any help please !
Please inspect and post the (tail of the) configure.log file as instructed in the error message. Without it, it is hard to figure out what is going wrong…
thank u @bjeurissen for your replay
this is the configure.log file
REPORT:
MRtrix build type requested: release version
PATH set to: /usr/local/fsl/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/usr/local/games:/mnt/c/Program Files/WindowsApps/CanonicalGroupLimited.Ubuntu20.04onWindows_2004.2020.812.0_x64__79rhkp1fndgsc:/mnt/c/Windows/system32:/mnt/c/Windows:/mnt/c/Windows/System32/Wbem:/mnt/c/Windows/System32/WindowsPowerShell/v1.0/:/mnt/c/Windows/System32/OpenSSH/:/mnt/c/Users/LENOVO/AppData/Local/Microsoft/WindowsApps:/snap/bin
REPORT: Detecting OS: linux
REPORT: Looking for compiler [clang++]:
EXEC <<
CMD: clang++ --version
error invoking command "clang++": No such file or directory
>>
REPORT: not found
REPORT: Looking for compiler [g++]:
EXEC <<
CMD: g++ --version
EXIT: 0
STDOUT:
g++ (Ubuntu 9.3.0-17ubuntu1~20.04) 9.3.0
Copyright (C) 2019 Free Software Foundation, Inc.
This is free software; see the source for copying conditions. There is NO
warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
>>
REPORT: g++ (Ubuntu 9.3.0-17ubuntu1~20.04) 9.3.0
REPORT: Checking for C++11 compliance:
COMPILE /tmp/tmp_6av6qty.cpp:
---
#include <cstddef>
struct Base {
Base (int);
};
struct Derived : Base {
using Base::Base;
};
int main() {
Derived D (int); // check for contructor inheritance
return 0;
}
---
EXEC <<
CMD: g++ -c -std=c++11 -DMRTRIX_BUILD_TYPE="release version" -pthread -fPIC /tmp/tmp_6av6qty.cpp -o /tmp/tmp_6av6qty.o
EXIT: 0
>>
EXEC <<
CMD: g++ /tmp/tmp_6av6qty.o -Wl,--sort-common,--as-needed -pthread -o a.out
EXIT: 0
>>
EXEC <<
CMD: ./a.out
EXIT: 0
>>
REPORT: ok
REPORT: Checking shared library generation:
EXEC <<
CMD: g++ -c -std=c++11 -DMRTRIX_BUILD_TYPE="release version" -pthread -fPIC /tmp/tmpz5i1512s.cpp -o /tmp/tmpz5i1512s.o
EXIT: 0
>>
EXEC <<
CMD: g++ /tmp/tmpz5i1512s.o -shared -Wl,--sort-common,--as-needed -pthread -o libtest.so
EXIT: 0
>>
REPORT: ok
REPORT: Detecting pointer size:
COMPILE /tmp/tmpu7hxdf8k.cpp:
---
#include <iostream>
int main() {
std::cout << sizeof(void*);
return (0);
}
---
EXEC <<
CMD: g++ -c -std=c++11 -DMRTRIX_BUILD_TYPE="release version" -pthread -fPIC /tmp/tmpu7hxdf8k.cpp -o /tmp/tmpu7hxdf8k.o
EXIT: 0
>>
EXEC <<
CMD: g++ /tmp/tmpu7hxdf8k.o -Wl,--sort-common,--as-needed -pthread -o a.out
EXIT: 0
>>
EXEC <<
CMD: ./a.out
EXIT: 0
STDOUT:
8
>>
REPORT: 64 bit
REPORT: Detecting byte order:
REPORT: little-endian
REPORT: Checking for variable-length array support:
COMPILE /tmp/tmp3xvwp8ot.cpp:
---
int main(int argc, char* argv[]) {
int x[argc];
return 0;
}
---
EXEC <<
CMD: g++ -c -std=c++11 -DMRTRIX_BUILD_TYPE="release version" -pthread -fPIC -DMRTRIX_WORD64 /tmp/tmp3xvwp8ot.cpp -o /tmp/tmp3xvwp8ot.o
EXIT: 0
>>
EXEC <<
CMD: g++ /tmp/tmp3xvwp8ot.o -Wl,--sort-common,--as-needed -pthread -o a.out
EXIT: 0
>>
EXEC <<
CMD: ./a.out
EXIT: 0
>>
REPORT: ok
REPORT: Checking for non-POD variable-length array support:
COMPILE /tmp/tmputp6eu43.cpp:
---
#include <string>
class X {
int x;
double y;
std::string s;
};
int main(int argc, char* argv[]) {
X x[argc];
return 0;
}
---
EXEC <<
CMD: g++ -c -std=c++11 -DMRTRIX_BUILD_TYPE="release version" -pthread -fPIC -DMRTRIX_WORD64 /tmp/tmputp6eu43.cpp -o /tmp/tmputp6eu43.o
EXIT: 0
>>
EXEC <<
CMD: g++ /tmp/tmputp6eu43.o -Wl,--sort-common,--as-needed -pthread -o a.out
EXIT: 0
>>
EXEC <<
CMD: ./a.out
EXIT: 0
>>
REPORT: ok
REPORT: Checking for ::max_align_t:
COMPILE /tmp/tmprnfql4i1.cpp:
---
#include <iostream>
#include <cstddef>
using ::max_align_t;
int main() {
std::cout << alignof (max_align_t) << " bytes\n";
return 0;
}
---
EXEC <<
CMD: g++ -c -std=c++11 -DMRTRIX_BUILD_TYPE="release version" -pthread -fPIC -DMRTRIX_WORD64 /tmp/tmprnfql4i1.cpp -o /tmp/tmprnfql4i1.o
EXIT: 0
>>
EXEC <<
CMD: g++ /tmp/tmprnfql4i1.o -Wl,--sort-common,--as-needed -pthread -o a.out
EXIT: 0
>>
EXEC <<
CMD: ./a.out
EXIT: 0
STDOUT:
16 bytes
>>
REPORT: 16 bytes
