Open y657250418 opened 6 years ago
This question potentially would be better asked in the Caffe repo. But, I had the same issue and the issue is that I was compiling Caffe with GCC 4.9 and the protobuf library I was using was compiled with something higher and there is a mismatch with the ABI. You can try compiling protobuf from source with the version of gcc that you're using, or building Caffe with a higher version of GCC (just not 5.5, because there's a known bug in that version that will break the compilation). For me, I used GCC 5.0 and then set this flag: "-D_GLIBCXX_USE_CXX11_ABI=0" since I compiled the NCCL library with a lower GCC version and I had a mangling error.
When I use make -j8 && make pycaffe to build caffe and pycaffe, I get these errors(with Centos system, protobuf 2.5.0, opencv 3.2.0, gcc 4.8.5 ):
/usr/bin/ld: warning: libcudart.so.7.5, needed by /usr/local/lib/libopencv_cudabgsegm.so, may conflict with libcudart.so.8.0 .build_release/examples/mnist/convert_mnist_data.o: In function
convert_dataset(char const*, char const*, char const*, std::string const&)': convert_mnist_data.cpp:(.text+0x7b0): undefined reference to
google::protobuf::internal::kEmptyString' .build_release/lib/libcaffe.so: undefined reference tocv::_OutputArray::_OutputArray(cv::Mat&)' .build_release/lib/libcaffe.so: undefined reference to
google::protobuf::io::CodedInputStream::SetTotalBytesLimit(int, int)' .build_release/lib/libcaffe.so: undefined reference togoogle::protobuf::internal::WireFormatLite::ReadString(google::protobuf::io::CodedInputStream*, std::string*)' .build_release/lib/libcaffe.so: undefined reference to
google::protobuf::io::CodedOutputStream::VarintSize32Fallback(unsigned int)' .build_release/lib/libcaffe.so: undefined reference togoogle::protobuf::io::CodedInputStream::Skip(int)' .build_release/lib/libcaffe.so: undefined reference to
cv::_InputArray::_InputArray(cv::Mat const&)' .build_release/lib/libcaffe.so: undefined reference togoogle::protobuf::io::CodedInputStream::ReadVarint64Fallback(unsigned long*)' .build_release/lib/libcaffe.so:/ undefined reference usr/to bin/
ld:google: warning::protobuf libcudart.so.7.5,:: neededio::CodedInputStream::ReadTagFallback by() /' usr.build_release/local/lib/libopencv_cudabgsegm.so/lib, /libcaffe.somay : conflictundefined withreference libcudart.so.8.0togoogle:.build_release:protobuf/::libio/libcaffe.so::: CodedOutputStreamundefined ::VarintSize64(reference unsigned tolong
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:google::protobuf::protobuf: :internal:classification.cppio::::(CodedOutputStream.::text:+WriteVarint64ToArray0x7c7RepeatedPtrFieldBase()unsigned) :long',unsigned. undefinedbuild_releasechar/ lib)reference'/ tolibcaffe.so .`:build_releasecv/:lib/ libcaffe.so::_OutputArrayundefined :undefined : _OutputArrayreference (referencecvto :to: Mat &``)googlegoogle': :::protobufprotobuf:classification.cpp::UnknownFieldSet:::io:(~UnknownFieldSet:.(:text)+CodedOutputStream0x7da'): ::.WriteVarint64ToArray build_release(/lib/undefinedunsignedlibcaffe.so :long reference,undefined referencetounsigned tochar
googlecv):::':_InputArrayprotobuf: ::_InputArray.:(iobuild_release:cv:/CodedOutputStreamlib:/:libcaffe.so::Mat: WriteVarint32FallbackToArray undefined(constunsigned& )int ,' reference.unsignedbuild_release / examplescharto*/) '` googlecpp_classification::/classification.oprotobuf: ::In UnknownFieldSet:function :collect2: error: ld returned 1 exit status ~UnknownFieldSet`Classifier()::' SetMean(.std:build_release/:lib/string libcaffe.soconst: &)undefined 'reference : to classification.cpp:`google(.text:+0x1635:protobuf)::: io:undefined :CodedOutputStreamreference to ::`cvWriteVarint32FallbackToArray::(unsigned _OutputArray:int, unsigned char*:_OutputArray)'(cv :make: :Mat*** [.build_release/examples/siamese/convert_mnist_siamese_data.bin] Error 1&) ' classification.cpp:(.textcollect2: error: ld returned 1 exit status +0x1647): undefined reference to `cv::merge(std::vector<cv::Mat, std::allocator<cv::Mat> > const&, make: cv::*** [.build_release/tools/test_net.bin] Error 