Linker error "undefined reference" on Linux

[yash-jain16]

[ 75%] Linking CXX executable exactextract
libexactextract.a(geos_utils.cpp.o): In function exactextract::segment_intersection(GEOSContextHandle_HS*, exactextract::Coordinate const&, exactextract::Coordinate const&, exactextract::Coordinate const&, exactextract::Coordinate const&, exactextract::Coordinate&)': geos_utils.cpp:(.text+0x41c): undefined reference to GEOSSegmentIntersection_r'
libexactextract.a(geos_utils.cpp.o): In function exactextract::geos_get_box(GEOSContextHandle_HS*, GEOSGeom_t const*)': geos_utils.cpp:(.text+0x4ad): undefined reference to GEOSGeom_getXMin_r'
geos_utils.cpp:(.text+0x4c5): undefined reference to GEOSGeom_getYMin_r' geos_utils.cpp:(.text+0x4d9): undefined reference to GEOSGeom_getXMax_r'
geos_utils.cpp:(.text+0x4ed): undefined reference to GEOSGeom_getYMax_r' libexactextract.a(geos_utils.cpp.o): In function exactextract::geos_is_ccw(GEOSContextHandle_HS*, GEOSCoordSeq_t const*)':
geos_utils.cpp:(.text+0x5ac): undefined reference to GEOSCoordSeq_isCCW_r' libexactextract.a(geos_utils.cpp.o): In function exactextract::geos_get_component_boxes(GEOSContextHandle_HS*, GEOSGeom_t const*)':
geos_utils.cpp:(.text+0x92a): undefined reference to GEOSGeom_getXMin_r' geos_utils.cpp:(.text+0x93e): undefined reference to GEOSGeom_getYMin_r'
geos_utils.cpp:(.text+0x952): undefined reference to GEOSGeom_getXMax_r' geos_utils.cpp:(.text+0x966): undefined reference to GEOSGeom_getYMax_r'
/usr/lib/libgdal.so: undefined reference to TIFFReadDirectory@LIBTIFF_4.0' /usr/lib/libgdal.so: undefined reference to TIFFClientdata@LIBTIFF_4.0'
/usr/lib/libgdal.so: undefined reference to kmlengine::Href::Parse(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&)' /usr/lib/libgdal.so: undefined reference to xercesc_3_2::DOMImplementationRegistry::getDOMImplementation(char16_t const*)'
/usr/lib/libgdal.so: undefined reference to TIFFLastDirectory@LIBTIFF_4.0' /usr/lib/libgdal.so: undefined reference to TIFFReadRGBAStripExt@LIBTIFF_4.0'
/usr/lib/libgdal.so: undefined reference to TIFFWriteEncodedStrip@LIBTIFF_4.0' /usr/lib/libgdal.so: undefined reference to TIFFSwabArrayOfShort@LIBTIFF_4.0'
/usr/lib/libgdal.so: undefined reference to TIFFIsTiled@LIBTIFF_4.0' /usr/lib/libgdal.so: undefined reference to TIFFIsByteSwapped@LIBTIFF_4.0'
/usr/lib/libgdal.so: undefined reference to kmlengine::KmzFile::ReadKmlAndGetPath(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> >*, std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> >*) const' /usr/lib/libgdal.so: undefined reference to TIFFFlushData@LIBTIFF_4.0'
/usr/lib/libgdal.so: undefined reference to TIFFWriteCheck@LIBTIFF_4.0' /usr/lib/libgdal.so: undefined reference to TIFFSetWriteOffset@LIBTIFF_4.0'
/usr/lib/libgdal.so: undefined reference to TIFFDefaultStripSize@LIBTIFF_4.0' /usr/lib/libgdal.so: undefined reference to TIFFScanlineSize64@LIBTIFF_4.0'
//usr/lib/x86_64-linux-gnu/libpoppler.so.73: undefined reference to TIFFFdOpen@LIBTIFF_4.0' /usr/lib/libgdal.so: undefined reference to kmldom::ParseNS(std::__cxx11::basic_string<char, std::char_traits, std::allocator > const&, std::__cxx11::basic_string<char, std::char_traits, std::allocator >)'