REPORT: Checking for std::max_align_t:
COMPILE /tmp/tmp84dgrbi4.cpp:
---
#include <iostream>
#include <cstddef>
using std::max_align_t;
int main() {
std::cout << alignof (max_align_t) << " bytes\n";
return 0;
}
---
EXEC <<
CMD: g++ -c -std=c++11 -DMRTRIX_BUILD_TYPE="release version" -pthread -fPIC -DMRTRIX_WORD64 /tmp/tmp84dgrbi4.cpp -o /tmp/tmp84dgrbi4.o
EXIT: 0
>>
EXEC <<
CMD: g++ /tmp/tmp84dgrbi4.o -Wl,--sort-common,--as-needed -pthread -o a.out
EXIT: 0
>>
EXEC <<
CMD: ./a.out
EXIT: 0
STDOUT:
16 bytes
>>
REPORT: 16 bytes
EXEC <<
CMD: pkg-config --cflags eigen3
EXIT: 0
STDOUT:
-I/usr/include/eigen3
>>
REPORT: Checking for Eigen3 library:
COMPILE /tmp/tmpsadoa_gb.cpp:
---
#include <cstddef>
#include <Eigen/Core>
#include <iostream>
int main (int argc, char* argv[]) {
std::cout << EIGEN_WORLD_VERSION << "." << EIGEN_MAJOR_VERSION << "." << EIGEN_MINOR_VERSION << "\n";
return 0;
}
---
EXEC <<
CMD: g++ -c -std=c++11 -DMRTRIX_BUILD_TYPE="release version" -pthread -fPIC -DMRTRIX_WORD64 -idirafter /usr/include/eigen3 /tmp/tmpsadoa_gb.cpp -o /tmp/tmpsadoa_gb.o
EXIT: 0
>>
EXEC <<
CMD: g++ /tmp/tmpsadoa_gb.o -Wl,--sort-common,--as-needed -pthread -o a.out
EXIT: 0
>>
EXEC <<
CMD: ./a.out
EXIT: 0
STDOUT:
3.3.7
>>
REPORT: 3.3.7
REPORT: Checking for Eigen3 Unsupported:
COMPILE /tmp/tmpbe6kxudx.cpp:
---
#include <iostream>
#include <Eigen/Core>
#include <unsupported/Eigen/SpecialFunctions>
using array_type = Eigen::Array<double, 1, 1>;
int main (int argc, char* argv[]) {
auto test = Eigen::betainc (array_type::Constant (10.0), array_type::Constant (0.5), array_type::Constant (1.0));
std::cout << "Present";
return (0);
}
---
EXEC <<
CMD: g++ -c -std=c++11 -DMRTRIX_BUILD_TYPE="release version" -pthread -fPIC -DMRTRIX_WORD64 -idirafter /usr/include/eigen3 -DEIGEN_DONT_PARALLELIZE /tmp/tmpbe6kxudx.cpp -o /tmp/tmpbe6kxudx.o
EXIT: 0
>>
EXEC <<
CMD: g++ /tmp/tmpbe6kxudx.o -Wl,--sort-common,--as-needed -pthread -o a.out
EXIT: 0
>>
EXEC <<
CMD: ./a.out
EXIT: 0
STDOUT:
Present
>>
REPORT: Present
EXEC <<
CMD: pkg-config --cflags zlib
EXIT: 0
>>
EXEC <<
CMD: pkg-config --libs zlib
EXIT: 0
STDOUT:
-lz
>>
REPORT: Checking for zlib compression library:
COMPILE /tmp/tmp0qs7nvp7.cpp:
---
#include <iostream>
#include <zlib.h>
int main() {
std::cout << zlibVersion();
return (0);
}
---
EXEC <<
CMD: g++ -c -std=c++11 -DMRTRIX_BUILD_TYPE="release version" -pthread -fPIC -DMRTRIX_WORD64 -DMRTRIX_HAVE_EIGEN_UNSUPPORTED_SPECIAL_FUNCTIONS /tmp/tmp0qs7nvp7.cpp -o /tmp/tmp0qs7nvp7.o
EXIT: 0
>>
EXEC <<
CMD: g++ /tmp/tmp0qs7nvp7.o -Wl,--sort-common,--as-needed -pthread -lz -o a.out
EXIT: 0
>>
EXEC <<
CMD: ./a.out
EXIT: 0
STDOUT:
1.2.11
>>
REPORT: 1.2.11
REPORT: Checking for "JSON for Modern C++" requirements:
COMPILE /tmp/tmpj4a9xchd.cpp:
---
#include "file/json.h"
int main (int argc, char* argv[])
{
nlohmann::json json;
json["key"] = "value";
}
---
EXEC <<
CMD: g++ -c -std=c++11 -DMRTRIX_BUILD_TYPE="release version" -pthread -fPIC -DMRTRIX_WORD64 -DMRTRIX_HAVE_EIGEN_UNSUPPORTED_SPECIAL_FUNCTIONS -I/home/zeraiiabderrazek12609848/mrtrix3/core /tmp/tmpj4a9xchd.cpp -o /tmp/tmpj4a9xchd.o
EXIT: 0
>>
EXEC <<
CMD: g++ /tmp/tmpj4a9xchd.o -Wl,--sort-common,--as-needed -pthread -lz -o a.out
EXIT: 0
>>
EXEC <<
CMD: ./a.out
EXIT: 0
>>
REPORT: ok
EXEC <<
CMD: pkg-config --cflags libtiff-4
EXIT: 0
STDOUT:
-I/usr/include/x86_64-linux-gnu
>>
EXEC <<
CMD: pkg-config --libs libtiff-4
EXIT: 0
STDOUT:
-ltiff
>>
REPORT: Checking for TIFF library:
COMPILE /tmp/tmp429otwv0.cpp:
---
#include <iostream>
#include <tiffio.h>
int main() {
std::cout << TIFFGetVersion();
return (0);
}
---
EXEC <<
CMD: g++ -c -std=c++11 -DMRTRIX_BUILD_TYPE="release version" -pthread -fPIC -DMRTRIX_WORD64 -DMRTRIX_HAVE_EIGEN_UNSUPPORTED_SPECIAL_FUNCTIONS -idirafter /usr/include/x86_64-linux-gnu /tmp/tmp429otwv0.cpp -o /tmp/tmp429otwv0.o
EXIT: 0
>>
EXEC <<
CMD: g++ /tmp/tmp429otwv0.o -Wl,--sort-common,--as-needed -pthread -lz -ltiff -o a.out
EXIT: 0
>>
EXEC <<
CMD: ./a.out
EXIT: 0
STDOUT:
LIBTIFF, Version 4.1.0
Copyright (c) 1988-1996 Sam Leffler
Copyright (c) 1991-1996 Silicon Graphics, Inc.
