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Last active August 16, 2017 20:02
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gcc compile
Trial>> run('/home/tyler/Dropbox/Shared/PDtrustOT_Tyler/MATLAB/distance/cSPIKE_package_v1.1/cSPIKEmex/MEX_compile.m')
Verbose mode is on.
... Looking for compiler 'g++' ...
... Executing command 'which g++' ...Yes ('/usr/bin/g++').
... Executing command 'g++ -print-file-name=libstdc++.so' ...Yes ('/usr/lib/gcc/x86_64-linux-gnu/5/libstdc++.so').
Found installed compiler 'g++'.
Options file details
-------------------------------------------------------------------
Compiler location: /usr/bin/gcc-4.9
Options file: /home/tyler/.matlab/R2017a/mex_C++_glnxa64.xml
CMDLINE2 : /usr/bin/gcc-4.9 -pthread -Wl,--no-undefined -shared -O -Wl,--version-script,"/opt/MATLAB/R2017a/extern/lib/glnxa64/c_exportsmexfileversion.map" /tmp/mex_18749399650554_24205/mexAdaptiveISIDistance.o /tmp/mex_18749399650554_24205/Spiketrain.o /tmp/mex_18749399650554_24205/DataReader.o /tmp/mex_18749399650554_24205/Spiketrains.o /tmp/mex_18749399650554_24205/Pair.o /tmp/mex_18749399650554_24205/ISIProfile.o /tmp/mex_18749399650554_24205/SPIKEProfile.o /tmp/mex_18749399650554_24205/cpp_mexapi_version.o -Wl,-rpath-link,/opt/MATLAB/R2017a/bin/glnxa64 -L"/opt/MATLAB/R2017a/bin/glnxa64" -lmx -lmex -lmat -lm -lstdc++ -o mexAdaptiveISIDistance.mexa64
CXX : /usr/bin/gcc-4.9
DEFINES : -DTARGET_API_VERSION=700 -Dchar16_t=uint16_T -DUSE_MEX_CMD -D_GNU_SOURCE -DMATLAB_MEX_FILE
MATLABMEX : -DMATLAB_MEX_FILE
CFLAGS : -fexceptions -fPIC -fno-omit-frame-pointer -pthread
CXXFLAGS : -fexceptions -fPIC -fno-omit-frame-pointer -pthread -std=c++11
INCLUDE : -I"/opt/MATLAB/R2017a/extern/include" -I"/opt/MATLAB/R2017a/simulink/include"
CXXOPTIMFLAGS : -O -DNDEBUG
CXXDEBUGFLAGS : -g
LDXX : /usr/bin/gcc-4.9
LDFLAGS : -pthread -Wl,--no-undefined
LDTYPE : -shared
LINKEXPORT : -Wl,--version-script,"/opt/MATLAB/R2017a/extern/lib/glnxa64/mexFunction.map"
LINKEXPORTVER : -Wl,--version-script,"/opt/MATLAB/R2017a/extern/lib/glnxa64/c_exportsmexfileversion.map"
LINKLIBS : -Wl,-rpath-link,/opt/MATLAB/R2017a/bin/glnxa64 -L"/opt/MATLAB/R2017a/bin/glnxa64" -lmx -lmex -lmat -lm -lstdc++
LDOPTIMFLAGS : -O
LDDEBUGFLAGS : -g
MWCPPLIB : "/opt/MATLAB/R2017a/sys/os/glnxa64/libstdc++.so.6"
OBJEXT : .o
LDEXT : .mexa64
SETENV : CC="gcc"
CXX="/usr/bin/gcc-4.9"
CFLAGS="-fexceptions -fPIC -fno-omit-frame-pointer -pthread -DTARGET_API_VERSION=700 -Dchar16_t=uint16_T -DUSE_MEX_CMD -D_GNU_SOURCE -DMATLAB_MEX_FILE "
CXXFLAGS="-fexceptions -fPIC -fno-omit-frame-pointer -pthread -std=c++11 -DTARGET_API_VERSION=700 -Dchar16_t=uint16_T -DUSE_MEX_CMD -D_GNU_SOURCE -DMATLAB_MEX_FILE "
COPTIMFLAGS="-O -DNDEBUG"
CXXOPTIMFLAGS="-O -DNDEBUG"
CDEBUGFLAGS="-g"
CXXDEBUGFLAGS="-g"
LD="gcc"
LDXX="/usr/bin/gcc-4.9"
