Did upgrading to Ubuntu 14.04 break the c++ linker? - c++

I have a Linux-based application, running under Ubuntu 12.04 LTS, that compiled, linked, and ran with no problem.
I recently upgraded my Ubuntu to 14.04 LTS and encountered problems compiling and linking the app.
The compilation problems were solved by manually modifying my local copy of Boost 1.48 in two files (include/boost/config/stdlib/libstdcpp3.hpp and include/boost/thread/xtime.hpp). At this point the app compiled successfully.
The problem I have is that the linkage fails with the error message:
c++: error: unrecognized command line option ‘-Wl’
I use CMake to enable compiling the app on multiple platforms. Here is the linker script generated by CMake. Note that the "-Wl" options are now inexplicably unrecognized by /usr/bin/c++:
/usr/bin/c++
-fno-stack-protector
-g
-Wl
CMakeFiles/Project.dir/main.cpp.o
CMakeFiles/Project.dir/TestCallback.cpp.o
CMakeFiles/Project.dir/utils.cpp.o
CMakeFiles/Project.dir/Request1.cpp.o
CMakeFiles/Project.dir/Response1.cpp.o
CMakeFiles/Project.dir/TextChatRequest.cpp.o
CMakeFiles/Project.dir/TextChatResponse.cpp.o
-o
/home/user/private/Project/Project_Release_1_2_Codename/Build/bin/Debug/Project
-L/home/user/Libraries/Ubuntu32_12.04/boost_1.48/lib
-L/home/user/Libraries/Ubuntu32_12.04/SqlLite_3.6/lib
-L/home/user/Libraries/Ubuntu32_12.04/taglib_1.7/lib
-L/home/user/Libraries/Ubuntu32_12.04/JSON_1.0/lib/Debug
-L/home/user/private/Project/Project_Release_1_2_Codename/Build/../lib/libUbuntu32/Debug
-rdynamic
/home/user/private/Project/Project_Release_1_2_Codename/lib/libUbuntu32/Debug/libAPI.a
/home/user/private/Project/Project_Release_1_2_Codename/lib/libUbuntu32/Debug/libInternals.a
-lboost_thread
-lboost_system
-lboost_filesystem
-lboost_program_options
-ltaglib
-lJSON
-lpthread
-Wl,-Bstatic
-lsqlite3
-Wl,-Bdynamic
-ldl
-Wl,-rpath,/home/user/Libraries/Ubuntu32_12.04/boost_1.48/lib:/home/user/Libraries/Ubuntu32_12.04/SqlLite_3.6/lib:/home/user/Libraries/Ubuntu32_12.04/taglib_1.7/lib:/home/user/Libraries/Ubuntu32_12.04/JSON_1.0/lib/Debug:/home/user/private/Project/Project_Release_1_2_Codename/Build/../lib/libUbuntu32/Debug
Here is version information for the software I'm using:
Ubuntu:
14.04.1 LTS (trusty)
c++ compiler/linker:
(Ubuntu 4.8.2-19ubuntu1) 4.8.2
CMake:
Version 2.8.12.2
Why doesn't the linker recognize "-Wl" commands? Did my upgrade to 14.04 LTS modify the linker software libraries? How can I get my app back up and linking?

On line 4 of the command you have -Wl without any actual linker options.
https://gcc.gnu.org/gcc-4.7/porting_to.html
Right at the top of this page is the following:
Earlier releases did not warn or error about completely invalid
options on gcc/g++/gfortran etc. command lines, if nothing was
compiled, but only linking was performed. This is no longer the case.
For example,
gcc -Wl -o foo foo.o -mflat_namespace
Now produces the following error
error: unrecognized command line option ‘-Wl’
error: unrecognized command line option ‘-mflat_namespace’
Invalid options need to be removed from the command line or replaced by something that is valid.
12.04 LTS packaged GCC 4.6, you've now jumped to 4.8 and -Wl on its own is no longer a valid option (or rather it never was, GCC is just more pedantic now).

As mentioned by others previously, it indeed turned out that my CMake script was injecting a lone, solitary, seemingly unnecessary "-Wl" via the CMAKE_EXE_LINKER_FLAGS setting:
if(LINUX)
set(THIRDPARTY_LIBS boost_thread boost_system boost_filesystem boost_program_options taglib JSON)
set(OS_LIBS pthread sqlite3.a dl)
set(CMAKE_EXE_LINKER_FLAGS "-Wl")
set(PREPROCESSOR_DEFINITIONS ${PREPROCESSOR_DEFINITIONS};/DTAGLIB_STATIC)
endif(LINUX)
When I removed this setting, the build succeeded. This oversight has been around a while, with the earlier version of gcc not minding. The latest gcc, however, is more pedantic and flagged it as an error.

