Hi Miri,
Thanks for the buildlog. Are you sure you enabled the MITK_USE_Boost
option in the CMake GUI? The build directory in the GUI should point to:
C:/MITK-root/MITK-superbuild
If you are still getting the same error, you can try to open the
C:/MITK-root/MITK-superbuild/MITK-superbuild.sln
Visual Studio solution and right-click on the "Boost" project and click
on "Rebuild".
Hope this helps,
Sascha
On 02/07/2012 10:45 AM, Miri Trope wrote:
Hi Iggy,
Thank you for your helpful information, you've motivated me to use
diffusionImaging :-)
I'm trying to build again MITK with BOOST toggle on, but I'm dealing
with some building errors:
CMake Error at C:/Program Files (x86)/CMake
2.8/share/cmake-2.8/Modules/FindBoost.cmake:1135 (message):
10> Unable to find the requested Boost libraries.
10> Unable to find the Boost header files. Please set BOOST_ROOT to
the root
10> directory containing Boost or BOOST_INCLUDEDIR to the directory
containing
10> Boost's headers.
I guess that the building process hasn't download the whole Boost
package, because A/CMakeExternals/Install/BOOST/
lib/boost-1.X is missing. But I read here
<http://docs.mitk.org/nightly-qt4/BuildInstructionsPage.html> that it
should download boost 1.45.0 automatically.
Attached BuildLog.
What do you think that is missing?
Regards,
Miri
On Mon, Feb 6, 2012 at 11:02 AM, Reicht, Ignaz
<[email protected] <mailto:[email protected]>> wrote:
Hi Miri,
so far you have to activate the diffusionimaging module
(org.mitk.diffusionimaging). this module has its own factory which
calls appropriate mechanisms for fiber visualization (3D and 2D).
the mitkDiffusionimagefactory initializes the fiberbundlexmappers
which are responsible for rendering. if you want to interact with
and process on your fibers (colorcodings, cutting, etc.)
org.mitk.gui.qt.diffusionimaging provides efficient tools / views
to do so.
org.mitk.gui.qt.diffusionimagingapp
this is the bundle used for the standalone app for
diffusionimaging (see http://www.mitk.org/wiki/DiffusionImaging)
The diffusionimaging module requires some headers of the Boost
library, therefore toggle this option (if not automatically done
by CMake) and the superbuild mechanism will take care of
downloading all required Boost data.
For your own application, if you dont want to use the
diffusionimaging module, mitkFiberBundleX,
mitkFiberBundleXMapper2D/3D need to be ported to your
directory/module hosting all datastructures of your task.
iggy
-------------------------------------------------
Spelling Errors added by Apple OSX
intelligent word completion
On Feb 5, 2012, at 10:53 PM, Miri Trope wrote:
Dear Peter,
Your suggestions were very helpful and I managed with this stage
by fstream ...
But, in order to use mitkFiberBundleX:
- all the components of mitkDiffusionImaging must be built by
CMake in the configuration process?
|____org.mitk.diffusionimaging
|____org.mitk.gui.qt.diffusionimaging
|____org.mitk.gui.qt.diffusionimagingapp
- I've tried to build those, but the MITK_use_Boost is needed- a
stage that I haven't succeeded to manage with due to some build
errors ...
There is other way to use this filter without the need of its
building process?
On Thu, Feb 2, 2012 at 2:55 PM, Peter Neher
<[email protected]
<mailto:[email protected]><mailto:[email protected]
<mailto:[email protected]>>> wrote:
Hi Miri,
.mat file import in MITK is not supported. You would either need
to export your matlab datastructure as vtk file format (maybe this
site can help you with that:
http://www.exolete.com/recipes/matlab_vtk) or you'd have to find
some other way to import your data into mitk. If its just a list
of points it should not be too difficult to read the file using
fstream.
Peter
On 02.02.2012 13:43, Miri Trope wrote:
Dear Peter,
Thank you very much for your kind and detailed explanation.
Please forgive me about the following q:
my fiber's data (fibers.mat) is represented as a structural object
in Matlab.
Does Mitk enable to import such a Matlab's data?
Anyway, how my program can read the data from that fiber.mat file?
Thanks in advance.
On Thu, Feb 2, 2012 at 1:00 PM, Peter Neher
<[email protected]
<mailto:[email protected]><mailto:[email protected]
<mailto:[email protected]>>> wrote:
Hi Miri,
to represent fiber tracts we use mitkFiberBundleX. This
datastructure is simply initialized using a vtkPolyData containing
all your fiber data.
Simple example:
vtkSmartPointer<vtkPolyData> fiberPolyData =
vtkSmartPointer<vtkPolyData>::New(); // the input datastructure
for mitkFiberBundleX
vtkSmartPointer<vtkCellArray> fiberContainer =
vtkSmartPointer<vtkCellArray>::New();
vtkSmartPointer<vtkPoints> pointContainer =
vtkSmartPointer<vtkPoints>::New();
for (int l=0; l<numlines; l++) // iterate over fibers
{
vtkSmartPointer<vtkPolyLine> fiber =
vtkSmartPointer<vtkPolyLine>::New();
for (int p=0; p<pointsInLine; p++) // iterate over points in fiber
{
vtkIdType id = pointContainer->InsertNextPoint(yourPoint);
// add next point
fiber->GetPointIds()->InsertNextId(id); // add point id
to fiber
}
fiberContainer->InsertNextCell(fiber); // add fiber to fiber
container
}
fiberPolyData->SetPoints(pointContainer);
fiberPolyData->SetLines(fiberContainer);
mitk::FiberBundleX::Pointer fiberBundle =
mitk::FiberBundleX::New(fiberPolyData);
Peter
On 02.02.2012 07:47, Miri Trope wrote:
Hi All,
How I should convert my fibers which is represented in .mat file
in order to be represented on mitk view?
i.e., I'd like to view my data as :
http://www.dkfz.de/de/mbi/images/neuro3.jpg
Note that my .mat file consists of [n] number of fibers which each
fiber [i] consists of number of points [j] like this:
fibers[n]
|
|__fiber-i__
|
|___point-j(x,y,z)
Please don't hesitate to ask if a further explanation is required ...
Anyway, any information/ method would be very appreciated!
Miri
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German Cancer Research Centre
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Division of Medical and Biological Informatics
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