Problem to build Slicer?!

shahrokh · June 15, 2019, 3:07pm

Hi Dears 3DSlicer developers

I want to build Slicer as mentioned in the site of https://www.slicer.org/wiki/Documentation/Nightly/Developers/Build_Instructions.
I do the following steps:

(base) [sn@localhost ~]$ uname --all
Linux localhost.localdomain 4.8.6-300.fc25.x86_64 #1 SMP Tue Nov 1 12:36:38 UTC 2016 x86_64 x86_64 x86_64 GNU/Linux
(base) [sn@localhost ~]$ sudo dnf list git-core svn libX11-devel libXt-devel mesa-libGL-devel mesa-libGLU-devel cmake tcl-devel python-devel qt-devel qt-webkit-devel
[sudo] password for sn: 
Last metadata expiration check: 1:17:27 ago on Sat Jun 15 17:51:12 2019.
Installed Packages
cmake.x86_64                                                       3.6.2-6.fc25                                                @fedora
git-core.x86_64                                                    2.9.3-1.fc25                                                anaconda
libX11-devel.i686                                                  1.6.5-1.fc25                                                @updates 
libX11-devel.x86_64                                                1.6.5-1.fc25                                                @updates 
libXt-devel.x86_64                                                 1.1.5-3.fc24                                                @fedora  
mesa-libGL-devel.x86_64                                            17.0.5-3.fc25                                               @updates 
mesa-libGLU-devel.x86_64                                           9.0.0-10.fc24                                               @fedora  
python-devel.x86_64                                                2.7.13-2.fc25                                               @updates 
qt-devel.x86_64                                                    1:4.8.7-18.fc25                                             @fedora  
tcl-devel.x86_64                                                   1:8.6.6-1.fc25                                              @fedora  
Available Packages
cmake.i686                                                         3.9.1-1.fc25                                                updates  
cmake.x86_64                                                       3.9.1-1.fc25                                                updates  
git-core.x86_64                                                    2.9.5-3.fc25                                                updates  
libXt-devel.i686                                                   1.1.5-3.fc24                                                fedora   
mesa-libGL-devel.i686                                              17.0.5-3.fc25                                               updates  
mesa-libGLU-devel.i686                                             9.0.0-10.fc24                                               fedora   
python-devel.i686                                                  2.7.13-3.fc25                                               updates  
python-devel.x86_64                                                2.7.13-3.fc25                                               updates  
qt-devel.i686                                                      1:4.8.7-18.fc25                                             fedora   
tcl-devel.i686                                                     1:8.6.6-1.fc25                                              fedora   
(base) [sn@localhost ~]$ sudo dnf groupinstall "Development Tools"
...
Last metadata expiration check: 1:19:38 ago on Sat Jun 15 17:51:12 2019.
Group 'Development Tools' is already installed, skipping.
Dependencies resolved.
Nothing to do.
Complete!
(base) [sn@localhost ~]$

So I have installed the packages mentioned in the site. Also, I check Qt installed usig qtdiag:

(base) [sn@localhost Slicer-SuperBuild-Debug]$ qtdiag 
Qt 5.9.7 (x86_64-little_endian-lp64 shared (dynamic) release build; by GCC 7.3.0) on "xcb" 
OS: Fedora 25 (Workstation Edition) [linux version 4.8.6-300.fc25.x86_64]
...

I think that I installed Qt (5.9.7) correctly. At now, I enter the following commands:

(base) [sn@localhost ~]$ git clone https://github.com/Slicer/Slicer.git
...
(base) [sn@localhost ~]$ mkdir Slicer-SuperBuild-Debug
(base) [sn@localhost ~]$ cd Slicer-SuperBuild-Debug/
(base) [sn@localhost Slicer-SuperBuild-Debug]$ /home/sn/cmake3.15.0-rc1/cmake-3.15.0-rc1-Linux-x86_64/bin/cmake  ../Slicer
(base) [sn@localhost Slicer-SuperBuild-Debug]$ make -j5
...
-- Up-to-date: /home/sn/Slicer-SuperBuild-Debug/python-install/lib/python3.6/zipapp.py
-- Up-to-date: /home/sn/Slicer-SuperBuild-Debug/python-install/lib/python3.6/zipfile.py
Generating grammar tables from /home/sn/Slicer-SuperBuild-Debug/python-install/lib/python3.6/lib2to3/Grammar.txt
Writing grammar tables to /home/sn/Slicer-SuperBuild-Debug/python-install/lib/python3.6/lib2to3/Grammar3.6.7.final.0.pickle
Generating grammar tables from /home/sn/Slicer-SuperBuild-Debug/python-install/lib/python3.6/lib2to3/PatternGrammar.txt
Writing grammar tables to /home/sn/Slicer-SuperBuild-Debug/python-install/lib/python3.6/lib2to3/PatternGrammar3.6.7.final.0.pickle
[ 38%] Performing configure_python_launcher step for 'python'
-- Copying '/home/sn/Slicer/Base/QTCore/Resources/Certs/Slicer.crt' to '/home/sn/Slicer-SuperBuild-Debug/Slicer-build/share/Slicer-4.11/Slicer.crt'
[ 38%] Completed 'python'
[ 39%] Built target python
Makefile:94: recipe for target 'all' failed
make: *** [all] Error 2
(base) [sn@localhost Slicer-SuperBuild-Debug]$

Why do I get this error?
Please guide me.
Thanks a lot.
Shahrokh

pieper · June 15, 2019, 3:32pm

Hi -

It looks like you cut the actual error message out of the build log. Run make again without the -j5 and it will stop on the actual error.

