Hi Varun,
I would recommend taking a look at the functions I mentioned in my previous
mail. Debugging and stepping through them should give you a good idea of how to
re-create that same functionality in your own code.
Best,
Caspar
Von: Varun Varadarajan [mailto:varun.varadara...@inova-de.eu]
Gesendet: Montag, 7. November 2016 11:48
An: Goch, Caspar Jonas
Cc: mitk-users
Betreff: Re: [mitk-users] To load dicom images
Hello Mr.Goch,
Thanks for the reply. Like how the Dicom reader is used in workbench to load
the dicom images, how to use the code of the dicom reader to load the dicom
images in my custom made code.?
My observations is that, i am using mitk::IOUtil::Load(argv[1], *ds);. It loads
all the things in the data storage. That is, its loading multiple data sets of
the dicom images even if the selected image is of one dataset.
My requirement is that : Just like how the work bench gives me an option to
choose a dicom reader to load dicom image, I want to implement something like
that in my custom code.
As of now i am directly loading the dicom images from data storage, and it is
loading data from multiple dicom datasets instead of one dataset. I want the
data from only single dataset.
How do i proceed further with this? please advice.
Kind Regards
Varun Varadarajan
Mit freundlichen Grüßen,
Varun Varadarajan
--------------------------------
Mr. Varun Varadarajan
Werkstudent
Tel: +49 6221 3543445<tel:%2B49%206221%203543445>
Mob: +49-17657977029<tel:%2B49%20163%203349042>
E-Mail: varun.varadara...@inova-de.eu<mailto:varun.varadara...@inova-de.eu>
Web: www.inova-de.eu<http://www.inova-de.eu/>
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On 26 October 2016 at 10:42, Goch, Caspar Jonas
<c.g...@dkfz-heidelberg.de<mailto:c.g...@dkfz-heidelberg.de>> wrote:
Hi Varun,
as I said. mitk::IOUtil::Load(argv[1],*ds); does load dicom images If the dicom
modules are build (which they are in your case, because you can open it in the
datamanager). Presumably the following command will show something:
<YourSuperbuildDirectory>\MITK-build\bin\MitkStep1_release.bat
<YourSuperbuildDirectory>\MITK-Data\DICOMReader\CR-MONO1-10-chest-spacing-pixelspacing.dcm
So you are using the mitk dicom reader. However if your own data does not load,
then because the default dicom reader configuration (of the three
configurations) does not know how to handle whatever is written in your dicom
data’s tag 0028,0005, which happens to be “ImageDimensions”.
Check your data via dcmdump (or another dicom utility of your choice) to see
what that tag contains in contrast to some of the test data we provide. Then
check whether you can reproduce the error using the Workbench to see which
configurations can handle it and which cannot.
For code examples take a look at:
FileReaderSelector::FileReaderSelector(const std::string &path) : m_Data(new
Impl)
For getting a reader for your path.
std::vector<mitk::BaseData::Pointer> baseData = reader->Read();
gets you the actual data from the reader, check
std::string IOUtil::Load(std::vector<LoadInfo> &loadInfos,
DataStorage::SetOfObjects *nodeResult,
DataStorage *ds,
ReaderOptionsFunctorBase *optionsCallback)
For an example of how it is used in the application. You can also set a
breakpoint there to see what happens differently for the MITK Workbench read
and the tutorial step read.
Best,
Caspar
Von: Varun Varadarajan
[mailto:varun.varadara...@inova-de.eu<mailto:varun.varadara...@inova-de.eu>]
Gesendet: Dienstag, 25. Oktober 2016 16:12
An: Goch, Caspar Jonas
Cc: mitk-users
Betreff: Re: [mitk-users] To load dicom images
Hello Mr.Goch,
As said earlier, I selected the MITK Dicom Reader from the dropdown. But this
is in the mitk workbench. How do i use the same in my code. Which library or
mitk header i need to include to load dicom images. MITK documentation is too
huge that i get confused where to begin at. I do not want to change the entire
thing. I want to use MITK as part of my code.
Kindly help me with how to load the dicom image using MITK libraries and
functions.