/usr/lib/libgdal.so: undefined reference to TIFFIsBigEndian@LIBTIFF_4.0' /usr/lib/libgdal.so: undefined reference to TIFFWriteScanline@LIBTIFF_4.0'
/usr/lib/libgdal.so: undefined reference to xercesc_3_2::XSModel::getComponentsByNamespace(xercesc_3_2::XSConstants::COMPONENT_TYPE, char16_t const*)' /usr/lib/libgdal.so: undefined reference to _TIFFfree@LIBTIFF_4.0'
/usr/lib/libgdal.so: undefined reference to kmlengine::KmzFile::OpenFromString(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&)' /usr/lib/libgdal.so: undefined reference to TIFFSwabShort@LIBTIFF_4.0'
/usr/lib/libgdal.so: undefined reference to TIFFFreeDirectory@LIBTIFF_4.0' /usr/lib/libgdal.so: undefined reference to TIFFGetField@LIBTIFF_4.0'
/usr/lib/libgdal.so: undefined reference to TIFFNumberOfStrips@LIBTIFF_4.0' /usr/lib/libgdal.so: undefined reference to TIFFWriteBufferSetup@LIBTIFF_4.0'
/usr/lib/libgdal.so: undefined reference to TIFFScanlineSize@LIBTIFF_4.0' /usr/lib/libgdal.so: undefined reference to TIFFWriteEncodedTile@LIBTIFF_4.0'
/usr/lib/libgdal.so: undefined reference to xercesc_3_2::InputSource::setEncoding(char16_t const*)' /usr/lib/libgdal.so: undefined reference to TIFFSwabLong@LIBTIFF_4.0'
/usr/lib/libgdal.so: undefined reference to TIFFTileSize@LIBTIFF_4.0' /usr/lib/libgdal.so: undefined reference to TIFFWriteDirectory@LIBTIFF_4.0'
/usr/lib/libgdal.so: undefined reference to TIFFReadEncodedTile@LIBTIFF_4.0' /usr/lib/libgdal.so: undefined reference to xercesc_3_2::XMLString::transcode(char16_t const, xercesc_3_2::MemoryManager*)'
/usr/lib/libgdal.so: undefined reference to TIFFClose@LIBTIFF_4.0' /usr/lib/libgdal.so: undefined reference to TIFFFlush@LIBTIFF_4.0'
/usr/lib/libgdal.so: undefined reference to TIFFSetTagExtender@LIBTIFF_4.0' /usr/lib/libgdal.so: undefined reference to TIFFRGBAImageOK@LIBTIFF_4.0'
/usr/lib/libgdal.so: undefined reference to TIFFWriteRawStrip@LIBTIFF_4.0' /usr/lib/libgdal.so: undefined reference to TIFFErrorExt@LIBTIFF_4.0'
/usr/lib/libgdal.so: undefined reference to kmldom::SerializePretty[abi:cxx11](boost::intrusive_ptr<kmldom::Element> const&)' /usr/lib/libgdal.so: undefined reference to TIFFGetFieldDefaulted@LIBTIFF_4.0'
/usr/lib/libgdal.so: undefined reference to TIFFSwabArrayOfLong@LIBTIFF_4.0' /usr/lib/libgdal.so: undefined reference to kmldom::Parse(std::__cxx11::basic_string<char, std::char_traits, std::allocator > const&, std::__cxx11::basic_string<char, std::char_traits, std::allocator >)'
/usr/lib/libgdal.so: undefined reference to TIFFNumberOfDirectories@LIBTIFF_4.0' /usr/lib/libgdal.so: undefined reference to TIFFTileSize64@LIBTIFF_4.0'
/usr/lib/libgdal.so: undefined reference to xercesc_3_2::XSModel::getElementDeclaration(char16_t const*, char16_t const*)' /usr/lib/libgdal.so: undefined reference to libdap::Connect::Connect(std::__cxx11::basic_string<char, std::char_traits, std::allocator > const&, std::__cxx11::basic_string<char, std::char_traits, std::allocator >, std::__cxx11::basic_string<char, std::char_traits, std::allocator >)'
/usr/lib/libgdal.so: undefined reference to TIFFWriteRawTile@LIBTIFF_4.0' /usr/lib/libgdal.so: undefined reference to xercesc_3_2::XMLString::release(char16_t**, xercesc_3_2::MemoryManager)'
