Package Details: 3dslicer 5.10.0-5

Git Clone URL: https://aur.archlinux.org/3dslicer.git (read-only, click to copy)
Package Base: 3dslicer
Description: A free, open source and multi-platform software package widely used for medical, biomedical, and related imaging research
Upstream URL: https://www.slicer.org
Licenses: BSD-3-Clause
Submitter: tmladek
Maintainer: hottea (lilac)
Last Packager: lilac
Votes: 20
Popularity: 0.000001
First Submitted: 2015-01-21 08:58 (UTC)
Last Updated: 2025-12-17 08:06 (UTC)

Latest Comments

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hottea commented on 2025-11-21 01:03 (UTC) (edited on 2025-11-21 01:13 (UTC) by hottea)

@BishopWolf ok, 3dslicer build from the source works fine with system icu.

BishopWolf commented on 2025-11-20 19:23 (UTC)

icu76 dependency breaks manjaro, this shall be icu78 or at least use the one in the system

hottea commented on 2025-11-11 14:49 (UTC)

qt5 is moved to AUR, and 3dslicer is not ready to move to qt6 yet. some deps, eg. qt5-webengine is failed to build. check upstream pr for detail.

liamtimms commented on 2024-12-27 17:07 (UTC)

@hottea cheers, thanks for the fast response and fix

hottea commented on 2024-12-24 13:34 (UTC)

@liamtimms We need to build it with Slicer_USE_SYSTEM_DCMTK=OFF. You could install it from Archlinuxcn repo if you don't wanna build it from the source.

liamtimms commented on 2024-12-23 17:09 (UTC) (edited on 2024-12-23 17:09 (UTC) by liamtimms)

Hitting a new issue: 

/home/liam/.cache/paru/clone/3dslicer/src/build/CTK/Libs/DICOM/Core/ctkDICOMDatabase.cpp: In member function ‘bool ctkDICOMDatabasePrivate::storeThumbnailFile(const QString&, const QString&, const QString&, const QString&)’: /home/liam/.cache/paru/clone/3dslicer/src/build/CTK/Libs/DICOM/Core/ctkDICOMDatabase.cpp:828:74: error: no matching function for call to ‘DicomImage::DicomImage(QByteArray)’   828 |   DicomImage dcmImage(QDir::toNativeSeparators(originalFilePath).toUtf8());       |                                                                          ^ In file included from /home/liam/.cache/paru/clone/3dslicer/src/build/CTK/Libs/DICOM/Core/ctkDICOMDatabase.cpp:52: /usr/include/dcmtk/dcmimgle/dcmimage.h:1905:5: note: candidate: ‘DicomImage::DicomImage(const DicomImage&)’  1905 |     DicomImage(const DicomImage &);       |     ^~~~~~~~~~ /usr/include/dcmtk/dcmimgle/dcmimage.h:1905:16: note:   no known conversion for argument 1 from ‘QByteArray’ to ‘const DicomImage&’  1905 |     DicomImage(const DicomImage &);       |                ^~~~~~~~~~~~~~~~~~ /usr/include/dcmtk/dcmimgle/dcmimage.h:1859:5: note: candidate: ‘DicomImage::DicomImage(const DicomImage*, DiImage*, EP_Interpretation)’  1859 |     DicomImage(const DicomImage *dicom,       |     ^~~~~~~~~~ /usr/include/dcmtk/dcmimgle/dcmimage.h:1859:5: note:   candidate expects 3 arguments, 1 provided /usr/include/dcmtk/dcmimgle/dcmimage.h:140:5: note: candidate: ‘DicomImage::DicomImage(DcmObject*, E_TransferSyntax, const DcmUnsignedShort&, const DcmUnsignedShort&, const DcmLongString*, long unsigned int, long unsigned int, long unsigned int)’   140 |     DicomImage(DcmObject *object,       |     ^~~~~~~~~~ /usr/include/dcmtk/dcmimgle/dcmimage.h:140:5: note:   candidate expects 8 arguments, 1 provided /usr/include/dcmtk/dcmimgle/dcmimage.h:114:5: note: candidate: ‘DicomImage::DicomImage(DcmObject*, E_TransferSyntax, double, double, long unsigned int, long unsigned int, long unsigned int)’   114 |     DicomImage(DcmObject *object,       |     ^~~~~~~~~~ /usr/include/dcmtk/dcmimgle/dcmimage.h:114:5: note:   candidate expects 7 arguments, 1 provided /usr/include/dcmtk/dcmimgle/dcmimage.h:91:5: note: candidate: ‘DicomImage::DicomImage(DcmObject*, E_TransferSyntax, long unsigned int, long unsigned int, long unsigned int)’    91 |     DicomImage(DcmObject *object,       |     ^~~~~~~~~~ /usr/include/dcmtk/dcmimgle/dcmimage.h:91:5: note:   candidate expects 5 arguments, 1 provided /usr/include/dcmtk/dcmimgle/dcmimage.h:72:5: note: candidate: ‘DicomImage::DicomImage(const OFFilename&, long unsigned int, long unsigned int, long unsigned int)’    72 |     DicomImage(const OFFilename &filename,       |     ^~~~~~~~~~ /usr/include/dcmtk/dcmimgle/dcmimage.h:72:34: note:   no known conversion for argument 1 from ‘QByteArray’ to ‘const OFFilename&’    72 |     DicomImage(const OFFilename &filename,       |                ~~~~~~~~~~~~~~~~~~^~~~~~~~ make[8]: *** [Libs/DICOM/Core/CMakeFiles/CTKDICOMCore.dir/build.make:148: Libs/DICOM/Core/CMakeFiles/CTKDICOMCore.dir/ctkDICOMDatabase.cpp.o] Error 1 make[7]: *** [CMakeFiles/Makefile2:795: Libs/DICOM/Core/CMakeFiles/CTKDICOMCore.dir/all] Error 2 make[6]: *** [Makefile:136: all] Error 2 make[5]: *** [CMakeFiles/CTK.dir/build.make:87: CTK-prefix/src/CTK-stamp/CTK-build] Error 2 make[4]: *** [CMakeFiles/Makefile2:266: CMakeFiles/CTK.dir/all] Error 2 make[3]: *** [Makefile:136: all] Error 2 make[2]: *** [CMakeFiles/CTK.dir/build.make:90: CTK-prefix/src/CTK-stamp/CTK-build] Error 2 make[1]: *** [CMakeFiles/Makefile2:1050: CMakeFiles/CTK.dir/all] Error 2 make: *** [Makefile:91: all] Error 2

