redpony
cannot build
I cannot build using "d42f17e" (current master) on ubuntu 14.10/14.04.
repo:
- git clone
- mkdir build
- cd build
- cmake ..
-- The C compiler identification is GNU 4.9.1
-- The CXX compiler identification is GNU 4.9.1
-- Check for working C compiler: /usr/bin/cc
-- Check for working C compiler: /usr/bin/cc -- works
-- Detecting C compiler ABI info
-- Detecting C compiler ABI info - done
-- Check for working CXX compiler: /usr/bin/c++
-- Check for working CXX compiler: /usr/bin/c++ -- works
-- Detecting CXX compiler ABI info
-- Detecting CXX compiler ABI info - done
-- Found LibDL: /usr/lib/x86_64-linux-gnu/libdl.so
-- Boost version: 1.55.0
-- Found the following Boost libraries:
-- regex
-- filesystem
-- serialization
-- program_options
-- unit_test_framework
-- system
-- thread
-- Found Eigen3: /usr/include/eigen3 (Required is at least version "2.91.0")
-- Found ZLIB: /usr/lib/x86_64-linux-gnu/libz.so (found version "1.2.8")
-- Found BZip2: /usr/lib/x86_64-linux-gnu/libbz2.so (found version "1.0.6")
-- Looking for BZ2_bzCompressInit in /usr/lib/x86_64-linux-gnu/libbz2.so
-- Looking for BZ2_bzCompressInit in /usr/lib/x86_64-linux-gnu/libbz2.so - found
-- Looking for lzma_auto_decoder in /usr/lib/x86_64-linux-gnu/liblzma.so
-- Looking for lzma_auto_decoder in /usr/lib/x86_64-linux-gnu/liblzma.so - found
-- Looking for lzma_easy_encoder in /usr/lib/x86_64-linux-gnu/liblzma.so
-- Looking for lzma_easy_encoder in /usr/lib/x86_64-linux-gnu/liblzma.so - found
-- Looking for lzma_lzma_preset in /usr/lib/x86_64-linux-gnu/liblzma.so
-- Looking for lzma_lzma_preset in /usr/lib/x86_64-linux-gnu/liblzma.so - found
-- Found LibLZMA: /usr/include (found version "5.1.0")
-- Found PythonInterp: /usr/bin/python2.7 (found suitable version "2.7.8", minimum required is "2.7")
-- Found FLEX: /usr/bin/flex (found version "2.5.39")
-- Looking for include file pthread.h
-- Looking for include file pthread.h - found
-- Looking for pthread_create
-- Looking for pthread_create - not found
-- Looking for pthread_create in pthreads
-- Looking for pthread_create in pthreads - not found
-- Looking for pthread_create in pthread
-- Looking for pthread_create in pthread - found
-- Found Threads: TRUE
-- Try OpenMP C flag = [-fopenmp]
-- Performing Test OpenMP_FLAG_DETECTED
-- Performing Test OpenMP_FLAG_DETECTED - Success
-- Try OpenMP CXX flag = [-fopenmp]
-- Performing Test OpenMP_FLAG_DETECTED
-- Performing Test OpenMP_FLAG_DETECTED - Success
-- Found OpenMP: -fopenmp
-- Found GTest: /usr/lib/libgtest.a
-- Found GMock: /usr/lib/libgmock.a
-- Configuring done
-- Generating done
-- Build files have been written to: /root/cdec/build
- make -j 2
[ 93%] Building CXX object extractor/CMakeFiles/alignment_test.dir/alignment_test.cc.o
Linking CXX executable ../../extractor/alignment_test
libextractor.a(alignment.cc.o): In function `igzstream::~igzstream()':
alignment.cc:(.text._ZN9igzstreamD0Ev[_ZN9igzstreamD0Ev]+0x11): undefined reference to `gzstreambase::~gzstreambase()'
libextractor.a(alignment.cc.o): In function `igzstream::~igzstream()':
alignment.cc:(.text._ZN9igzstreamD1Ev[_ZN9igzstreamD1Ev]+0x11): undefined reference to `gzstreambase::~gzstreambase()'
libextractor.a(alignment.cc.o): In function `ReadFile::Init(std::string const&)':
alignment.cc:(.text._ZN8ReadFile4InitERKSs[_ZN8ReadFile4InitERKSs]+0x42): undefined reference to `FileExists(std::strin
g const&)'
alignment.cc:(.text._ZN8ReadFile4InitERKSs[_ZN8ReadFile4InitERKSs]+0x338): undefined reference to `gzstreambase::gzstre
ambase(char const*, int)'
alignment.cc:(.text._ZN8ReadFile4InitERKSs[_ZN8ReadFile4InitERKSs]+0x643): undefined reference to `gzstreambase::~gzstr
eambase()'
libextractor.a(alignment.cc.o):(.rodata._ZTI9igzstream[_ZTI9igzstream]+0x18): undefined reference to `typeinfo for gzst
reambase'
libextractor.a(alignment.cc.o):(.rodata._ZTC9igzstream0_12gzstreambase[_ZTV9igzstream]+0x10): undefined reference to `t
ypeinfo for gzstreambase'
libextractor.a(alignment.cc.o):(.rodata._ZTC9igzstream0_12gzstreambase[_ZTV9igzstream]+0x38): undefined reference to `t
ypeinfo for gzstreambase'
collect2: error: ld returned 1 exit status
extractor/CMakeFiles/alignment_test.dir/build.make:99: recipe for target '../extractor/alignment_test' failed
make[2]: *** [../extractor/alignment_test] Error 1
CMakeFiles/Makefile2:2945: recipe for target 'extractor/CMakeFiles/alignment_test.dir/all' failed
make[1]: *** [extractor/CMakeFiles/alignment_test.dir/all] Error 2
make[1]: *** Waiting for unfinished jobs....