>>
REPORT: LIBTIFF, Version 4.1.0
EXEC <<
CMD: pkg-config --cflags libpng
EXIT: 0
STDOUT:
-I/usr/include/libpng16
>>
EXEC <<
CMD: pkg-config --libs libpng
EXIT: 0
STDOUT:
-lpng16 -lz
>>
REPORT: Checking for PNG library:
COMPILE /tmp/tmpr28pgjnr.cpp:
---
#include <iostream>
#include <png.h>
int main() {
std::cout << "Header: " << PNG_LIBPNG_VER_STRING << "; library: " << png_libpng_ver;
return (0);
}
---
EXEC <<
CMD: g++ -c -std=c++11 -DMRTRIX_BUILD_TYPE="release version" -pthread -fPIC -DMRTRIX_WORD64 -DMRTRIX_HAVE_EIGEN_UNSUPPORTED_SPECIAL_FUNCTIONS -DMRTRIX_TIFF_SUPPORT -idirafter /usr/include/x86_64-linux-gnu -idirafter /usr/include/libpng16 /tmp/tmpr28pgjnr.cpp -o /tmp/tmpr28pgjnr.o
EXIT: 0
>>
EXEC <<
CMD: g++ /tmp/tmpr28pgjnr.o -Wl,--sort-common,--as-needed -pthread -lz -ltiff -lpng16 -lz -o a.out
EXIT: 0
>>
EXEC <<
CMD: ./a.out
EXIT: 0
STDOUT:
Header: 1.6.37; library: 1.6.37
>>
REPORT: Header: 1.6.37; library: 1.6.37
EXEC <<
CMD: pkg-config --cflags fftw3
EXIT: 0
>>
EXEC <<
CMD: pkg-config --libs fftw3
EXIT: 0
STDOUT:
-lfftw3
>>
REPORT: Checking for FFTW library:
COMPILE /tmp/tmpe148884k.cpp:
---
#include <iostream>
#include <fftw3.h>
int main() {
std::cout << fftw_version << "\n";
return (0);
}
---
EXEC <<
CMD: g++ -c -std=c++11 -DMRTRIX_BUILD_TYPE="release version" -pthread -fPIC -DMRTRIX_WORD64 -DMRTRIX_HAVE_EIGEN_UNSUPPORTED_SPECIAL_FUNCTIONS -DMRTRIX_TIFF_SUPPORT -idirafter /usr/include/x86_64-linux-gnu -DMRTRIX_PNG_SUPPORT -idirafter /usr/include/libpng16 /tmp/tmpe148884k.cpp -o /tmp/tmpe148884k.o
EXIT: 0
>>
EXEC <<
CMD: g++ /tmp/tmpe148884k.o -Wl,--sort-common,--as-needed -pthread -lz -ltiff -lpng16 -lz -lfftw3 -o a.out
EXIT: 0
>>
EXEC <<
CMD: ./a.out
EXIT: 0
STDOUT:
fftw-3.3.8-sse2-avx
>>
REPORT: fftw-3.3.8-sse2-avx
REPORT: Checking for Qt moc:
EXEC <<
CMD: moc -v
EXIT: 0
STDOUT:
moc 5.12.8
>>
REPORT: moc (version 5.12.8)
REPORT: Checking for Qt qmake:
EXEC <<
CMD: qmake -v
EXIT: 0
STDOUT:
QMake version 3.1
Using Qt version 5.12.8 in /usr/lib/x86_64-linux-gnu
>>
REPORT: qmake (version 5.12.8)
REPORT: Checking for Qt rcc:
EXEC <<
CMD: rcc -v
EXIT: 0
STDOUT:
rcc 5.12.8
>>
REPORT: rcc (version 5.12.8)
REPORT: Checking for Qt:
source file "qt.h":
---
#include <QObject>
class Foo: public QObject {
Q_OBJECT;
public:
Foo();
~Foo();
public slots:
void setValue(int value);
signals:
void valueChanged (int newValue);
private:
int value_;
};
---
source file "qt.cpp":
---
#include <iostream>
#include "qt.h"
Foo::Foo() : value_ (42) { connect (this, SIGNAL(valueChanged(int)), this, SLOT(setValue(int))); }
Foo::~Foo() { std::cout << qVersion() << "\n"; }
void Foo::setValue (int value) { value_ = value; }
int main() { Foo f; }
---
project file "qt.pro":
---
CONFIG += c++11
QT += core gui opengl svg network
HEADERS += qt.h
SOURCES += qt.cpp
---
EXEC <<
CMD: qmake
EXIT: 0
STDOUT:
Info: creating stash file /tmp/tmpi5ek7cax/.qmake.stash
>>
reading Qt parameters from file 'Makefile'... ok
qt_defines: ['-DQT_NO_DEBUG', '-DQT_OPENGL_LIB', '-DQT_SVG_LIB', '-DQT_WIDGETS_LIB', '-DQT_GUI_LIB', '-DQT_NETWORK_LIB', '-DQT_CORE_LIB']
qt_cflags: ['-pipe', '-O2', '-std=gnu++11', '-Wall', '-W', '-D_REENTRANT', '-fPIC', '$(DEFINES)']