Related

Building GDAL with all libraries static

I want to develop a small program that checks which polygons from a shapefile intersect a given rectangle. This program is to be used in a website (with PHP's exec() command). The problem is, my webserver cannot install GDAL, for reasons unknown to me. So I can't link to the shared libraries. Instead, I must link to static libraries, but these aren't given.
I've downloaded the GDAL source code from here (2.3.2 Latest Stable Release - September 2018), and followed the build instructions from here. Since I already have GDAL working on my Debian, and don't want to mess with it, I followed the "Install in non-root directory" instructions, with some adjusts from the last item in the "Some caveats" section:
cd /home/rodrigo/Downloads/gdal232/gdal-2.3.2
mkdir build
./configure --prefix=/home/rodrigo/Downloads/gdal232/gdal-2.3.2/build/ --without-ld-shared --disable-shared --enable-static
make
make install
export PATH=/home/rodrigo/Downloads/gdal232/gdal-2.3.2/build/bin:$PATH
export LD_LIBRARY_PATH=/home/rodrigo/Downloads/gdal232/gdal-2.3.2/build/lib:$LD_LIBRARY_PATH
export GDAL_DATA=/home/rodrigo/Downloads/gdal232/gdal-2.3.2/build/share/gdal
/usr/bin/gdalinfo --version
build/bin/gdalinfo --version
The first /usr/bin/gdalinfo --version gives 2.1.2 (the previous installed version). The second, build/bin/gdalinfo --version, gives 2.3.2 (the version just built).
By now, my program only uses the ogrsf_frmts.h header, which is in /usr/include/gdal/ or /home/rodrigo/Downloads/gdal232/gdal-2.3.2/build/include/ directory, depending on the build. There's no ogrsf_frmts.a file, but only a libgdal.a. Is this the file I should be linking against? If so, how? I've tried so far:
gcc geofragc.cpp -l:libgdal.a
gcc geofragc.cpp -Wl,-Bstatic -l:libgdal.a
gcc geofragc.cpp -Wl,-Bstatic -l:/home/rodrigo/Downloads/gdal232/gdal-2.3.2/build/lib/libgdal.a
gcc geofragc.cpp -Wl,-Bstatic -l/home/rodrigo/Downloads/gdal232/gdal-2.3.2/build/lib/libgdal.a
gcc geofragc.cpp /home/rodrigo/Downloads/gdal232/gdal-2.3.2/build/lib/libgdal.a
gcc geofragc.cpp -l/home/rodrigo/Downloads/gdal232/gdal-2.3.2/build/lib/libgdal.a
gcc geofragc.cpp -l:/home/rodrigo/Downloads/gdal232/gdal-2.3.2/build/lib/libgdal.a
but nothing works. What am I missing?
EDIT
The second trial (gcc geofragc.cpp -Wl,-Bstatic -l:libgdal.a) is giving the following error:
/usr/bin/ld: cannot find -lgcc_s
/usr/lib/gcc/x86_64-linux-gnu/6/../../../../lib/libgdal.a(gdalclientserver.o): In function `GDALServerSpawnAsync()':
(.text+0x1f5e): warning: Using 'getaddrinfo' in statically linked applications requires at runtime the shared libraries from the glibc version used for linking
/usr/bin/ld: cannot find -lgcc_s
collect2: error: ld returned 1 exit status
You can use the gdal-config program to get correct options for compilation and linking. This program is a part of the GDAL library and it has its own options:
hekto#ubuntu:~$ gdal-config --help
Usage: gdal-config [OPTIONS]
Options:
[--prefix[=DIR]]
[--libs]
[--dep-libs]
[--cflags]
[--datadir]
[--version]
[--ogr-enabled]
[--gnm-enabled]
[--formats]
You have to make sure this program is on your search path, or you can create an alias - for example:
alias gdal-config='/home/rodrigo/Downloads/gdal232/gdal-2.3.2/bin/gdal-config'
Now your compilation and linking command becomes the following one:
g++ `gdal-config --cflags` geofragc.cpp `gdal-config --libs` `gdal-config --dep-libs`
You have to use the g++ compiler to link with C++-built libraries.
Another option is to create a Makefile with these lines:
CXXFLAGS += ${shell gdal-config --cflags}
LDLIBS += ${shell gdal-config --libs}
LDLIBS += ${shell gdal-config --dep-libs}
geofragc: geofragc.cpp
and just call make with this Makefile.
I hope, it'll help.