Linking CXX executable rampion_cccp
[ 93%] Built target rampion_cccp
Makefile:102: recipe for target 'all' failed
make: *** [all] Error 2
This is the last sha I can build with aba14a7e38e61f8158b17f41309744b39fd2abdc
Hi Chris @redpony
I find the same problem when I compile the program. How to fix it? Thanks.
libextractor.a(data_array.cc.o): In functionigzstream::~igzstream()':
/home/jjhu/Research/cdec/extractor/../utils/gzstream.h:98: undefined reference to gzstreambase::~gzstreambase()' libextractor.a(data_array.cc.o): In function~igzstream':
/home/jjhu/Research/cdec/extractor/../utils/gzstream.h:98: undefined reference to gzstreambase::~gzstreambase()' libextractor.a(data_array.cc.o): In functionReadFile::Init(std::string const&)':
/home/jjhu/Research/cdec/extractor/../utils/filelib.h:62: undefined reference to FileExists(std::string const&)' libextractor.a(data_array.cc.o): In functionigzstream':
/home/jjhu/Research/cdec/extractor/../utils/gzstream.h:102: undefined reference to gzstreambase::gzstreambase(char const*, int)' /home/jjhu/Research/cdec/extractor/../utils/gzstream.h:102: undefined reference togzstreambase::~gzstreambase()'
libextractor.a(data_array.cc.o):(.rodata._ZTI9igzstream[_ZTI9igzstream]+0x18): undefined reference to typeinfo for gzstreambase' libextractor.a(data_array.cc.o):(.rodata._ZTC9igzstream0_12gzstreambase[_ZTV9igzstream]+0x10): undefined reference totypeinfo for gzstreambase'
libextractor.a(data_array.cc.o):(.rodata._ZTC9igzstream0_12gzstreambase[_ZTV9igzstream]+0x18): undefined reference to gzstreambase::~gzstreambase()' libextractor.a(data_array.cc.o):(.rodata._ZTC9igzstream0_12gzstreambase[_ZTV9igzstream]+0x20): undefined reference togzstreambase::~gzstreambase()'
libextractor.a(data_array.cc.o):(.rodata._ZTC9igzstream0_12gzstreambase[_ZTV9igzstream]+0x38): undefined reference to typeinfo for gzstreambase' libextractor.a(data_array.cc.o):(.rodata._ZTC9igzstream0_12gzstreambase[_ZTV9igzstream]+0x40): undefined reference tovirtual thunk to gzstreambase::~gzstreambase()'
libextractor.a(data_array.cc.o):(.rodata._ZTC9igzstream0_12gzstreambase[_ZTV9igzstream]+0x48): undefined reference to virtual thunk to gzstreambase::~gzstreambase()' collect2: error: ld returned 1 exit status make[2]: *** [extractor/data_array_test] Error 1 make[1]: *** [extractor/CMakeFiles/data_array_test.dir/all] Error 2 Linking CXX executable extract [ 94%] Built target extract make: *** [all] Error 2
I don't know what the problem is exactly but I found a workaround. The error is caused by the tests in the extractor subfolder. People who don't have gtest/gmock installed, don't run into this issue. So a quick fix is to comment out the lines in extractor/CMakeLists.txt from "if(GTEST_FOUND)" to "endif(GTEST_FOUND)"