LDFLAGS="-pthread -Wl,--no-undefined -shared -Wl,-rpath-link,/opt/MATLAB/R2017a/bin/glnxa64 -L"/opt/MATLAB/R2017a/bin/glnxa64" -lmx -lmex -lmat -lm -lstdc++ -Wl,--version-script,"/opt/MATLAB/R2017a/extern/lib/glnxa64/mexFunction.map""
LDDEBUGFLAGS="-g"
GCC : /usr/bin/gcc-4.9
CPPLIB_DIR : /usr/lib/gcc/x86_64-linux-gnu/5/libstdc++.so
MATLABROOT : /opt/MATLAB/R2017a
ARCH : glnxa64
SRC : /home/tyler/Dropbox/Shared/PDtrustOT_Tyler/MATLAB/distance/cSPIKE_package_v1.1/cSPIKEmex/mexAdaptiveISIDistance.cpp;/home/tyler/Dropbox/Shared/PDtrustOT_Tyler/MATLAB/distance/cSPIKE_package_v1.1/cSPIKEmex/Spiketrain.cpp;/home/tyler/Dropbox/Shared/PDtrustOT_Tyler/MATLAB/distance/cSPIKE_package_v1.1/cSPIKEmex/DataReader.cpp;/home/tyler/Dropbox/Shared/PDtrustOT_Tyler/MATLAB/distance/cSPIKE_package_v1.1/cSPIKEmex/Spiketrains.cpp;/home/tyler/Dropbox/Shared/PDtrustOT_Tyler/MATLAB/distance/cSPIKE_package_v1.1/cSPIKEmex/Pair.cpp;/home/tyler/Dropbox/Shared/PDtrustOT_Tyler/MATLAB/distance/cSPIKE_package_v1.1/cSPIKEmex/ISIProfile.cpp;/home/tyler/Dropbox/Shared/PDtrustOT_Tyler/MATLAB/distance/cSPIKE_package_v1.1/cSPIKEmex/SPIKEProfile.cpp;/opt/MATLAB/R2017a/extern/version/cpp_mexapi_version.cpp
OBJ : /tmp/mex_18749399650554_24205/mexAdaptiveISIDistance.o;/tmp/mex_18749399650554_24205/Spiketrain.o;/tmp/mex_18749399650554_24205/DataReader.o;/tmp/mex_18749399650554_24205/Spiketrains.o;/tmp/mex_18749399650554_24205/Pair.o;/tmp/mex_18749399650554_24205/ISIProfile.o;/tmp/mex_18749399650554_24205/SPIKEProfile.o;/tmp/mex_18749399650554_24205/cpp_mexapi_version.o
OBJS : /tmp/mex_18749399650554_24205/mexAdaptiveISIDistance.o /tmp/mex_18749399650554_24205/Spiketrain.o /tmp/mex_18749399650554_24205/DataReader.o /tmp/mex_18749399650554_24205/Spiketrains.o /tmp/mex_18749399650554_24205/Pair.o /tmp/mex_18749399650554_24205/ISIProfile.o /tmp/mex_18749399650554_24205/SPIKEProfile.o /tmp/mex_18749399650554_24205/cpp_mexapi_version.o
SRCROOT : /home/tyler/Dropbox/Shared/PDtrustOT_Tyler/MATLAB/distance/cSPIKE_package_v1.1/cSPIKEmex/mexAdaptiveISIDistance
DEF : /tmp/mex_18749399650554_24205/mexAdaptiveISIDistance.def
EXP : mexAdaptiveISIDistance.exp
LIB : mexAdaptiveISIDistance.lib
EXE : mexAdaptiveISIDistance.mexa64
ILK : mexAdaptiveISIDistance.ilk
MANIFEST : mexAdaptiveISIDistance.mexa64.manifest
TEMPNAME : mexAdaptiveISIDistance
EXEDIR :
EXENAME : mexAdaptiveISIDistance
OPTIM : -O -DNDEBUG
LINKOPTIM : -O
CMDLINE1_0 : /usr/bin/gcc-4.9 -c -DTARGET_API_VERSION=700 -Dchar16_t=uint16_T -DUSE_MEX_CMD -D_GNU_SOURCE -DMATLAB_MEX_FILE -I"/opt/MATLAB/R2017a/extern/include" -I"/opt/MATLAB/R2017a/simulink/include" -fexceptions -fPIC -fno-omit-frame-pointer -pthread -std=c++11 -O -DNDEBUG /home/tyler/Dropbox/Shared/PDtrustOT_Tyler/MATLAB/distance/cSPIKE_package_v1.1/cSPIKEmex/mexAdaptiveISIDistance.cpp -o /tmp/mex_18749399650554_24205/mexAdaptiveISIDistance.o