qt_includes: ['-I.', '-isystem', '/usr/include/x86_64-linux-gnu/qt5', '-isystem', '/usr/include/x86_64-linux-gnu/qt5/QtOpenGL', '-isystem', '/usr/include/x86_64-linux-gnu/qt5/QtSvg', '-isystem', '/usr/include/x86_64-linux-gnu/qt5/QtWidgets', '-isystem', '/usr/include/x86_64-linux-gnu/qt5/QtGui', '-isystem', '/usr/include/x86_64-linux-gnu/qt5/QtNetwork', '-isystem', '/usr/include/x86_64-linux-gnu/qt5/QtCore', '-I.', '-I/usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++']
qt_libs: ['$(SUBLIBS)', '/usr/lib/x86_64-linux-gnu/libQt5OpenGL.so', '/usr/lib/x86_64-linux-gnu/libQt5Svg.so', '/usr/lib/x86_64-linux-gnu/libQt5Widgets.so', '/usr/lib/x86_64-linux-gnu/libQt5Gui.so', '/usr/lib/x86_64-linux-gnu/libQt5Network.so', '/usr/lib/x86_64-linux-gnu/libQt5Core.so', '/usr/lib/x86_64-linux-gnu/libGL.so', '-lpthread']
qt_ldflags: ['-Wl,-O1']
EXEC <<
CMD: moc qt.h -o qt_moc.cpp
EXIT: 0
>>
EXEC <<
CMD: g++ -c -std=c++11 -DMRTRIX_BUILD_TYPE="release version" -pthread -fPIC -DMRTRIX_WORD64 -DMRTRIX_HAVE_EIGEN_UNSUPPORTED_SPECIAL_FUNCTIONS -DMRTRIX_TIFF_SUPPORT -idirafter /usr/include/x86_64-linux-gnu -DMRTRIX_PNG_SUPPORT -idirafter /usr/include/libpng16 -DEIGEN_FFTW_DEFAULT -pipe -std=gnu++11 -Wall -W -D_REENTRANT -fPIC -DQT_NO_DEBUG -DQT_OPENGL_LIB -DQT_SVG_LIB -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_NETWORK_LIB -DQT_CORE_LIB -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtOpenGL -isystem /usr/include/x86_64-linux-gnu/qt5/QtSvg -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtNetwork -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -idirafter /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ qt.cpp -o qt.o
EXIT: 0
>>
EXEC <<
CMD: g++ -c -std=c++11 -DMRTRIX_BUILD_TYPE="release version" -pthread -fPIC -DMRTRIX_WORD64 -DMRTRIX_HAVE_EIGEN_UNSUPPORTED_SPECIAL_FUNCTIONS -DMRTRIX_TIFF_SUPPORT -idirafter /usr/include/x86_64-linux-gnu -DMRTRIX_PNG_SUPPORT -idirafter /usr/include/libpng16 -DEIGEN_FFTW_DEFAULT -pipe -std=gnu++11 -Wall -W -D_REENTRANT -fPIC -DQT_NO_DEBUG -DQT_OPENGL_LIB -DQT_SVG_LIB -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_NETWORK_LIB -DQT_CORE_LIB -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtOpenGL -isystem /usr/include/x86_64-linux-gnu/qt5/QtSvg -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtNetwork -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -idirafter /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ qt_moc.cpp -o qt_moc.o
EXIT: 0
>>
EXEC <<
CMD: g++ -Wl,--sort-common,--as-needed -pthread -lz -ltiff -lpng16 -lz -lfftw3 qt_moc.o qt.o -o qt -Wl,-O1 /usr/lib/x86_64-linux-gnu/libQt5OpenGL.so /usr/lib/x86_64-linux-gnu/libQt5Svg.so /usr/lib/x86_64-linux-gnu/libQt5Widgets.so /usr/lib/x86_64-linux-gnu/libQt5Gui.so /usr/lib/x86_64-linux-gnu/libQt5Network.so /usr/lib/x86_64-linux-gnu/libQt5Core.so /usr/lib/x86_64-linux-gnu/libGL.so -lpthread
EXIT: 0
>>
EXEC <<
CMD: /tmp/tmpi5ek7cax/qt
EXIT: 127
STDERR:
/tmp/tmpi5ek7cax/qt: error while loading shared libraries: libQt5Core.so.5: cannot open shared object file: No such file or directory
>>
ERROR: error running Qt application!
REPORT:
MRtrix build type requested: release version
PATH set to: /usr/local/fsl/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/usr/local/games:/mnt/c/Program Files/WindowsApps/CanonicalGroupLimited.Ubuntu20.04onWindows_2004.2020.812.0_x64__79rhkp1fndgsc:/mnt/c/Windows/system32:/mnt/c/Windows:/mnt/c/Windows/System32/Wbem:/mnt/c/Windows/System32/WindowsPowerShell/v1.0/:/mnt/c/Windows/System32/OpenSSH/:/mnt/c/Users/LENOVO/AppData/Local/Microsoft/WindowsApps:/snap/bin
REPORT: Detecting OS: linux
REPORT: Looking for compiler [clang++]:
EXEC <<
CMD: clang++ --version
error invoking command "clang++": No such file or directory
>>
REPORT: not found
REPORT: Looking for compiler [g++]:
EXEC <<
CMD: g++ --version
EXIT: 0
STDOUT:
g++ (Ubuntu 9.3.0-17ubuntu1~20.04) 9.3.0
Copyright (C) 2019 Free Software Foundation, Inc.
This is free software; see the source for copying conditions. There is NO
warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
>>
REPORT: g++ (Ubuntu 9.3.0-17ubuntu1~20.04) 9.3.0
REPORT: Checking for C++11 compliance:
COMPILE /tmp/tmp_6av6qty.cpp:
---
#include <cstddef>
struct Base {
Base (int);
};
struct Derived : Base {
using Base::Base;
};
int main() {
Derived D (int); // check for contructor inheritance
return 0;
}
---
EXEC <<
CMD: g++ -c -std=c++11 -DMRTRIX_BUILD_TYPE="release version" -pthread -fPIC /tmp/tmp_6av6qty.cpp -o /tmp/tmp_6av6qty.o
EXIT: 0
>>
EXEC <<
CMD: g++ /tmp/tmp_6av6qty.o -Wl,--sort-common,--as-needed -pthread -o a.out
EXIT: 0
>>
EXEC <<
CMD: ./a.out
EXIT: 0
>>
REPORT: ok
REPORT: Checking shared library generation:
EXEC <<
CMD: g++ -c -std=c++11 -DMRTRIX_BUILD_TYPE="release version" -pthread -fPIC /tmp/tmpz5i1512s.cpp -o /tmp/tmpz5i1512s.o
EXIT: 0
>>
EXEC <<
CMD: g++ /tmp/tmpz5i1512s.o -shared -Wl,--sort-common,--as-needed -pthread -o libtest.so
EXIT: 0
>>
REPORT: ok
REPORT: Detecting pointer size:
COMPILE /tmp/tmpu7hxdf8k.cpp:
---
#include <iostream>
int main() {
std::cout << sizeof(void*);
return (0);
}
---
EXEC <<
CMD: g++ -c -std=c++11 -DMRTRIX_BUILD_TYPE="release version" -pthread -fPIC /tmp/tmpu7hxdf8k.cpp -o /tmp/tmpu7hxdf8k.o
EXIT: 0
>>
EXEC <<
CMD: g++ /tmp/tmpu7hxdf8k.o -Wl,--sort-common,--as-needed -pthread -o a.out
EXIT: 0
>>
EXEC <<
CMD: ./a.out
EXIT: 0
STDOUT:
8
>>
REPORT: 64 bit
REPORT: Detecting byte order:
REPORT: little-endian
REPORT: Checking for variable-length array support:
COMPILE /tmp/tmp3xvwp8ot.cpp:
---
int main(int argc, char* argv[]) {
int x[argc];
return 0;
}
---
EXEC <<
CMD: g++ -c -std=c++11 -DMRTRIX_BUILD_TYPE="release version" -pthread -fPIC -DMRTRIX_WORD64 /tmp/tmp3xvwp8ot.cpp -o /tmp/tmp3xvwp8ot.o
EXIT: 0
>>
EXEC <<
CMD: g++ /tmp/tmp3xvwp8ot.o -Wl,--sort-common,--as-needed -pthread -o a.out
EXIT: 0
>>
EXEC <<
CMD: ./a.out
EXIT: 0
>>
REPORT: ok
REPORT: Checking for non-POD variable-length array support:
COMPILE /tmp/tmputp6eu43.cpp:
---
#include <string>
class X {
int x;
double y;
std::string s;
};
int main(int argc, char* argv[]) {
X x[argc];
return 0;
}
---
EXEC <<
CMD: g++ -c -std=c++11 -DMRTRIX_BUILD_TYPE="release version" -pthread -fPIC -DMRTRIX_WORD64 /tmp/tmputp6eu43.cpp -o /tmp/tmputp6eu43.o
EXIT: 0
>>
EXEC <<
CMD: g++ /tmp/tmputp6eu43.o -Wl,--sort-common,--as-needed -pthread -o a.out
EXIT: 0
>>
EXEC <<
CMD: ./a.out
EXIT: 0
>>
REPORT: ok
REPORT: Checking for ::max_align_t:
COMPILE /tmp/tmprnfql4i1.cpp:
---
#include <iostream>
#include <cstddef>
using ::max_align_t;
int main() {
std::cout << alignof (max_align_t) << " bytes\n";
return 0;
}
---
EXEC <<
CMD: g++ -c -std=c++11 -DMRTRIX_BUILD_TYPE="release version" -pthread -fPIC -DMRTRIX_WORD64 /tmp/tmprnfql4i1.cpp -o /tmp/tmprnfql4i1.o
EXIT: 0
>>
EXEC <<
CMD: g++ /tmp/tmprnfql4i1.o -Wl,--sort-common,--as-needed -pthread -o a.out
EXIT: 0
>>
EXEC <<
CMD: ./a.out
EXIT: 0
STDOUT:
16 bytes
>>
REPORT: 16 bytes
REPORT: Checking for std::max_align_t:
COMPILE /tmp/tmp84dgrbi4.cpp:
---
#include <iostream>
#include <cstddef>
using std::max_align_t;
int main() {
std::cout << alignof (max_align_t) << " bytes\n";
return 0;
}
---
EXEC <<
CMD: g++ -c -std=c++11 -DMRTRIX_BUILD_TYPE="release version" -pthread -fPIC -DMRTRIX_WORD64 /tmp/tmp84dgrbi4.cpp -o /tmp/tmp84dgrbi4.o
EXIT: 0
>>
EXEC <<
CMD: g++ /tmp/tmp84dgrbi4.o -Wl,--sort-common,--as-needed -pthread -o a.out
EXIT: 0
>>
EXEC <<
CMD: ./a.out
EXIT: 0
STDOUT:
16 bytes
>>
REPORT: 16 bytes
EXEC <<
CMD: pkg-config --cflags eigen3
EXIT: 0
STDOUT:
-I/usr/include/eigen3
>>
REPORT: Checking for Eigen3 library:
COMPILE /tmp/tmpsadoa_gb.cpp:
---
#include <cstddef>
#include <Eigen/Core>
#include <iostream>
int main (int argc, char* argv[]) {
std::cout << EIGEN_WORLD_VERSION << "." << EIGEN_MAJOR_VERSION << "." << EIGEN_MINOR_VERSION << "\n";
return 0;
}
---
EXEC <<
CMD: g++ -c -std=c++11 -DMRTRIX_BUILD_TYPE="release version" -pthread -fPIC -DMRTRIX_WORD64 -idirafter /usr/include/eigen3 /tmp/tmpsadoa_gb.cpp -o /tmp/tmpsadoa_gb.o
EXIT: 0
>>
EXEC <<
CMD: g++ /tmp/tmpsadoa_gb.o -Wl,--sort-common,--as-needed -pthread -o a.out
EXIT: 0
>>
EXEC <<
CMD: ./a.out
EXIT: 0
STDOUT:
3.3.7
>>
REPORT: 3.3.7
REPORT: Checking for Eigen3 Unsupported:
COMPILE /tmp/tmpbe6kxudx.cpp:
---
#include <iostream>
#include <Eigen/Core>
#include <unsupported/Eigen/SpecialFunctions>
using array_type = Eigen::Array<double, 1, 1>;
int main (int argc, char* argv[]) {
auto test = Eigen::betainc (array_type::Constant (10.0), array_type::Constant (0.5), array_type::Constant (1.0));
std::cout << "Present";
return (0);
}
---
EXEC <<
CMD: g++ -c -std=c++11 -DMRTRIX_BUILD_TYPE="release version" -pthread -fPIC -DMRTRIX_WORD64 -idirafter /usr/include/eigen3 -DEIGEN_DONT_PARALLELIZE /tmp/tmpbe6kxudx.cpp -o /tmp/tmpbe6kxudx.o
EXIT: 0
>>
EXEC <<
CMD: g++ /tmp/tmpbe6kxudx.o -Wl,--sort-common,--as-needed -pthread -o a.out
EXIT: 0
>>
EXEC <<
CMD: ./a.out
EXIT: 0
STDOUT:
Present
>>
REPORT: Present
EXEC <<
CMD: pkg-config --cflags zlib
EXIT: 0
>>
EXEC <<
CMD: pkg-config --libs zlib
EXIT: 0
STDOUT:
-lz
>>
REPORT: Checking for zlib compression library:
COMPILE /tmp/tmp0qs7nvp7.cpp:
---
#include <iostream>
#include <zlib.h>
int main() {
std::cout << zlibVersion();
return (0);
}
---
EXEC <<
CMD: g++ -c -std=c++11 -DMRTRIX_BUILD_TYPE="release version" -pthread -fPIC -DMRTRIX_WORD64 -DMRTRIX_HAVE_EIGEN_UNSUPPORTED_SPECIAL_FUNCTIONS /tmp/tmp0qs7nvp7.cpp -o /tmp/tmp0qs7nvp7.o
EXIT: 0
>>
EXEC <<
CMD: g++ /tmp/tmp0qs7nvp7.o -Wl,--sort-common,--as-needed -pthread -lz -o a.out
EXIT: 0
>>
EXEC <<
CMD: ./a.out
EXIT: 0
STDOUT:
1.2.11
>>
REPORT: 1.2.11
REPORT: Checking for "JSON for Modern C++" requirements:
COMPILE /tmp/tmpj4a9xchd.cpp:
---
#include "file/json.h"
int main (int argc, char* argv[])
{
nlohmann::json json;
json["key"] = "value";
}
---
EXEC <<
CMD: g++ -c -std=c++11 -DMRTRIX_BUILD_TYPE="release version" -pthread -fPIC -DMRTRIX_WORD64 -DMRTRIX_HAVE_EIGEN_UNSUPPORTED_SPECIAL_FUNCTIONS -I/home/zeraiiabderrazek12609848/mrtrix3/core /tmp/tmpj4a9xchd.cpp -o /tmp/tmpj4a9xchd.o
EXIT: 0
>>
EXEC <<
CMD: g++ /tmp/tmpj4a9xchd.o -Wl,--sort-common,--as-needed -pthread -lz -o a.out
EXIT: 0
>>
EXEC <<
CMD: ./a.out
EXIT: 0
>>
REPORT: ok
EXEC <<
CMD: pkg-config --cflags libtiff-4
EXIT: 0
STDOUT:
-I/usr/include/x86_64-linux-gnu
>>
EXEC <<
CMD: pkg-config --libs libtiff-4
EXIT: 0
STDOUT:
-ltiff
>>
REPORT: Checking for TIFF library:
COMPILE /tmp/tmp429otwv0.cpp:
---
#include <iostream>
#include <tiffio.h>
int main() {
std::cout << TIFFGetVersion();
return (0);
}
---
EXEC <<
CMD: g++ -c -std=c++11 -DMRTRIX_BUILD_TYPE="release version" -pthread -fPIC -DMRTRIX_WORD64 -DMRTRIX_HAVE_EIGEN_UNSUPPORTED_SPECIAL_FUNCTIONS -idirafter /usr/include/x86_64-linux-gnu /tmp/tmp429otwv0.cpp -o /tmp/tmp429otwv0.o
EXIT: 0
>>
EXEC <<
CMD: g++ /tmp/tmp429otwv0.o -Wl,--sort-common,--as-needed -pthread -lz -ltiff -o a.out
EXIT: 0
>>
EXEC <<
CMD: ./a.out
EXIT: 0
STDOUT:
LIBTIFF, Version 4.1.0
Copyright (c) 1988-1996 Sam Leffler
Copyright (c) 1991-1996 Silicon Graphics, Inc.