hottea commented on 2023-07-25 04:29 (UTC)

@bartus Yes, I think you're right. dcmtk needs to be compiled with gcc12 too. dcmtk is build with gcc 12 when I build 3dslicer at that time (gcc 13 is not in official repo yet), so I did not encounter this issue. You could rebuild dcmtk with gcc12, and this issue would be fixed.

bartus commented on 2023-07-24 15:00 (UTC) (edited on 2023-07-24 15:02 (UTC) by bartus)

Got missing symbol error while linking dcmtk:libofstd.so

[ 92%] Building CXX object Libs/Widgets/Plugins/CMakeFiles/CTKWidgetsPlugins.dir/moc_ctkTreeComboBoxPlugin.cpp.o [ 92%] Building CXX object Libs/Widgets/Plugins/CMakeFiles/CTKWidgetsPlugins.dir/moc_ctkSearchBoxPlugin.cpp.o [ 93%] Building CXX object Libs/Widgets/Plugins/CMakeFiles/CTKWidgetsPlugins.dir/moc_ctkSettingsPanelPlugin.cpp.o /usr/bin/ld: /usr/lib/gcc/x86_64-pc-linux-gnu/12.3.0/../../../../lib/libofstd.so: undefined reference to `std::ios_base_library_init()@GLIBCXX_3.4.32' [ 93%] Building CXX object Libs/Widgets/Plugins/CMakeFiles/CTKWidgetsPlugins.dir/moc_ctkSettingsDialogPlugin.cpp.o [ 93%] Building CXX object Libs/Widgets/Plugins/CMakeFiles/CTKWidgetsPlugins.dir/moc_ctkSliderWidgetPlugin.cpp.o [ 93%] Building CXX object Libs/Widgets/Plugins/CMakeFiles/CTKWidgetsPlugins.dir/moc_ctkWorkflowButtonBoxWidgetPlugin.cpp.o [ 93%] Building CXX object Libs/Widgets/Plugins/CMakeFiles/CTKWidgetsPlugins.dir/moc_ctkWorkflowWidgetStepPlugin.cpp.o [ 93%] Building CXX object Libs/Widgets/Plugins/CMakeFiles/CTKWidgetsPlugins.dir/qrc_ctkWidgetsPlugins.cpp.o collect2: error: ld returned 1 exit status make[8]: *** [Applications/ctkDICOM/CMakeFiles/ctkDICOM.dir/build.make:108: bin/ctkDICOM] Error 1 make[7]: *** [CMakeFiles/Makefile2:1195: Applications/ctkDICOM/CMakeFiles/ctkDICOM.dir/all] Error 2 make[7]: *** Waiting for unfinished jobs....

Should dcmtk be compiled with gcc-12 or is this a missing -lstdc++ flag in cmake?

$nm -CD /usr/lib/libstdc++.so.6|grep ios_base_library                                                                                                                                    00000000000c2460 T std::ios_base_library_init()@@GLIBCXX_3.4.32 $pacown /usr/lib/libstdc++.so.6                                                                                                                                                          /usr/lib/libstdc++.so.6 is owned by gcc-libs 13.1.1-2

hottea commented on 2023-05-27 07:19 (UTC)

@viper2642 Your build log is not enough for debugging.

viper2642 commented on 2023-05-24 07:48 (UTC)

I get the following build error:

[ 13%] Built target CommonCore-objects [ 13%] Linking C shared library ../../../../lib/libvtkhdf5-9.1.so [ 13%] Built target vtkhdf5_src make[3]: *** [Makefile:136: all] Error 2 make[2]: *** [CMakeFiles/VTK.dir/build.make:91: VTK-prefix/src/VTK-stamp/VTK-build] Error 2 make[1]: *** [CMakeFiles/Makefile2:726: CMakeFiles/VTK.dir/all] Error 2 make: *** [Makefile:91: all] Error 2 make: Leaving directory '/home/dpfeffer/.cache/yay/3dslicer/src/build' ==> ERROR: A failure occurred in build(). Aborting...  -> error making: 3dslicer-exit status 4  -> Failed to install the following packages. Manual intervention is  required: 3dslicer - exit status 4

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