libgtest.so error adding symbols: DSO missing from command line

I have been using gtests for unit testing a personal project. Last week I upgraded to the LTS version of Linux Mint. Unfortunately, after that event, I haven't been able to compile my project due to gtests linking problems.
The following error is being issued:
/usr/bin/x86_64-linux-gnu-ld: build/tests/policies/roundrobin_tests.o: undefined reference to symbol '_ZN7testing4TestC2Ev'
/home/myuser/Documents/googletest-release-1.8.0/googletest/libgtest.so: error adding symbols: DSO missing from command line
collect2: error: ld returned 1 exit status
I have generated both libgtest.so and libgtest_main.so through CMake 3.10.2. The gtest version is the release-1.8.0, the same I used to have before.
Those libraries are located in /usr/lib and the corresponding include folder has also been copied to /usr/include. I made sure that this location is in my ld path and that is not the problem.
My compiler is g++ v7.3.0 and the command Im using to compile the testes is:
g++ -std=c++14 -Wall -O3 -Iinclude build/tests/policies/roundrobin_tests.o -lgtest_main -pthread -o bin/policies/roundrobin_tests
I have tried altering the order of the elements in the command, explicitly adding -L/usr/lib and -I/usr/include without luck. A funny fact is that if I take off the -pthread flag, the error is still the same.
The same command was used before and the only difference is the compiler version I am using now as I used g++ 5.4.0 before. Any insights on how to solve this?
edit: Just tested the same process with g++ 5.4.0 and CMake 3.5 and the same problems ocurred.

Undefined symbol when loading LLVM plugin

I am developing an LLVM pass and want to run it as a plugin via the Clang LLVM driver:
clang -Xclang -load -Xclang myPlugin.so ...
At first I got an error similar to that described here
undefined symbol for self-built llvm opt?
After applying the flag -D_GLIBCXX_USE_CXX11_ABI=0 as suggested, I'm getting this error:
error: unable to load plugin 'myPlugin.so': 'myPlugin.so: undefined symbol: _ZNK4llvm12FunctionPass17createPrinterPassERNS_11raw_ostreamERKSs
This page suggests that there may be an ABI compatibility issue (which I don't fully understand)
http://clang-developers.42468.n3.nabble.com/Loading-Static-Analyzer-plugin-fails-with-CommandLine-Errors-td4034194.html
My objective is to compile the pass with either GCC or Clang and run it with the system Clang installation (Ubuntu 16.04, LLVM 3.8) rather than building Clang/LLVM from source.
The problem could come from multiple clang installations. The clang version you have used to compile your plugin may be different from the clang called in
clang -Xclang -load -Xclang myPlugin.so ...
If you use cmake to build your plugin, then
cmake -DCMAKE_EXPORT_COMPILE_COMMANDS=ON
will generate the file compile_commands.json that will contain the llvm version you have used. bear make or make -n are alternatives if you don't use cmake for your plugin.
If compile_commands.json contains for example
"command": "c++ -c -I/usr/lib/llvm-4.0/include ..."
and if clang -v is clang version 3.8.0, you are likely to obtain this error message especially if llvm::FunctionPass::createPrinterPass is in llvm-4.0 and not in llvm-3.8.
A solution may be to compile with
clang-xxx -Xclang -load -Xclang myPlugin.so ...
where clang-xxx contains the llvm-xxx that is referenced in compile_commands.json.
I was receiving that error because first argument I passed into the RegisterPass had the same name as the pass itself:
static RegisterPass<MyPass> X("MyPass", "DPVariableNamePass", false, false);
Changing it fixed the issue:
static RegisterPass<MyPass> X("my-pass", "DPVariableNamePass", false, false);
Maybe it helps

host_config.h:unsupported GNU version! gcc versions later than 4.9 are not supported [duplicate]

I struggle with Caffe compilation. Unfortunately I failed to compile it.
Steps I followed:
git clone https://github.com/BVLC/caffe.git
cd caffe
mkdir build
cd build
cmake ..
make all
Running make all fails with the following error message:
[ 2%] Building NVCC (Device) object src/caffe/CMakeFiles/cuda_compile.dir/util/cuda_compile_generated_im2col.cu.o
In file included from /usr/include/cuda_runtime.h:59:0,
from <command-line>:0:
/usr/include/host_config.h:82:2: error: #error -- unsupported GNU version! gcc 4.9 and up are not supported!
#error -- unsupported GNU version! gcc 4.9 and up are not supported!
^
CMake Error at cuda_compile_generated_im2col.cu.o.cmake:207 (message):
Error generating /mydir/caffe/build/src/caffe/CMakeFiles/cuda_compile.dir/util/./cuda_compile_generated_im2col.cu.o
Software version:
OS: Debian.
gcc version: 5.3.1.
nvcc version: 6.5.12.
cat /proc/driver/nvidia/version result:
NVRM version: NVIDIA UNIX x86_64 Kernel Module 352.63 Sat Nov 7 21:25:42 PST 2015
GCC version: gcc version 4.8.5 (Debian 4.8.5-3)
Attempts to solve the problem
1st try
Simple solutions are often best ones, so (as suggested here) I tried to comment out macro checking gcc version from /usr/include/host_config.h (line 82). Unfortunately it doesn't work and compilation fails badly:
1 catastrophic error detected in the compilation of "/tmp/tmpxft_000069c2_00000000-4_im2col.cpp4.ii".
2nd try
I tried to run:
cmake -D CMAKE_CXX_COMPILER=g++-4.8 ..
make
but it fails with exactly the same error message (even though g++-4.8 should be accepted).
3rd try
I've found similar problem (though not related to Caffe) and I tried to solve it as suggested in the accepted answer.
What I did:
I've ran grep -iR "find_package(CUDA" caffe command and found Cuda.cmake file which has find_package(CUDA 5.5 QUIET) in line 225.
I added set(CUDA_HOST_COMPILER /usr/bin/gcc-4.8) to Cuda.cmake, line before line: find_package(CUDA 5.5 QUIET).
I removed everything from build directory and ran cmake and make again - with and without -D CMAKE_CXX_COMPILER=g++-4.8.
Unfortunately result is exactly the same. Caffe probably overwrites it somehow - I didn't figure it out how.
make VERBOSE=1 2>&1 | grep -i compiler-bindir returns nothing.
What's interesting, make VERBOSE=1 prints command that fails, which is:
/usr/bin/nvcc -M -D__CUDACC__ /mydir/caffe/src/caffe/util/im2col.cu -o /mydir/caffe/build/src/caffe/CMakeFiles/cuda_compile.dir/util/cuda_compile_generated_im2col.cu.o.NVCC-depend -ccbin /usr/bin/cc -m64 -DUSE_LMDB -DUSE_LEVELDB -DUSE_OPENCV -DWITH_PYTHON_LAYER -DGTEST_USE_OWN_TR1_TUPLE -Xcompiler ,\"-fPIC\",\"-Wall\",\"-Wno-sign-compare\",\"-Wno-uninitialized\",\"-O3\",\"-DNDEBUG\" -gencode arch=compute_20,code=sm_21 -Xcudafe --diag_suppress=cc_clobber_ignored -Xcudafe --diag_suppress=integer_sign_change -Xcudafe --diag_suppress=useless_using_declaration -Xcudafe --diag_suppress=set_but_not_used -Xcompiler -fPIC -DNVCC -I/usr/include -I/mydir/caffe/src -I/usr/include -I/mydir/caffe/build/include -I/usr/include/hdf5/serial -I/usr/include/opencv -I/usr/include/atlas -I/usr/include/python2.7 -I/usr/lib/python2.7/dist-packages/numpy/core/include -I/mydir/caffe/include -I/mydir/caffe/build
when I add --compiler-bindir /usr/bin/gcc-4.8 flag manually, it prints error:
nvcc fatal : redefinition of argument 'compiler-bindir'
which may be related to this bug report.
Edit: I didn't notice that --compiler-bindir and -ccbin are the same options, and the latter is already set in above command that failed. When I changed -ccbin /usr/bin/cc to -ccbin /usr/bin/gcc-4.8 in above command that failed, it completes successfully. Now I need to find option in Caffe's CMake file that overwrite -ccbin in all subsequent Caffe's CMakes. Looking at cmake/Cuda.cmake:252:list(APPEND CUDA_NVCC_FLAGS ${NVCC_FLAGS_EXTRA} seems to be good way to go.
How can I successfully complete my compilation? Any help is appreciated.
Related SO questions:
host_config.h:unsupported GNU version! gcc versions later than 4.9 are not supported.
CUDA 6.5 complains about not supporting gcc 4.9 - what to do?.
cmake -D CUDA_NVCC_FLAGS="-ccbin gcc-4.8" .. && make causes successful compilation.
Now another problem showed up: linking Google's libgflags or libprotobuf fails probably due to fact that it was compiled with newer gcc version but it's not related to asked question.
My machine runs Ubuntu 15.10, and my default compiler version is gcc 5.2.1 .
Commenting out the #error directive in line 115 of file
/usr/local/cuda-7.5/include/host_config.h
(or whatever the path on your system is) did the trick for me. Caffe compiled fine, all tests ran smoothly.
On the other hand, if one chooses to ignore this and proceed to compile part of the project with one compiler version, part of the project with another (for me it was gcc-4.8 and gcc-5.2.1), linking problems will arise. The linking problems of protobuf and libgflags another answer mentions are not unrelated to this.

Using clang with codeblocks on Windows 7

I have managed to build clang on Windows 7 using Visual Studio 210 and now I like to use it with the codeblocks IDE. So I copied the clang executables into the mingw bin\ folder and updated the codeblock's compiler settings to use clang instead of gcc.
But when I compile the hello world example I get the following errors:
||=== clang_test, Debug ===|
obj\Debug\main.o:c:\Program Files (x86)\Microsoft Visual Studio 10.0\VC\include\system_error|447|undefined reference to `std::iostream_category()'|
obj\Debug\main.o:c:\Program Files (x86)\Microsoft Visual Studio 10.0\VC\include\stdexcept|170|undefined reference to `std::exception::exception(char const* const&)'|
||=== Build finished: 2 errors, 0 warnings ===|
I guess I have to use clang's header files but how to I accomplish that?
Thanks!
UPDATE
MSYS2 packages are available for clang on 32-bit and 64-bit, and from what limited testing I did it seems to work quite well. The compiler can be used from outside the MSYS2 environment.
On how to install MSYS2, see here. Then just run
pacman -Sy mingw-w64-x86_64-clang
or
pacman -Sy mingw-w64-i686-clang
after updating MSYS2 to install Clang.
The patches used in that package (if you want to build LLVM/Clang yourself) are located here.
old reply follows, slightly out of date
If you want to use Clang on Windows for C++, your only option currently is to use (or build yourself) Clang with/for MinGW(-w64).
Lucky for you, I provide packages:
Clang 3.2
GCC 4.6.3 dw2
Unzip both to the same directory and add mingw32-dw2/bin to PATH, or point Codeblocks to it. You will be limited to GCC 4.6's libstdc++. Clang 3.2's C++11 language support is fully functional though.
Note that Clang expects GCC style options, so I suggest modifying the Codeblocks GCC build process and replacing g++ with clang++ and gcc with clang.
clang does not support MSVC C++ ABI yet so C++ code cannot be compiled correctly.
Update: As of December 2014, clang does support MSVC except (heh) exceptions. To compile code you will have to do
clang-cl.exe /D_HAS_EXCEPTIONS=0 foo.cpp
If you want to use clang.exe directly:
clang++ -target i686-pc-windows-msvc -D_HAS_EXCEPTIONS=0 foo.cpp -o foo.exe
etc.
For up to date status of MSVC support see http://clang.llvm.org/docs/MSVCCompatibility.html
My CodeBlocks build logs show command lines as
clang++.exe -fno-ms-compatibility -fno-use-cxa-atexit -IC:\mingw\include\c++\4.7.0 -IC:\mingw\include\c++\4.7.0\x86_64-w64-mingw32 -IC:\mingw\include\c++\4.7.0\backward -IC:\mingw\include -c C:\Users\Vipul\Documents\Hello.cpp -o C:\Users\Vipul\Documents\Hello.o
ld.exe -oC:\Users\Vipul\Documents\Hello.exe C:\Users\Vipul\Documents\Hello.o -m i386pep -Bdynamic -Lc:\mingw\lib c:\mingw\lib\crt2.o c:\mingw\lib\crtbegin.o -lstdc++ -lmingw32 -lgcc_s -LC:\Windows\SUA\opt\gcc64\lib\gcc\x86_64-pc-interix6\4.6.0 -lgcc -lmoldname -lmingwex -lmsvcrt -ladvapi32 -lshell32 -luser32 -lkernel32 c:\mingw\lib\crtend.o
and I can run the program. I've built Windows clang with VSExpress. If compilation or link is causing errors on your end, then comparing our command lines might help isolate the issue.