>>
REPORT: LIBTIFF, Version 4.1.0
EXEC <<
CMD: pkg-config --cflags libpng
EXIT: 0
STDOUT:
-I/usr/include/libpng16
>>
EXEC <<
CMD: pkg-config --libs libpng
EXIT: 0
STDOUT:
-lpng16 -lz
>>
REPORT: Checking for PNG library:
COMPILE /tmp/tmpr28pgjnr.cpp:
---
#include <iostream>
#include <png.h>
int main() {
std::cout << "Header: " << PNG_LIBPNG_VER_STRING << "; library: " << png_libpng_ver;
return (0);
}
---
EXEC <<
CMD: g++ -c -std=c++11 -DMRTRIX_BUILD_TYPE="release version" -pthread -fPIC -DMRTRIX_WORD64 -DMRTRIX_HAVE_EIGEN_UNSUPPORTED_SPECIAL_FUNCTIONS -DMRTRIX_TIFF_SUPPORT -idirafter /usr/include/x86_64-linux-gnu -idirafter /usr/include/libpng16 /tmp/tmpr28pgjnr.cpp -o /tmp/tmpr28pgjnr.o
EXIT: 0
>>
EXEC <<
CMD: g++ /tmp/tmpr28pgjnr.o -Wl,--sort-common,--as-needed -pthread -lz -ltiff -lpng16 -lz -o a.out
EXIT: 0
>>
EXEC <<
CMD: ./a.out
EXIT: 0
STDOUT:
Header: 1.6.37; library: 1.6.37
>>
REPORT: Header: 1.6.37; library: 1.6.37
EXEC <<
CMD: pkg-config --cflags fftw3
EXIT: 0
>>
EXEC <<
CMD: pkg-config --libs fftw3
EXIT: 0
STDOUT:
-lfftw3
>>
REPORT: Checking for FFTW library:
COMPILE /tmp/tmpe148884k.cpp:
---
#include <iostream>
#include <fftw3.h>
int main() {
std::cout << fftw_version << "\n";
return (0);
}
---
EXEC <<
CMD: g++ -c -std=c++11 -DMRTRIX_BUILD_TYPE="release version" -pthread -fPIC -DMRTRIX_WORD64 -DMRTRIX_HAVE_EIGEN_UNSUPPORTED_SPECIAL_FUNCTIONS -DMRTRIX_TIFF_SUPPORT -idirafter /usr/include/x86_64-linux-gnu -DMRTRIX_PNG_SUPPORT -idirafter /usr/include/libpng16 /tmp/tmpe148884k.cpp -o /tmp/tmpe148884k.o
EXIT: 0
>>
EXEC <<
CMD: g++ /tmp/tmpe148884k.o -Wl,--sort-common,--as-needed -pthread -lz -ltiff -lpng16 -lz -lfftw3 -o a.out
EXIT: 0
>>
EXEC <<
CMD: ./a.out
EXIT: 0
STDOUT:
fftw-3.3.8-sse2-avx
>>
REPORT: fftw-3.3.8-sse2-avx
REPORT: Checking for Qt moc:
EXEC <<
CMD: moc -v
EXIT: 0
STDOUT:
moc 5.12.8
>>
REPORT: moc (version 5.12.8)
REPORT: Checking for Qt qmake:
EXEC <<
CMD: qmake -v
EXIT: 0
STDOUT:
QMake version 3.1
Using Qt version 5.12.8 in /usr/lib/x86_64-linux-gnu
>>
REPORT: qmake (version 5.12.8)
REPORT: Checking for Qt rcc:
EXEC <<
CMD: rcc -v
EXIT: 0
STDOUT:
rcc 5.12.8
>>
REPORT: rcc (version 5.12.8)
REPORT: Checking for Qt:
source file "qt.h":
---
#include <QObject>
class Foo: public QObject {
Q_OBJECT;
public:
Foo();
~Foo();
public slots:
void setValue(int value);
signals:
void valueChanged (int newValue);
private:
int value_;
};
---
source file "qt.cpp":
---
#include <iostream>
#include "qt.h"
Foo::Foo() : value_ (42) { connect (this, SIGNAL(valueChanged(int)), this, SLOT(setValue(int))); }
Foo::~Foo() { std::cout << qVersion() << "\n"; }
void Foo::setValue (int value) { value_ = value; }
int main() { Foo f; }
---
project file "qt.pro":
---
CONFIG += c++11
QT += core gui opengl svg network
HEADERS += qt.h
SOURCES += qt.cpp
---
EXEC <<
CMD: qmake
EXIT: 0
STDOUT:
Info: creating stash file /tmp/tmpi5ek7cax/.qmake.stash
>>
reading Qt parameters from file 'Makefile'... ok
qt_defines: ['-DQT_NO_DEBUG', '-DQT_OPENGL_LIB', '-DQT_SVG_LIB', '-DQT_WIDGETS_LIB', '-DQT_GUI_LIB', '-DQT_NETWORK_LIB', '-DQT_CORE_LIB']
qt_cflags: ['-pipe', '-O2', '-std=gnu++11', '-Wall', '-W', '-D_REENTRANT', '-fPIC', '$(DEFINES)']
qt_includes: ['-I.', '-isystem', '/usr/include/x86_64-linux-gnu/qt5', '-isystem', '/usr/include/x86_64-linux-gnu/qt5/QtOpenGL', '-isystem', '/usr/include/x86_64-linux-gnu/qt5/QtSvg', '-isystem', '/usr/include/x86_64-linux-gnu/qt5/QtWidgets', '-isystem', '/usr/include/x86_64-linux-gnu/qt5/QtGui', '-isystem', '/usr/include/x86_64-linux-gnu/qt5/QtNetwork', '-isystem', '/usr/include/x86_64-linux-gnu/qt5/QtCore', '-I.', '-I/usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++']