Mit freundlichen Grüßen,
Varun Varadarajan
--------------------------------
Mr. Varun Varadarajan
Werkstudent
Tel: +49 6221 3543445<tel:%2B49%206221%203543445>
Mob: +49-17657977029<tel:%2B49%20163%203349042>
E-Mail: varun.varadara...@inova-de.eu<mailto:varun.varadara...@inova-de.eu>
Web: www.inova-de.eu<http://www.inova-de.eu/>
Inova DE GmbH
Sitz: Kaiserstraße 64, 69115 Heidelberg, Germany
Amtsregister Mannheim: HRB 722938, USt-IdNr.: DE 301814751 Steuernummer:
32494/63607 Geschäftsführer: Varun Varadarajan
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On 21 October 2016 at 12:17, Goch, Caspar Jonas
<c.g...@dkfz-heidelberg.de<mailto:c.g...@dkfz-heidelberg.de>> wrote:
Hi Varun,
Dicom handling in MITK is somewhat different from other image formats. When you
invoke
mitk::IOUtil::Load(argv[1],*ds);
it probably selects the classic dicom reader by default (there are currently
three reader configuriations). If you load those image with the workbench via
drag and drop (of one of the .dcms), which reader did you select (there should
be a popup). Test all three whether you receive the warning there as well.
Best,
Caspar
Von: Varun Varadarajan
[mailto:varun.varadara...@inova-de.eu<mailto:varun.varadara...@inova-de.eu>]
Gesendet: Freitag, 14. Oktober 2016 11:42
An: Goch, Caspar Jonas
Cc: mitk-users
Betreff: Re: [mitk-users] To load dicom images
Hello Mr.Goch,
I will add the users list here on.
Yes in the MITK workbench it works fine and the .dcm image is loaded in all the
4 views. But it does not work in case of the tutorial program Step 1. And is
the program limited to load onlzý .nrrd and .vtk images?
Does this warning signify anything?
"sorry cant read attribute <wrong VR>: <0028,0005> "
Because i do not get this warning while loading .nrrd and .vtk images.
Any advise on this?
Kind Regards
Varun
Mit freundlichen Grüßen,
Varun Varadarajan
--------------------------------
Mr. Varun Varadarajan
Werkstudent
Tel: +49 6221 3543445<tel:%2B49%206221%203543445>
Mob: +49-17657977029<tel:%2B49%20163%203349042>
E-Mail: varun.varadara...@inova-de.eu<mailto:varun.varadara...@inova-de.eu>
Web: www.inova-de.eu<http://www.inova-de.eu/>
Inova DE GmbH
Sitz: Kaiserstraße 64, 69115 Heidelberg, Germany
Amtsregister Mannheim: HRB 722938, USt-IdNr.: DE 301814751 Steuernummer:
32494/63607 Geschäftsführer: Varun Varadarajan
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On 14 October 2016 at 11:36, Goch, Caspar Jonas
<c.g...@dkfz-heidelberg.de<mailto:c.g...@dkfz-heidelberg.de>> wrote:
Hi Varun,
have you tried loading the images using the dicom browser of the MITK
workbench? Did it work?
Best,
Caspar
Von: Varun Varadarajan
[mailto:varun.varadara...@inova-de.eu<mailto:varun.varadara...@inova-de.eu>]
Gesendet: Freitag, 14. Oktober 2016 11:01
An: mitk-users
Betreff: [mitk-users] To load dicom images
Hello All,
I am new to MITK and i was trying the MITK tutorials. I want to load the DICOM
images instead of .nrrd or .vtk.
As i see "mitk::IOUtil::Load(argv[1], *ds);" is the line which loads the
images. If i want to load a dicom image(*.dcm) , what am i supposed to do?
I give the dicom image location path in the command arguments, but a blank
screen is displayed in the output window and i get a lot of warnings saying :
"sorry cant read attribute <wrong VR>: <0028,0005> "
What might be the reason?
Please Help
Mit freundlichen Grüßen,
Varun Varadarajan
--------------------------------
Mr. Varun Varadarajan
Werkstudent
Tel: +49 6221 3543445<tel:%2B49%206221%203543445>
Mob: +49-17657977029<tel:%2B49%20163%203349042>
E-Mail: varun.varadara...@inova-de.eu<mailto:varun.varadara...@inova-de.eu>
Web: www.inova-de.eu<http://www.inova-de.eu/>
Inova DE GmbH
Sitz: Kaiserstraße 64, 69115 Heidelberg, Germany
Amtsregister Mannheim: HRB 722938, USt-IdNr.: DE 301814751 Steuernummer:
32494/63607 Geschäftsführer: Varun Varadarajan
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Inhalts, eine Vervielfältigung oder Weitergabe der E-Mail ausdrücklich
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