CMDLINE1_1 : /usr/bin/gcc-4.9 -c -DTARGET_API_VERSION=700 -Dchar16_t=uint16_T -DUSE_MEX_CMD -D_GNU_SOURCE -DMATLAB_MEX_FILE -I"/opt/MATLAB/R2017a/extern/include" -I"/opt/MATLAB/R2017a/simulink/include" -fexceptions -fPIC -fno-omit-frame-pointer -pthread -std=c++11 -O -DNDEBUG /home/tyler/Dropbox/Shared/PDtrustOT_Tyler/MATLAB/distance/cSPIKE_package_v1.1/cSPIKEmex/Spiketrain.cpp -o /tmp/mex_18749399650554_24205/Spiketrain.o
CMDLINE1_2 : /usr/bin/gcc-4.9 -c -DTARGET_API_VERSION=700 -Dchar16_t=uint16_T -DUSE_MEX_CMD -D_GNU_SOURCE -DMATLAB_MEX_FILE -I"/opt/MATLAB/R2017a/extern/include" -I"/opt/MATLAB/R2017a/simulink/include" -fexceptions -fPIC -fno-omit-frame-pointer -pthread -std=c++11 -O -DNDEBUG /home/tyler/Dropbox/Shared/PDtrustOT_Tyler/MATLAB/distance/cSPIKE_package_v1.1/cSPIKEmex/DataReader.cpp -o /tmp/mex_18749399650554_24205/DataReader.o
CMDLINE1_3 : /usr/bin/gcc-4.9 -c -DTARGET_API_VERSION=700 -Dchar16_t=uint16_T -DUSE_MEX_CMD -D_GNU_SOURCE -DMATLAB_MEX_FILE -I"/opt/MATLAB/R2017a/extern/include" -I"/opt/MATLAB/R2017a/simulink/include" -fexceptions -fPIC -fno-omit-frame-pointer -pthread -std=c++11 -O -DNDEBUG /home/tyler/Dropbox/Shared/PDtrustOT_Tyler/MATLAB/distance/cSPIKE_package_v1.1/cSPIKEmex/Spiketrains.cpp -o /tmp/mex_18749399650554_24205/Spiketrains.o
CMDLINE1_4 : /usr/bin/gcc-4.9 -c -DTARGET_API_VERSION=700 -Dchar16_t=uint16_T -DUSE_MEX_CMD -D_GNU_SOURCE -DMATLAB_MEX_FILE -I"/opt/MATLAB/R2017a/extern/include" -I"/opt/MATLAB/R2017a/simulink/include" -fexceptions -fPIC -fno-omit-frame-pointer -pthread -std=c++11 -O -DNDEBUG /home/tyler/Dropbox/Shared/PDtrustOT_Tyler/MATLAB/distance/cSPIKE_package_v1.1/cSPIKEmex/Pair.cpp -o /tmp/mex_18749399650554_24205/Pair.o
CMDLINE1_5 : /usr/bin/gcc-4.9 -c -DTARGET_API_VERSION=700 -Dchar16_t=uint16_T -DUSE_MEX_CMD -D_GNU_SOURCE -DMATLAB_MEX_FILE -I"/opt/MATLAB/R2017a/extern/include" -I"/opt/MATLAB/R2017a/simulink/include" -fexceptions -fPIC -fno-omit-frame-pointer -pthread -std=c++11 -O -DNDEBUG /home/tyler/Dropbox/Shared/PDtrustOT_Tyler/MATLAB/distance/cSPIKE_package_v1.1/cSPIKEmex/ISIProfile.cpp -o /tmp/mex_18749399650554_24205/ISIProfile.o
CMDLINE1_6 : /usr/bin/gcc-4.9 -c -DTARGET_API_VERSION=700 -Dchar16_t=uint16_T -DUSE_MEX_CMD -D_GNU_SOURCE -DMATLAB_MEX_FILE -I"/opt/MATLAB/R2017a/extern/include" -I"/opt/MATLAB/R2017a/simulink/include" -fexceptions -fPIC -fno-omit-frame-pointer -pthread -std=c++11 -O -DNDEBUG /home/tyler/Dropbox/Shared/PDtrustOT_Tyler/MATLAB/distance/cSPIKE_package_v1.1/cSPIKEmex/SPIKEProfile.cpp -o /tmp/mex_18749399650554_24205/SPIKEProfile.o
CMDLINE1_7 : /usr/bin/gcc-4.9 -c -DTARGET_API_VERSION=700 -Dchar16_t=uint16_T -DUSE_MEX_CMD -D_GNU_SOURCE -DMATLAB_MEX_FILE -I"/opt/MATLAB/R2017a/extern/include" -I"/opt/MATLAB/R2017a/simulink/include" -fexceptions -fPIC -fno-omit-frame-pointer -pthread -std=c++11 -O -DNDEBUG /opt/MATLAB/R2017a/extern/version/cpp_mexapi_version.cpp -o /tmp/mex_18749399650554_24205/cpp_mexapi_version.o
-------------------------------------------------------------------
Building with 'g++'.
