Hi Caspar,thank you for the answer! I have tried with MITK workbench but I have the same problem and, unfortunately, it seems not due to a specific slice, but on the number of slices I load.
I tested what you suggested in my application with different consecutive slices and everything works fine in [case2] as far as I load less than 560 slices (with 567 it does not always work).
I tested the same thing with the MITK Workbench (with drag and drop): everything works if I load small volumes (<= 280 slices) but this is not the case If I try to load a bigger (even partial) volume (e.g.: the last 500 files or the first 300). In this last case, when selecting the MITK DICOM Reader from the pop-up menu, the same unknown error is returned; whereas, when selecting the "v2 (autoselect)" option the following message appears in the mbilog window:
875.18 core.mod.dicomReader.dicomSeriesreaderhelper ERROR: Out of memory. Cannot load DICOM series: e:\data_lib\mitk\bd-d\ep\include\itk-4.9\itkImportImageContainer.hxx:199: Failed to allocate memory for image.
Any advice (I have 32GB of RAM)? Thank you again! Regards, Paolo Le 28/mar/2018 à 18:01, Goch, Caspar Jonas a écrit :
Hi Paolo, Have you tried loading the same data set with a relatively current MITK build? If you drag and drop one of the files (a single file, not all of them, otherwise it might try loading it 602 times) and select one of the reader choices offered by the pop-up menu, what happens? If you load only the last 72 slices, does the same error happen (it might be a broken slice, so you could potentially narrow it down to a single file)? Best, Caspar -----Ursprüngliche Nachricht----- Von: Paolo Cabras [mailto:cab...@unistra.fr] Gesendet: Mittwoch, 28. März 2018 14:59 An:mitk-users@lists.sourceforge.net Betreff: [mitk-users] problem loading dicom Hi everybody, I am quite new to MITK and I am trying to develop a standalone application that loads a set of dicom images and render it into a stdMultiWidget (the data set I am using is composed by 602 slice of 512x512 pixels). I am using mitk::IOUtil::Load(myFilename, *myDataStorage) and, actually, everything works fine if [case1] myFilename is given as an argument to my program and I load the data before showing my QtMainWindow where the stdMultiWidget is included (exactly as it is done in Step8 of the mitk examples). However, it does not work, if [case2] I use the mitk::IOUtil::Load inside a callback function (a Qt slot) of a File menu action or a pushButton (in this case myFilename is a std::string hard-coded within the callback function). More precisely, in [case2] Load is not capable to load the entire 602 slices data set, but it does work if the input volume is reduced to the first 540 slices. I do not know if it can be useful, but I had a look at the memory usage of the process and in [case1] my application has a peak of used memory of about 763.000 K during loading which comes back to 568.000 K after everything has been rendered. Whereas in [case2] (when trying to load the whole dataset) the memory usage increase till about 592.000 K before the MITK error is thrown. Here follows the log of the application with the mentioned error at the end (the error showed in the first line appears also in [case1], but in that case everything is correctly rendered afterwards): Wed Mar 28 13:07:27 2018 7.94 core.mod.cest.customtagparser ERROR: Could not parse empty custom dicom string 10.65 core.mod.core.dicomSeriesreaderSvc: -------------------------------------- ------------------------------------------ 10.66 core.mod.core.dicomSeriesreaderSvc: DicomSeriesReader: Loading DICOM series 0: Series UID1.2.392.200036.9116.2.6.1.3268.2056440552.1512124464.240725 10.66 core.mod.core.dicomSeriesreaderSvc: 607 'CT' files (CT Image Storage) loaded into 1 mitk::Image 10.67 core.mod.core.dicomSeriesreaderSvc: multi-frame: No 10.67 core.mod.core.dicomSeriesreaderSvc: reader support: Supported 10.67 core.mod.core.dicomSeriesreaderSvc: pixel spacing type: In Patient 10.68 core.mod.core.dicomSeriesreaderSvc: gantry tilt corrected: No 10.68 core.mod.core.dicomSeriesreaderSvc: 3D+t: No 10.68 core.mod.core.dicomSeriesreaderSvc: -------------------------------------- ------------------------------------------ 20.29 core.mod.core.dicomSeriesreader ERROR: Error encountered when loading DICOM series:Unknown exception 20.29 core.mod.core.dicomSeriesreaderSvc ERROR: DicomSeriesReader: Skipping series 0 due to some unspecified error... 20.30 core.mod.core.ioUtil ERROR: Unknown read error occurred reading E:/Images/Cases/C/C0001 Maybe I should use something as mitkDICOMITKSeriesGDCMReader ? The fact is that Load seems to recognize the volume, so I am not sure if the problem is the reader. Finally, some more details ... I am using windows 7, mitk 2016.11 with Qt 5.7.1 and compiling with msvc2013 32 bit. I hope I was able to explain the issue... any suggestion would be greatly appreciated! Best regards, -- Paolo Cabras Research Engineer Automatic, Vision and Control Team ICUBE (UMR 7357 CNRS-Université de Strasbourg) ------------------------------------------------------------------------------ Check out the vibrant tech community on one of the world's most engaging tech sites, Slashdot.org!http://sdm.link/slashdot _______________________________________________ mitk-users mailing list mitk-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/mitk-users --- This email has been checked for viruses by AVG. http://www.avg.com
-- Paolo Cabras Research Engineer Automatic, Vision and Control Team ICUBE (UMR 7357 CNRS-Université de Strasbourg) +33 (0) 3 88 11 90 68
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