1_OutputArray const& )' classification.cpp:(.text+0x165a): undefined reference to `cv::_InputArray::_InputArray(cv::Mat const&)' .build_release/examples/cpp_classification/classification.o: In function `main': classification.cpp:(.text.startup+0x21f): undefined reference to `cv::imread(std::string const&, int)' .build_release/lib/libcaffe.so: undefined reference to `google::protobuf::io::CodedInputStream::SetTotalBytesLimit(int, int)' .build_release/lib/libcaffe.so: undefined reference to `google::protobuf::internal::WireFormatLite::ReadString(google::protobuf::io::CodedInputStream*, std::string*)' .build_release/lib/libcaffe.so: undefined reference to `google::protobuf::io::CodedOutputStream::VarintSize32Fallback(unsigned int)' .build_release/lib/libcaffe.so: undefined reference to `google::protobuf::io::CodedInputStream::Skip(int)' .build_release/lib/libcaffe.so: undefined reference to `google::protobuf::io::CodedInputStream::ReadVarint64Fallback(unsigned long*)' .build_release/lib/libcaffe.so: undefined reference to `google::protobuf::io::CodedInputStream::ReadTagFallback()' .build_release/lib/libcaffe.so: undefined reference to `google::protobuf::io::CodedOutputStream::VarintSize64(unsigned long)' .build_release/lib/libcaffe.so: undefined reference to `google::protobuf::Message::SpaceUsed() const' .build_release/lib/libcaffe.so: undefined reference to `google::protobuf::io::CodedInputStream::ReadVarint32Fallback(unsigned int*)' .build_release/lib/libcaffe.so: undefined reference to `vtable for cv::_InputArray' .build_release/lib/libcaffe.so: undefined reference to `google::protobuf::internal::GeneratedMessageReflection::GeneratedMessageReflection(google::protobuf::Descriptor const*, google::protobuf::Message const*, int const*, int, int, int, google::protobuf::DescriptorPool const*, google::protobuf::MessageFactory*, int)' .build_release/lib/libcaffe.so: undefined reference to `google::protobuf::internal::StringTypeHandlerBase::Delete(std::string*)' .build_release/lib/libcaffe.so: undefined reference to `google::protobuf::internal::kEmptyString' .build_release/lib/libcaffe.so: undefined reference to `cv::imencode(std::string const&, cv::_InputArray const&, std::vector<unsigned char, std::allocator<unsigned char> >&, std::vector<int, std::allocator<int> > const&)' .build_release/lib/libcaffe.so: undefined reference to `google::protobuf::internal::StringTypeHandlerBase::New()' .build_release/lib/libcaffe.so: undefined reference to `google::protobuf::UnknownFieldSet::UnknownFieldSet()' .build_release/lib/libcaffe.so: undefined reference to `google::protobuf::internal::RepeatedPtrFieldBase::Swap(google::protobuf::internal::RepeatedPtrFieldBase*)' .build_release/lib/libcaffe.so: undefined reference to `google::protobuf::io::CodedOutputStream::WriteVarint64ToArray(unsigned long, unsigned char*)' .build_release/lib/libcaffe.so: undefined reference to `google::protobuf::UnknownFieldSet::~UnknownFieldSet()' .build_release/lib/libcaffe.so: undefined reference to `google::protobuf::io::CodedOutputStream::WriteVarint32FallbackToArray(unsigned int, unsigned char*)' collect2: error: ld returned 1 exit status make: *** [.build_release/examples/cpp_classification/classification.bin] Error 1 /usr/bin/ld: warning: libcudart.so.7.5, needed by /usr/local/lib/libopencv_cudabgsegm.so, may conflict with libcudart.so.8.0 .build_release/tools/caffe.o: In function `train()': caffe.cpp:(.text+0x1ab8): undefined reference to `google::protobuf::internal::StringTypeHandlerBase::New()' .build_release/lib/libcaffe.so: undefined reference to `cv::_OutputArray::_OutputArray(cv::Mat&)' .build_release/lib/libcaffe.so: undefined reference to `google::protobuf::io::CodedInputStream::SetTotalBytesLimit(int, int)' .build_release/lib/libcaffe.so: undefined reference to `google::protobuf::internal::WireFormatLite::ReadString(google::protobuf::io::CodedInputStream*, std::string*)' .build_release/lib/libcaffe.so: undefined reference to `google::protobuf::io::CodedOutputStream::VarintSize32Fallback(unsigned int)' .build_release/lib/libcaffe.so: undefined reference