qt_libs: ['$(SUBLIBS)', '/usr/lib/x86_64-linux-gnu/libQt5OpenGL.so', '/usr/lib/x86_64-linux-gnu/libQt5Svg.so', '/usr/lib/x86_64-linux-gnu/libQt5Widgets.so', '/usr/lib/x86_64-linux-gnu/libQt5Gui.so', '/usr/lib/x86_64-linux-gnu/libQt5Network.so', '/usr/lib/x86_64-linux-gnu/libQt5Core.so', '/usr/lib/x86_64-linux-gnu/libGL.so', '-lpthread']
qt_ldflags: ['-Wl,-O1']
EXEC <<
CMD: moc qt.h -o qt_moc.cpp
EXIT: 0
>>
EXEC <<
CMD: g++ -c -std=c++11 -DMRTRIX_BUILD_TYPE="release version" -pthread -fPIC -DMRTRIX_WORD64 -DMRTRIX_HAVE_EIGEN_UNSUPPORTED_SPECIAL_FUNCTIONS -DMRTRIX_TIFF_SUPPORT -idirafter /usr/include/x86_64-linux-gnu -DMRTRIX_PNG_SUPPORT -idirafter /usr/include/libpng16 -DEIGEN_FFTW_DEFAULT -pipe -std=gnu++11 -Wall -W -D_REENTRANT -fPIC -DQT_NO_DEBUG -DQT_OPENGL_LIB -DQT_SVG_LIB -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_NETWORK_LIB -DQT_CORE_LIB -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtOpenGL -isystem /usr/include/x86_64-linux-gnu/qt5/QtSvg -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtNetwork -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -idirafter /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ qt.cpp -o qt.o
EXIT: 0
>>
EXEC <<
CMD: g++ -c -std=c++11 -DMRTRIX_BUILD_TYPE="release version" -pthread -fPIC -DMRTRIX_WORD64 -DMRTRIX_HAVE_EIGEN_UNSUPPORTED_SPECIAL_FUNCTIONS -DMRTRIX_TIFF_SUPPORT -idirafter /usr/include/x86_64-linux-gnu -DMRTRIX_PNG_SUPPORT -idirafter /usr/include/libpng16 -DEIGEN_FFTW_DEFAULT -pipe -std=gnu++11 -Wall -W -D_REENTRANT -fPIC -DQT_NO_DEBUG -DQT_OPENGL_LIB -DQT_SVG_LIB -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_NETWORK_LIB -DQT_CORE_LIB -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtOpenGL -isystem /usr/include/x86_64-linux-gnu/qt5/QtSvg -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtNetwork -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -idirafter /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ qt_moc.cpp -o qt_moc.o
EXIT: 0
>>
EXEC <<
CMD: g++ -Wl,--sort-common,--as-needed -pthread -lz -ltiff -lpng16 -lz -lfftw3 qt_moc.o qt.o -o qt -Wl,-O1 /usr/lib/x86_64-linux-gnu/libQt5OpenGL.so /usr/lib/x86_64-linux-gnu/libQt5Svg.so /usr/lib/x86_64-linux-gnu/libQt5Widgets.so /usr/lib/x86_64-linux-gnu/libQt5Gui.so /usr/lib/x86_64-linux-gnu/libQt5Network.so /usr/lib/x86_64-linux-gnu/libQt5Core.so /usr/lib/x86_64-linux-gnu/libGL.so -lpthread
EXIT: 0
>>
EXEC <<
CMD: /tmp/tmpi5ek7cax/qt
EXIT: 127
STDERR:
/tmp/tmpi5ek7cax/qt: error while loading shared libraries: libQt5Core.so.5: cannot open shared object file: No such file or directory
>>
ERROR: error running Qt application!
See the file 'configure.log' for details. If this doesn't help and you need
further assistance, please post on the MRtrix3 community forum
(http://community.mrtrix.org/), and make sure to include the full contents of
the 'configure.log' file.
As far as I can tell you are running WSL on Windows 10. Is that correct?
Note that, currently, this is not the recommended way to install MRtrix3 on Windows.
The recommended approaches use MSYS2 and are described here:
- https://www.mrtrix.org/download/windows-msys2/ if you want to use a binary installer
- https://mrtrix.readthedocs.io/en/3.0.2/installation/build_from_source.html if you want to install from source.
The error you are seeing is a known issue with QT on WSL that affects running the graphical user interface of MRtrix and is described here: https://github.com/MRtrix3/mrtrix3/issues/2048.
If you really want to proceed with installing MRtix3 in WSL, @jdtournier created a wiki entry dedicated specifically to this at Installing on Windows Subsystem for Linux (WSL).
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