HTH

shahrokh · June 16, 2019, 5:24am

Hi
Thanks for your guidance. I did as you said.

(base) [sn@localhost ~]$ mkdir Slicer-SuperBuild-Debug
(base) [sn@localhost ~]$ cd Slicer-SuperBuild-Debug/
(base) [sn@localhost Slicer-SuperBuild-Debug]$ /home/sn/cmake3.15.0-rc1/cmake-3.15.0-rc1-Linux-x86_64/bin/cmake  ../Slicer
...
(base) [sn@localhost Slicer-SuperBuild-Debug]$ make
...
- Looking for CMake command CONFIGURE_PACKAGE_CONFIG_FILE
-- Looking for CMake command CONFIGURE_PACKAGE_CONFIG_FILE - found
-- Looking for CMake command WRITE_BASIC_PACKAGE_VERSION_FILE
-- Looking for CMake command WRITE_BASIC_PACKAGE_VERSION_FILE - found
-- Configuring done
-- Generating done
-- Build files have been written to: /home/sn/Slicer-SuperBuild-Debug/DCMTK-build
[ 47%] Performing build step for 'DCMTK'
[  2%] Built target ofstd
[  2%] Linking CXX executable ../../bin/ofstd_tests
../../lib/libofstd.so.3.6.3: undefined reference to `ucnv_close_57'
../../lib/libofstd.so.3.6.3: undefined reference to `ucnv_setToUCallBack_57'
../../lib/libofstd.so.3.6.3: undefined reference to `ucnv_getFromUCallBack_57'
../../lib/libofstd.so.3.6.3: undefined reference to `ucnv_open_57'
../../lib/libofstd.so.3.6.3: undefined reference to `ucnv_convertEx_57'
../../lib/libofstd.so.3.6.3: undefined reference to `u_errorName_57'
../../lib/libofstd.so.3.6.3: undefined reference to `UCNV_FROM_U_CALLBACK_STOP_57'
../../lib/libofstd.so.3.6.3: undefined reference to `UCNV_FROM_U_CALLBACK_SKIP_57'
../../lib/libofstd.so.3.6.3: undefined reference to `ucnv_getName_57'
../../lib/libofstd.so.3.6.3: undefined reference to `UCNV_TO_U_CALLBACK_STOP_57'
../../lib/libofstd.so.3.6.3: undefined reference to `ucnv_setFromUCallBack_57'
../../lib/libofstd.so.3.6.3: undefined reference to `UCNV_TO_U_CALLBACK_SKIP_57'
collect2: error: ld returned 1 exit status
ofstd/tests/CMakeFiles/ofstd_tests.dir/build.make:431: recipe for target 'bin/ofstd_tests' failed
make[5]: *** [bin/ofstd_tests] Error 1
CMakeFiles/Makefile2:353: recipe for target 'ofstd/tests/CMakeFiles/ofstd_tests.dir/all' failed
make[4]: *** [ofstd/tests/CMakeFiles/ofstd_tests.dir/all] Error 2
Makefile:140: recipe for target 'all' failed
make[3]: *** [all] Error 2
CMakeFiles/DCMTK.dir/build.make:113: recipe for target 'DCMTK-prefix/src/DCMTK-stamp/DCMTK-build' failed
make[2]: *** [DCMTK-prefix/src/DCMTK-stamp/DCMTK-build] Error 2
CMakeFiles/Makefile2:862: recipe for target 'CMakeFiles/DCMTK.dir/all' failed
make[1]: *** [CMakeFiles/DCMTK.dir/all] Error 2
Makefile:94: recipe for target 'all' failed
make: *** [all] Error 2
(base) [sn@localhost Slicer-SuperBuild-Debug]$

Please guide me.
Shahrokh

pieper · June 16, 2019, 7:49pm

Hmm, thanks for the extra information. It looks like something in the way DCMTK is using ICU. Maybe you need to install that too. If that works we can update the wiki to indicate it’s a requirement.

github.com

commontk/DCMTK/blob/patched-DCMTK-3.6.3_20180621/ofstd/libsrc/ofchrenc.cc#L56


const unsigned int OFCharacterEncoding::CPC_OEM    = CP_OEMCP;
const unsigned int OFCharacterEncoding::CPC_ASCII  = 20127;
const unsigned int OFCharacterEncoding::CPC_Latin1 = 28591;
const unsigned int OFCharacterEncoding::CPC_UTF8   = CP_UTF8;
#endif


/*------------------*
 *  implementation  *
 *------------------*/


#ifdef DCMTK_ENABLE_CHARSET_CONVERSION
#if DCMTK_ENABLE_CHARSET_CONVERSION == DCMTK_CHARSET_CONVERSION_ICU
#include <unicode/ucnv.h>
#include <unicode/ucnv_err.h>


#define CONVERSION_BUFFER_SIZE 1024


class OFCharacterEncoding::Implementation
{


  public:

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