS-16.acr[12] added. 2002-11-18 Eric Boix * src/gdcm.h and gdcmHeader.cxx are now "Big Endian transfer syntax" aware. See the strategy comments in gdcmHeader::FindeLength(). * Test/test.cxx now accepts a filename as first argument. * Data/US-PAL-8-10x-echo.dcm and US-RGB-8-epicard.dcm added. * python/testSuite.py changed to integrate test on above files. 2002-11-15 Eric Boix * Dicts/dicomV3.dic removed all the trailing (RET) when the the vr was also RET. * python/testSuite.py more tests added. 2002-11-14 Eric Boix * python/testSuite.py unittest test suite added (uses Data) * Data/* dcm and acr files for the test suite. * glib dependance removed from un*x version. We now use ISO C99 7.18 Integer types (see stdint.h) - python/Makefile, src/Makefile src/gdcm.h * src/ when an explicit vr (like dicom files) suddenly poped an implicit element we use to mark the underlying DictEntry of the concerned ElValue with "Implicit". This strategy was damageable too the public or provite dictionaries, since some of their vr would be changed. Since Header::FindLength heavily relies on the detection by Header::FindVR of falsely explicit elements, I added an extra ImplicitVr member to ElValue (boolean). The rest of the changes we the necessary adaptations. 2002-11-12 Eric Boix * src/gdcmHeader::FindLength bug fix when trapping falsely explicit VR files. * src/gdcmHeader::FindVR: hard way fix of falsely explicit vr files. 2002-11-8 Eric Boix * Adaptation for porting to VC++: - src/gdcm.h o forced to use std namespace (for string to be known) o all class use __declspec export style on WIN32 - src/gdcmUtil.cxx new Exit method that wraps the exit call (in stdlib.h on Win32 but in std:: for gcc) * src/gdcmDictSet::SetDictPath adds a trailing / to environement variable GDCM_DICT_PATH. * src/gdcmHeader.cxx verbose comments made discrete. 2002-11-7 Eric Boix * python/gdcm.i: added a typemap that converts a C++ hashing table to native Python dictionary. * python/demo/test.py: - now uses the native dictionary for exploration of gdcmHeader. - takes an optional filename argument (the file to parse). * src/gdcm.h and gdcmHeader.cxx: gdcmHeader now has an accessor on PubElVals hashing table. * Dicts/dicomV3.dic removed error prone trailing spaces. 2002-11-6 Eric Boix * Python wrapping process moved away from src/Makefile to newly created python/Makefile (as well as gdcm.i) * python/demo/test.py (that mirrors Test/test.cxx) is effective. * src/gdcmHeader::FindLength only looks for current vr when necessary. * src/gdcmDictSet.cxx: the dictionnaries directory path is now imported from the environement variable GDCM_DICT_PATH (when existing). * src/gdcmDict::GetTag bug fix. 2002-10-31 Eric Boix * Straightforward temporary fixes for swig to build the python wrappers. src/Makefile now has a python working entry [by working we mean that we can import de shadow classes without errors]. 2002-10-29 Eric Boix * hashtest.cxx removed (since already in Test) * src/gdcmlib.h renamed to src/gdcm.h * src/dcm.i renamed to src/gdcm.i * src/Makefile prepared for python wrapping 2002-10-29 Eric Boix * src/gdcmHeader.cxx : - Parsing of header is now separated from loading of element values (see gdcmHeader::LoadElements). - general clean up of hopefully all file access (creation of ReadInt16 and ReadInt32) 2002-10-22 Eric Boix * src/gdcmHeader.cxx : - RecupLgr renamed to FindLength and cut off with new IsAnInteger method. - SetLgrElem renamed to SetLength - GetLgrElem renamed to GetLength - ~gdcmHeader() made virtual to pesky warning messages at compile. * src/gdcmElValSet.cxx fixed both GetElValue methods * Dicts/dicomV3.dic falacious entry [7fe0 0010 OT PXL Pixel Data] due to IdoDude was cleaned out. 2002-10-21 Eric Boix * src/gdcmHeader.cxx RecupLgr split in FindVR and RecupLgr. FindVR concentrates on finding the value representation (when it exists). RecupLgr now only finds the element value length, and it avoids returning the unecessary skL (skipped length). Also, offsetCourant was simply removed (with taille_fich) since it was redundant with the File position internals (by using ftell and fseek). This also made skL (see above in RecupLgr) usage jajun. * src/gdcmHeaderIdo.cxx src/gdcmIdo.h added. Those files concentrate on the libido specificities which are handled through class inheritance. * Test/implicit_vr.dcm dicom v3 in implicit value representation added. 2002-10-17 Eric Boix * Truckload of changes. Parsing of header is barely functional (see Test/test) with the standard dictionary (see Dicts/dicomV3.dic). 2002-10-10 Eric Boix * src/gdcmHeader.cxx many addons of low level methods 2002-10-07 Eric Boix * src/gdcmHeader now contains_IdDcmCheckSwap, _IdDcmRecupLgr, and _IdDcmSWAP_LONG. 2002-09-12 Eric Boix * This corresponds to all the changes decided at the meeting of May 23 2002. Needless to say we are running late...