/usr/bin/gcc-4.9 -c -DTARGET_API_VERSION=700 -Dchar16_t=uint16_T -DUSE_MEX_CMD -D_GNU_SOURCE -DMATLAB_MEX_FILE -I"/opt/MATLAB/R2017a/extern/include" -I"/opt/MATLAB/R2017a/simulink/include" -fexceptions -fPIC -fno-omit-frame-pointer -pthread -std=c++11 -O -DNDEBUG /home/tyler/Dropbox/Shared/PDtrustOT_Tyler/MATLAB/distance/cSPIKE_package_v1.1/cSPIKEmex/mexAdaptiveISIDistance.cpp -o /tmp/mex_18749399650554_24205/mexAdaptiveISIDistance.o
Error using mex
In file included from /usr/include/c++/4.9/bits/stl_algobase.h:61:0,
from /usr/include/c++/4.9/vector:60,
from /home/tyler/Dropbox/Shared/PDtrustOT_Tyler/MATLAB/distance/cSPIKE_package_v1.1/cSPIKEmex/mexAdaptiveISIDistance.cpp:12:
/usr/include/c++/4.9/bits/cpp_type_traits.h:206:12: error: redefinition of ‘struct std::__is_integer<short unsigned int>’
struct __is_integer<unsigned short>
^
/usr/include/c++/4.9/bits/cpp_type_traits.h:184:12: error: previous definition of ‘struct std::__is_integer<short unsigned int>’
struct __is_integer<char16_t>
^
In file included from /usr/include/c++/4.9/bits/move.h:57:0,
from /usr/include/c++/4.9/bits/stl_pair.h:59,
from /usr/include/c++/4.9/bits/stl_algobase.h:64,
from /usr/include/c++/4.9/vector:60,
from /home/tyler/Dropbox/Shared/PDtrustOT_Tyler/MATLAB/distance/cSPIKE_package_v1.1/cSPIKEmex/mexAdaptiveISIDistance.cpp:12:
/usr/include/c++/4.9/type_traits:218:12: error: redefinition of ‘struct std::__is_integral_helper<short unsigned int>’
struct __is_integral_helper<unsigned short>
^
/usr/include/c++/4.9/type_traits:206:12: error: previous definition of ‘struct std::__is_integral_helper<short unsigned int>’
struct __is_integral_helper<char16_t>
^
/usr/include/c++/4.9/type_traits:1711:12: error: redefinition of ‘struct std::__make_signed<short unsigned int>’
struct __make_signed<char16_t> : __make_signed<uint_least16_t>
^
/usr/include/c++/4.9/type_traits:1688:12: error: previous definition of ‘struct std::__make_signed<short unsigned int>’
struct __make_signed<unsigned short>
^
In file included from /usr/include/c++/4.9/bits/stl_bvector.h:1181:0,
from /usr/include/c++/4.9/vector:65,
from /home/tyler/Dropbox/Shared/PDtrustOT_Tyler/MATLAB/distance/cSPIKE_package_v1.1/cSPIKEmex/mexAdaptiveISIDistance.cpp:12:
/usr/include/c++/4.9/bits/functional_hash.h:113:3: error: redefinition of ‘struct std::hash<short unsigned int>’
_Cxx_hashtable_define_trivial_hash(unsigned short)
^
/usr/include/c++/4.9/bits/functional_hash.h:95:3: error: previous definition of ‘struct std::hash<short unsigned int>’
_Cxx_hashtable_define_trivial_hash(char16_t)
^
Error in MEX_compile (line 5)
mex -v GCC='/usr/bin/gcc-4.9' -Dchar16_t=uint16_T mexAdaptiveISIDistance.cpp Spiketrain.cpp DataReader.cpp Spiketrains.cpp Pair.cpp ISIProfile.cpp
SPIKEProfile.cpp
Error in run (line 86)
evalin('caller', [script ';']);
Trial>>
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