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computationalpathologygroup / ASAP

Program for the analysis and visualization of whole-slide images in digital pathology
https://computationalpathologygroup.github.io/ASAP/
GNU General Public License v2.0
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Build missing .mrxs loading #190

Closed imgifty closed 2 years ago

imgifty commented 3 years ago

Hello, I was able to build ASAP and get a running version using command:

cmake -DBUILD_ASAP=TRUE -DBUILD_IMAGEPROCESSING=TRUE -DWRAP_MULTIRESOLUTIONIMAGEINTERFACE_PYTHON=TRUE -DCMAKE_BUILD_TYPE=Release -DBUILD_EXECUTABLES=TRUE -DPugiXML_INCLUDE_DIR=../pugixml-1.10/src/ -DOpenJPEG_DIR=../openjpeg/ -DOPENSLIDE_INCLUDE_DIR=/usr/local/include/openslide/ -DPACKAGE_ON_INSTALL=TRUE -DBUILD_MULTIRESOLUTIONIMAGEINTERFACE_VSI_SUPPORT=TRUE -DDCMTKJPEG_INCLUDE_DIR=../ -DDCMTKJPEG_LIBRARY=/usr/lib/libijg8.so

Now, after make and sudo make install the resulting ASAP executable is placed into the ASAP project folder. When I start it, I seem not to be able to load '.mrxs' wsi files, is there any CMake flag I'm missing?

Thanks a lot for the help!

GeertLitjens commented 2 years ago

MRXS is supported through openslide, but that doesn't support all MRXS files. Currently there is no solution for that, although you can use the 3DHistech CaseViewer software to convert MRXS to an MRXS that is compatible with OpenSlide and thus ASAP