egor-dolzhenko
commented
3 years ago Thank you for reporting the issue. What operating system are you using and what version of the C++ compiler do you have?
Also, could you please check if one of the provided binaries works on your system? The links to the binaries are located on the release page under "Assets".
tahirasma
Greetings!
I am trying to install ExpansionHunter but I encounter error as below (while scanning dependencies of genotyping)
The version of boost is 1.76.0
Scanning dependencies of target genotyping [ 38%] Building CXX object genotyping/CMakeFiles/genotyping.dir/AlignMatrix.cpp.o [ 39%] Building CXX object genotyping/CMakeFiles/genotyping.dir/AlleleChecker.cpp.o [ 39%] Building CXX object genotyping/CMakeFiles/genotyping.dir/RepeatGenotype.cpp.o In file included from /home/asma/Documents/ExpansionHunter/ExpansionHunter/genotyping/RepeatGenotype.cpp:23: /home/asma/Documents/ExpansionHunter/ExpansionHunter/genotyping/RepeatGenotype.hh: In member function ‘ehunter::NumericInterval ehunter::RepeatGenotype::shortAlleleSizeInUnitsCi() const’: /home/asma/Documents/ExpansionHunter/ExpansionHunter/genotyping/RepeatGenotype.hh:65:80: error: implicitly-declared ‘constexpr ehunter::NumericInterval::NumericInterval(const ehunter::NumericInterval&)’ is deprecated [-Werror=deprecated-copy] 65 | NumericInterval shortAlleleSizeInUnitsCi() const { return alleles.front().ci; } | ^~ In file included from /home/asma/Documents/ExpansionHunter/ExpansionHunter/genotyping/RepeatGenotype.hh:32, from /home/asma/Documents/ExpansionHunter/ExpansionHunter/genotyping/RepeatGenotype.cpp:23: /home/asma/Documents/ExpansionHunter/ExpansionHunter/common/Common.hh:82:22: note: because ‘ehunter::NumericInterval’ has user-provided ‘ehunter::NumericInterval& ehunter::NumericInterval::operator=(const ehunter::NumericInterval&)’ 82 | NumericInterval& operator=(const NumericInterval& other) | ^
~~~ In file included from /home/asma/Documents/ExpansionHunter/ExpansionHunter/genotyping/RepeatGenotype.cpp:23: /home/asma/Documents/ExpansionHunter/ExpansionHunter/genotyping/RepeatGenotype.hh: In member function ‘ehunter::NumericInterval ehunter::RepeatGenotype::longAlleleSizeInUnitsCi() const’: /home/asma/Documents/ExpansionHunter/ExpansionHunter/genotyping/RepeatGenotype.hh:84:78: error: implicitly-declared ‘constexpr ehunter::NumericInterval::NumericInterval(const ehunter::NumericInterval&)’ is deprecated [-Werror=deprecated-copy] 84 | NumericInterval longAlleleSizeInUnitsCi() const { return alleles.back().ci; } | ^~ In file included from /home/asma/Documents/ExpansionHunter/ExpansionHunter/genotyping/RepeatGenotype.hh:32, from /home/asma/Documents/ExpansionHunter/ExpansionHunter/genotyping/RepeatGenotype.cpp:23: /home/asma/Documents/ExpansionHunter/ExpansionHunter/common/Common.hh:82:22: note: because ‘ehunter::NumericInterval’ has user-provided ‘ehunter::NumericInterval& ehunter::NumericInterval::operator=(const ehunter::NumericInterval&)’ 82 | NumericInterval& operator=(const NumericInterval& other) | ^~~~ /home/asma/Documents/ExpansionHunter/ExpansionHunter/genotyping/RepeatGenotype.cpp: In function ‘std::ostream& ehunter::operator<<(std::ostream&, const ehunter::RepeatGenotype&)’: /home/asma/Documents/ExpansionHunter/ExpansionHunter/genotyping/RepeatGenotype.cpp:65:12: error: implicitly-declared ‘constexpr ehunter::NumericInterval::NumericInterval(const ehunter::NumericInterval&)’ is deprecated [-Werror=deprecated-copy] 65 | out << shortAlleleCi; | ^~~~~ In file included from /home/asma/Documents/ExpansionHunter/ExpansionHunter/genotyping/RepeatGenotype.hh:32, from /home/asma/Documents/ExpansionHunter/ExpansionHunter/genotyping/RepeatGenotype.cpp:23: /home/asma/Documents/ExpansionHunter/ExpansionHunter/common/Common.hh:82:22: note: because ‘ehunter::NumericInterval’ has user-provided ‘ehunter::NumericInterval& ehunter::NumericInterval::operator=(const ehunter::NumericInterval&)’ 82 | NumericInterval& operator=(const NumericInterval& other) | ^~~~ /home/asma/Documents/ExpansionHunter/ExpansionHunter/common/Common.hh:123:61: note: initializing argument 2 of ‘std::ostream& ehunter::operator<<(std::ostream&, ehunter::NumericInterval)’ 123 | std::ostream& operator<<(std::ostream& out, NumericInterval numericInterval); |~~~~^~~~~~~ /home/asma/Documents/ExpansionHunter/ExpansionHunter/genotyping/RepeatGenotype.cpp:71:23: error: implicitly-declared ‘constexpr ehunter::NumericInterval::NumericInterval(const ehunter::NumericInterval&)’ is deprecated [-Werror=deprecated-copy] 71 | out << "/" << longAlleleCi; | ^~~~ In file included from /home/asma/Documents/ExpansionHunter/ExpansionHunter/genotyping/RepeatGenotype.hh:32, from /home/asma/Documents/ExpansionHunter/ExpansionHunter/genotyping/RepeatGenotype.cpp:23: /home/asma/Documents/ExpansionHunter/ExpansionHunter/common/Common.hh:82:22: note: because ‘ehunter::NumericInterval’ has user-provided ‘ehunter::NumericInterval& ehunter::NumericInterval::operator=(const ehunter::NumericInterval&)’ 82 | NumericInterval& operator=(const NumericInterval& other) | ^~~~ /home/asma/Documents/ExpansionHunter/ExpansionHunter/common/Common.hh:123:61: note: initializing argument 2 of ‘std::ostream& ehunter::operator<<(std::ostream&, ehunter::NumericInterval)’ 123 | std::ostream& operator<<(std::ostream& out, NumericInterval numericInterval); |~~~~^~~~~~~ cc1plus: all warnings being treated as errors make[2]: [genotyping/CMakeFiles/genotyping.dir/build.make:89: genotyping/CMakeFiles/genotyping.dir/RepeatGenotype.cpp.o] Error 1 make[1]: [CMakeFiles/Makefile2:967: genotyping/CMakeFiles/genotyping.dir/all] Error 2 make: *** [Makefile:141: all] Error 2Looking forward for your response.
Regards,