to `google::protobuf::io::CodedInputStream::Skip(int)' .build_release/lib/libcaffe.so: undefined reference to `cv::_InputArray::_InputArray(cv::Mat const&)' .build_release/lib/libcaffe.so: undefined reference to `google::protobuf::io::CodedInputStream::ReadVarint64Fallback(unsigned long*)' .build_release/lib/libcaffe.so: undefined reference to `google::protobuf::io::CodedInputStream::ReadTagFallback()' .build_release/lib/libcaffe.so: undefined reference to `google::protobuf::io::CodedOutputStream::VarintSize64(unsigned long)' .build_release/lib/libcaffe.so: undefined reference to `google::protobuf::Message::SpaceUsed() const' .build_release/lib/libcaffe.so: undefined reference to `cv::imread(std::string const&, int)' .build_release/lib/libcaffe.so: undefined reference to `google::protobuf::io::CodedInputStream::ReadVarint32Fallback(unsigned int*)' .build_release/lib/libcaffe.so: undefined reference to `vtable for cv::_InputArray' .build_release/lib/libcaffe.so: undefined reference to `google::protobuf::internal::GeneratedMessageReflection::GeneratedMessageReflection(google::protobuf::Descriptor const*, google::protobuf::Message const*, int const*, int, int, int, google::protobuf::DescriptorPool const*, google::protobuf::MessageFactory*, int)' .build_release/lib/libcaffe.so: undefined reference to `google::protobuf::internal::StringTypeHandlerBase::Delete(std::string*)' .build_release/lib/libcaffe.so: undefined reference to `google::protobuf::internal::kEmptyString' .build_release/lib/libcaffe.so: undefined reference to `cv::imencode(std::string const&, cv::_InputArray const&, std::vector<unsigned char, std::allocator<unsigned char> >&, std::vector<int, std::allocator<int> > const&)' .build_release/lib/libcaffe.so: undefined reference to `google::protobuf::UnknownFieldSet::UnknownFieldSet()' .build_release/lib/libcaffe.so: undefined reference to `google::protobuf::internal::RepeatedPtrFieldBase::Swap(google::protobuf::internal::RepeatedPtrFieldBase*)' .build_release/lib/libcaffe.so: undefined reference to `google::protobuf::io::CodedOutputStream::WriteVarint64ToArray(unsigned long, unsigned char*)' .build_release/lib/libcaffe.so: undefined reference to `google::protobuf::UnknownFieldSet::~UnknownFieldSet()' .build_release/lib/libcaffe.so: undefined reference to `google::protobuf::io::CodedOutputStream::WriteVarint32FallbackToArray(unsigned int, unsigned char*)' collect2: error: ld returned 1 exit status make: *** [.build_release/tools/caffe.bin] Error 1 /usr/bin/ld: warning: libcudart.so.7.5, needed by /usr/local/lib/libopencv_cudabgsegm.so, may conflict with libcudart.so.8.0 .build_release/lib/libcaffe.so: undefined reference to `cv::_OutputArray::_OutputArray(cv::Mat&)' .build_release/lib/libcaffe.so: undefined reference to `google::protobuf::io::CodedInputStream::SetTotalBytesLimit(int, int)' .build_release/lib/libcaffe.so: undefined reference /to `google::protobuf::internal::WireFormatLite::ReadString(google::protobuf::iousr:/bin:CodedInputStream*/ld, std: :warning::string *)libcudart.so.7.5' .build_release/lib/libcaffe.so: undefined reference, to needed`google by ::/protobuf:usr:io/local::/libCodedOutputStream::/libopencv_cudabgsegm.soVarintSize32Fallback(,unsigned int)may ' .build_release/libconflict /libcaffe.sowith/ :libcudart.so.8.0 .usrundefinedbuild_release// libbin/referencelibcaffe.so:/ ld :undefined toreferencewarning to:
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google:: protobuf:to:internal ::cvcollect2: error: ld returned 1 exit status :StringTypeHandlerBase::imread(:Delete(std::stdstring*:)': .stringbuild_release/ lib/libcaffe.so: constundefined reference &to
,google:: intprotobuf):' :internal.::build_releasekEmptyString/' .build_release/liblib/libcaffe.so/: libcaffe.soundefined reference: to undefinedcv:reference:imencode( std:to:string const& , cv
::google_InputArray const&,: std:protobuf::vector<unsigned :char, :iostd:::allocator<:unsigned charCodedInputStream> :>:&, std::vectorReadVarint32Fallback<int(, stdunsigned:: allocatormake: <intint*>)'*** [.build_release/tools/train_net.bin] Error 1