/usr/lib/libgdal.so: undefined reference to TIFFStripSize64@LIBTIFF_4.0' /usr/lib/libgdal.so: undefined reference to TIFFCreateDirectory@LIBTIFF_4.0'
/usr/lib/libgdal.so: undefined reference to xercesc_3_2::InputSource::setPublicId(char16_t const*)' /usr/lib/libgdal.so: undefined reference to TIFFSetSubDirectory@LIBTIFF_4.0'
/usr/lib/libgdal.so: undefined reference to xercesc_3_2::InputSource::setSystemId(char16_t const*)' /usr/lib/libgdal.so: undefined reference to TIFFStripSize@LIBTIFF_4.0'
/usr/lib/libgdal.so: undefined reference to TIFFSwabArrayOfDouble@LIBTIFF_4.0' /usr/lib/libgdal.so: undefined reference to TIFFReadRGBATileExt@LIBTIFF_4.0'
/usr/lib/libgdal.so: undefined reference to TIFFReadEncodedStrip@LIBTIFF_4.0' /usr/lib/libgdal.so: undefined reference to TIFFUnlinkDirectory@LIBTIFF_4.0'
/usr/lib/libgdal.so: undefined reference to TIFFUnsetField@LIBTIFF_4.0' /usr/lib/libgdal.so: undefined reference to TIFFSetField@LIBTIFF_4.0'
/usr/lib/libgdal.so: undefined reference to TIFFMergeFieldInfo@LIBTIFF_4.0' /usr/lib/libgdal.so: undefined reference to TIFFCurrentDirOffset@LIBTIFF_4.0'
/usr/lib/libgdal.so: undefined reference to TIFFIsCODECConfigured@LIBTIFF_4.0' /usr/lib/libgdal.so: undefined reference to kmlengine::KmzFile::ReadFile(char const*, std::__cxx11::basic_string<char, std::char_traits, std::allocator >*) const'
/usr/lib/libgdal.so: undefined reference to TIFFDataWidth@LIBTIFF_4.0' /usr/lib/libgdal.so: undefined reference to TIFFSetWarningHandler@LIBTIFF_4.0'
/usr/lib/libgdal.so: undefined reference to TIFFGetConfiguredCODECs@LIBTIFF_4.0' /usr/lib/libgdal.so: undefined reference to TIFFSetErrorHandler@LIBTIFF_4.0'
/usr/lib/libgdal.so: undefined reference to TIFFGetSizeProc@LIBTIFF_4.0' /usr/lib/libgdal.so: undefined reference to TIFFRewriteDirectory@LIBTIFF_4.0'
/usr/lib/libgdal.so: undefined reference to TIFFSetDirectory@LIBTIFF_4.0' /usr/lib/libgdal.so: undefined reference to TIFFReadScanline@LIBTIFF_4.0'
/usr/lib/libgdal.so: undefined reference to `TIFFNumberOfTiles@LIBTIFF_4.0'
collect2: error: ld returned 1 exit status
CMakeFiles/exactextract_bin.dir/build.make:181: recipe for target 'exactextract' failed
make[2]: *** [exactextract] Error 1
CMakeFiles/Makefile2:155: recipe for target 'CMakeFiles/exactextract_bin.dir/all' failed
make[1]: *** [CMakeFiles/exactextract_bin.dir/all] Error 2
Makefile:149: recipe for target 'all' failed
make: *** [all] Error 2

[dbaston]

Not sure what would cause this, though you previously built it successfully, no? Can you describe your build environment?

[yash-jain16]

Yes, it is working for me inside Docker, but I want to execute it directly on my machine.
So I am using a Linux machine on AWS EC2 (Linux 5.3.0-1019-aws x86_64) I have gdal and CMake(3.17) already installed there

[dbaston]

Which Linux distribution? How were GDAL and GEOS installed?

[yash-jain16]

Linux is Ubuntu bionic
Ubuntu 18.04 LTS

GDAL and GEOS installed using anaconda env in python

[dbaston]

Ah, the conda env is probably screwing with the linking. Why not just install GDAL and GEOS via apt?

[yash-jain16]

Hey, so I tried this way and it executed properly till "make" but on "sudo make install" I have the following error: