Linking error when compiling Crypto++ for ARMHF - c++

I'm trying to compile the crypto++ library to run for the armhf architecture. I'm following the method provided in this answer. I tweaked the setenv-embed.sh to match my system's configuration. The output of running . ./setenv-embed.sh is
CPP: /usr/bin/arm-linux-gnueabihf-cpp
CXX: /usr/bin/arm-linux-gnueabihf-g++
AR: /usr/bin/arm-linux-gnueabihf-ar
LD: /usr/bin/arm-linux-gnueabihf-ld
RANLIB: /usr/bin/arm-linux-gnueabihf-gcc-ranlib-4.8
ARM_EMBEDDED_TOOLCHAIN: /usr/bin
ARM_EMBEDDED_CXX_HEADERS: /usr/arm-linux-gnueabihf/include/c++/4.8.2
ARM_EMBEDDED_FLAGS: -march=armv7-a mfloat-abi=hard -mfpu=neon -I/usr/arm-linux-gnueabihf/include/c++/4.8.2 -I/usr/arm-linux-gnueabihf/include/c++/4.8.2/arm-linux-gnueabihf
ARM_EMBEDDED_SYSROOT: /usr/arm-linux-gnueabihf
which indicates that the correct compilers have been found. However, when I build the library using make I run into the following error
/usr/lib/gcc-cross/arm-linux-gnueabihf/4.8/../../../../arm-linux-gnueabihf/bin/‌​ld: cannot find /usr/arm-linux-gnueabihf/lib/libc.so.6 inside /usr/arm-linux-gnueabihf
/usr/lib/gcc-cross/arm-linux-gnueabihf/4.8/../../../../arm-linux-gnueabihf/bin/‌​ld: cannot find /usr/arm-linux-gnueabihf/lib/libc_nonshared.a inside /usr/arm-linux-gnueabihf
/usr/lib/gcc-cross/arm-linux-gnueabihf/4.8/../../../../arm-linux-gnueabihf/bin/‌​ld: cannot find /usr/arm-linux-gnueabihf/lib/ld-linux-armhf.so.3 inside /usr/arm-linux-gnueabihf
But when I open the location /usr/arm-linux-gnueabihf/lib I can find all the three error files mentioned above ie libc.so.6, libc_nonshared.a and ld-linux-armhf.so.3
I'm trying to compile the library for Beaglebone, if that helps.
Update 1:
The results of running make -f GNUmakefile-cross system after doing a fresh git pull
hassan#hassan-Inspiron-7537:~/cryptopp-armhf$ make -f GNUmakefile-cross system
CXX: /usr/bin/arm-linux-gnueabihf-g++
CXXFLAGS: -DNDEBUG -g2 -Os -Wall -Wextra -DCRYPTOPP_DISABLE_ASM -march=armv7-a -mfloat-abi=hard -mfpu=neon -mthumb -I/usr/arm-linux-gnueabihf/include/c++/4.8.2 -I/usr/arm-linux-gnueabihf/include/c++/4.8.2/arm-linux-gnueabihf --sysroot=/usr/arm-linux-gnueabihf -Wno-type-limits -Wno-unknown-pragmas
LDLIBS:
GCC_COMPILER: 1
CLANG_COMPILER: 0
INTEL_COMPILER: 0
UNALIGNED_ACCESS:
UNAME: Linux hassan-Inspiron-7537 3.13.0-35-generic #62-Ubuntu SMP Fri Aug 15 01:58:42 UTC 2014 x86_64 x86_64 x86_64 GNU/Linux
MACHINE:
SYSTEM:
RELEASE:
make: Nothing to be done for `system'.

The problem is simple. It is in the --sysroot option. The value of this option is /usr/arm-linux-gnueabihf/ and it is used by the linker and the resulting library folder becomes
/usr/arm-linux-gnueabihf/usr/arm-linux-gnueabihf/lib/
I removed the --sysroot option from line 68 in the file GNUmakefile-cross and everything compiled and linked OK.
However, I couldn't run the example on my BeagleBone Black because of mismatch of some shared libraries versions. But this wasn't a real problem for me, because in my application I link crypto++ statically, not dynamically.

Based on Crosswalking's research I think I can explain what is going on. I don't think I agree with the assessment "The problem is simple. It is in the --sysroot option" since the Crypto++ environment script and makefile are doing things as expected.
I think Crosswalking's answer could be how to work around it; but see open questions below. The following is from Crypto++ Issue 134: setenv-embedded.sh and GNUmakefile-cross:
I think this another distro problem, similar to g++-arm-linux-gnueabi
cannot compile a C++ program with
--sysroot.
It might be a Ubuntu problem or a Debian problem if it is coming from
upstream.
When cross-compiling, we expect the following (using ARMHF):
SYSROOT is /usr/arm-linux-gnueabihf
INCLUDEDIR is /usr/arm-linux-gnueabihf/include
LIBDIR is /usr/arm-linux-gnueabihf/lib
BINDIR is /usr/arm-linux-gnueabihf/bin
How LIBDIR morphed into into
/usr/arm-linux-gnueabihf/usr/arm-linux-gnueabihf/lib/ (i.e.,
$SYSROOT/$SYSROOT/lib) is a mystery. But in all fairness, building
GCC is not a trivial task.
You should probably file a bug report with Debian or Ubuntu (or
whomever provides the toolchain).
The open question for me is, since $SYSROOT/lib is messed up, then is $SYSROOT/include messed up, too?
If the include directory is also messed up, then the cross compile is using the host's include files, and not the target include files. That will create hard to diagnose problems later.
If both $SYSROOT/include and $SYSROOT/lib are messed up, then its not enough to simply remove --sysroot. Effectively, this is what has to be done:
# Exported by setenv-embedded
export=ARM_EMBEDDED_SYSROOT=/usr/arm-linux-gnueabihf
# Used by the makefile
-I $ARM_EMBEDDED_SYSROOT/$ARM_EMBEDDED_SYSROOT/include
-L $ARM_EMBEDDED_SYSROOT/$ARM_EMBEDDED_SYSROOT/lib
Which means we should be able to do the following:
# Exported by setenv-embedded
export=ARM_EMBEDDED_SYSROOT=/usr/arm-linux-gnueabihf/usr/arm-linux-gnueabihf
# Used by the makefile
--sysroot="$ARM_EMBEDDED_SYSROOT"
Finally, this looks a lot like Ubuntu's Bug 1375071: g++-arm-linux-gnueabi cannot compile a C++ program with --sysroot. The bug report specifically calls out ... the built-in paths use an extra "/usr/arm-linux-gnueabi".
We need the paths:
A) /usr/arm-linux-gnueabi/include/c++/4.7.3 B)
/usr/arm-linux-gnueabi/include/c++/4.7.3/arm-linux-gnueabi
But the built-in paths tries to use:
C) /usr/arm-linux-gnueabi/usr/arm-linux-gnueabi/include/c++/4.7.3
D)
/usr/arm-linux-gnueabi/usr/arm-linux-gnueabi/include/c++/4.7.3/arm-linux-gnueabi/sf
E)
/usr/arm-linux-gnueabi/usr/arm-linux-gnueabi/include/c++/4.7.3/backward
Notice the built-in paths use an extra "/usr/arm-linux-gnueabi"

Related

What's the right cmake command to cross-compile for Raspberry Pi from M1 Mac?

My title seems general but I need to compile a project for my Raspberry Pi 3b. I want to use Telegram's Bot API server on it, but it takes a lot of time to compile, so I'm looking for faster ways to compile it. I heard about cross compiling, and I tried to compile the project from a Debian VM using UTM on my M1 Mac, but obviously arm64 isn't the same as armhf.
The main commands I need to perform are (from the project's page, selecting Debian 10+):
cmake -DCMAKE_BUILD_TYPE=Release -DCMAKE_INSTALL_PREFIX:PATH=.. ..
cmake --build . --target install
from build folder.
I'm not an expert with compilation commands, and I've looked over a bunch of potential answer over the internet, but it's or too complicated, or not for cmake, or not for M1 Mac...
Anyway, I found what seems to be a pretty decent solution, however once again it's for clang++ and not cmake.
So my question is straightforward, what cmake arguments/commands can I use to easily build the binary for my (slow) Raspberry from my (fast) M1 Mac?
EDIT 1:
According to the answer of #sweenish, it's possible to pass directly arguments to the cmake command, which I did, wrapping them all into -DCMAKE_CXX_FLAGS.
My current command is:
cmake -DCMAKE_BUILD_TYPE=Release -DCMAKE_INSTALL_PREFIX:PATH=.. -DCMAKE_CXX_FLAGS="--target=arm-linux-gnueabihf --sysroot $HOME/sysroot -isysroot $HOME/sysroot -isystem $HOME/sysroot/usr/include/c++/10 -isystem $HOME/sysroot/usr/include/arm-linux-gnueabihf/c++/10 -L$HOME/sysroot/usr/lib/gcc/arm-linux-gnueabihf/10 -B$HOME/sysroot/usr/lib/gcc/arm-linux-gnueabihf/10 --gcc-toolchain=$(brew --prefix arm-linux-gnueabihf-binutils)" ..
However, as the output shows, it seems like macOS/Xcode is natively appending 'default' arguments at the end of my command:
/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/c++ --target=arm-linux-gnueabihf --sysroot /Users/antoine/sysroot -isysroot /Users/antoine/sysroot -isystem /Users/antoine/sysroot/usr/include/c++/10 -isystem /Users/antoine/sysroot/usr/include/arm-linux-gnueabihf/c++/10 -L/Users/antoine/sysroot/usr/lib/gcc/arm-linux-gnueabihf/10 -B/Users/antoine/sysroot/usr/lib/gcc/arm-linux-gnueabihf/10 --gcc-toolchain=/opt/homebrew/opt/arm-linux-gnueabihf-binutils -arch arm64 -isysroot /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX12.3.sdk -Wl,-search_paths_first -Wl,-headerpad_max_install_names CMakeFiles/cmTC_42ace.dir/testCXXCompiler.cxx.o -o cmTC_42ace
(notice the additional space after the end of my args and the beginning of uncontrolled args)
This leads to 3 main errors:
-L$HOME... is not used
-arch arm64, which I didn't choose to append, is unused too
Error: unable to disambiguate: -search_paths_first (did you mean --search_paths_first ?), again in the appended args
So to sum up, 'disabling' system args should solve 2/3 of my problems, and removing the -L one should be enough to be finally able to compile. How do I get rid of these final appended arguments?

Rcpp Library Won't Build (Can't find Compiler) on Ubuntu

I have a package that depends on Rcpp and uses two other libraries compiled from sub-directories in src/. The package builds fine on Mac OSX using a clang compiler. However, on an RStudio Ubuntu server, it fails to build. The build's first two steps (creating the static libraries in the sub directories to link in) work fine and I can see sensible build commands like the following taking place:
g++ -Wall -I../../inst/include/ --std=c++11 -lhts -L../htslib/ -lz -lm -c -o someLibFile.o someLibFile.cpp
However, in the very last step of the build process where it tries to build the Rcpp code and bind to the library, for some reason it appears to compleletey fail to put the compiler command in front (g++) and only outputs the second half of the command.
-o mypackage.so RcppExports.o temp.o -lhts -lpbbam -Lpbbam/ -L/htslib/ -Lpbbam/ -L/mnt/software/r/R/3.1.1/usr/lib/R/lib -lR
In contrast, on the Mac it builds just fine, appending clang++ and other flags in front of this final command:
clang++ -std=c++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o pbbamr.so LoadData.o RcppExports.o temp.o -lhts -lpbbam -Lpbbam/ -Lhtslib/ -Lpbbam/ -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
How do I make it use the g++ compiler on Ubuntu at this step? I have a custom Makevars file, but it is there just to build the dependencies in the sub-directory, so I don't know why that would cause any problems (since it works on Mac OSX).
More Information
The compiler seems to be found if I delete my Makevars file. However, the Makevars file I am using is essentially a direct copy of the example given in the R extensions guide with one addition to enable C++11:
CXX_STD = CXX11
.PHONY: all mylibs
all: $(SHLIB)
$(SHLIB): mylibs
mylibs:
(cd subdir; make)
With the line CXX_STD removed, it does stick a compiler in front of the command.
Briefly:
What is your R installation? You should probably run the binaries provided by Michael via CRAN; they are based on my Debian upload; I run these too on a bunch of machines
The reason is that R 'remembers' its compile-time settings via $RHOME/etc/Makefconf. This should just be CXX=g+=.
When you install r-base-dev (from Ubuntu or the newer version from CRAN) you also get the build-essential package as well as all common dependencies. With that things just work.
If however you are doing something special or local, well then you have to deal with your local changes. The basic Ubuntu setup is used by thousands of people and daily jobs--including eg Travis builds for countless GitHub repos.
This is caused by using an outdated/unusual R installation which has poor support for C++11. The best way to resolve his is to upgrade to a more recent version of R, or use a standard R install (sudo apt-get install r-base-dev). A poor work around is described below.
Problems Cause and Bad Work Around
When writing R extension that use C++11, one often sets CXX_STD = CXX11 in the Makevars file or list SystemRequirements: C++11 in the DESCRIPTION file. These will trigger R to use the compiler set by the following flags in the Makeconf file (located at file.path(R.home(), "etc/Makeconf")).
CXX1X
CXX1XFLAGS
CXX1XPICFLAGS
CXX1XSTD
Note that some of these may be set in this file, but not all of them might be there indicating a problem. In the event there is a problem with these settings or they are not set, R appears to use the empty string "" as the compiler/linker for the C++ code, leading to the problem shown above where no compiler argument is given.
If upgrading is not an option and you need to deploy on a known machine, one work around is to manually setup for C++11 by making a more idiosyncratic Makevars file. For example, you could:
Remove the CXX_STD=CXX11 line from the Makevars file.
Remove SystemRequirements: C++11 from the DESCRIPTION file.
Add --std=c++11 and any other requirements needed to PKG_CPPFLAGS, PKG_CFLAGS, PKG_CXXFLAGS or whatever variable is being used to compile your code, to manually set the needed flags (assuming the machine's compiler actually does support C++11).
The above solution is not particularly robust, but can be used as a work around in case the machine cannot be upgraded.
Thanks to #DirkEddelbuettel for not only writing Rcpp but being willing to support it on StackOverflow and help with issues like this.

why self built g++ compiler fails to compile my code

I wanted to use latest g++ compiler(4.9.1) on suse linux, but suse only supports an older g++ version. So, I took a latest source code from one of the gnu mirror sites and compiled it myself. Everything went fine. But when I tried to compile my test code using the built g++, the compilation fails with error,
"/root/home/include/c++/4.9.1/x86_64-unknown-linux-gnu/bits/os_defines.h:39:22: fatal error: features.h: No such file or directory".
I can find a "features.h" in "/root/home/include/c++/4.9.1/parallel", but I feel that it should be there in "/root/home/include/c++/4.9.1/" itself.
I copied "/root/home/include/c++/4.9.1/parallel/features.h" to "/root/home/include/c++/4.9.1/" just to see what happens. Now it complains with error "whcar.h" not found.
Have I missed something.
Here are the steps I followed to build g++.
1. /root/home/gcc_build/objdir# ../gcc-4.9.1/configure --prefix=/root/home/ --disable-multilib
2. /root/home/gcc_build/objdir# make -j16
3. /root/home/gcc_build/objdir# make install
4. /root/home/gcc_build/test# /root/home/bin/g++ --sysroot /root/home -m64 test.cpp
I resolved the issue by removing sysroot option and pointing c++ include and library path to my home directory. One thing I noticed was that the g++ source does not come with libc and c header files, and libc has to be installed seperately. But with sysroot option, g++ was trying to look all the header files in my home directory.
Below is the command I used to successfully compile the code.
/root/home/bin/g++ -I /root/home/include/c++/4.9.1 -L /root/home/lib64 -Wl,--rpath=/root/home/lib64 --std=c++0x -m64 test.cpp
Take a look at the GCC Directory Options. It is important to use the correct "specifier" as well (-isystem, -L, -B, -I etc)

Clang linker does not look into LD_LIBRARY_PATH

I am trying to build and link a C++, cmake-based project with clang (3.0). This project links to several libraries that are installed in a custom directory /my/dir/. This directory is included in the LD_LIBRARY_PATH and LIBRARY_PATH environment variables. Project builds and links fine with g++.
The link command generated and executed by cmake looks like the following:
/usr/bin/clang++ -O3 stuff.cpp.o -o stuff -rdynamic -lmylib
ld then complains with the following message:
/usr/bin/ld: cannot find -lmylib
The link command above runs fine whenever I manually add -L/my/dir/. Is there a way to link without specifying the -L flag?
The $LD_LIBRARY_PATH environment variable (and its various alternatives on other UNIX-based platforms) is used at runtime, not link time, to find libraries.
Using -L is the correct approach and cannot be avoided.
Note: A better approach under Linux (you don't specify your platform so I'm guessing) is to correctly configure a file in /etc/ld.so.conf.d/ and avoid using $LD_LIBRARY_PATH altogether.

Regex Boost library linking in release mode warns "duplicate section has different size" when using mingw-w64 toolchain

When linking my project in the release mode I am getting the following warning:
myProject-libs/release/libboost_regex-mt-s-1.50.0.a(cpp_regex_traits.o): duplicate section `.data$_ZZN5boost16cpp_regex_traitsIcE21get_catalog_name_instEvE6s_name[boost::cpp_regex_traits<char>::get_catalog_name_inst()::s_name]' has different size
I suspect that the cause could be that the boost library is compiled with different options than I use for my project, but I don't know how to find the difference (boost didn't output these options during the build).
In order to compile the boost for win32 on Ubuntu 12.04 I used this procedure:
tar jxf boost_1_50_0.tar.bz2
cd boost_1_50_0
./bootstrap.sh
echo "using gcc : 4.6 : i686-w64-mingw32-g++ : <rc>i686-w64-mingw32-windres <archiver>i686-w64-mingw32-ar ;" > user-config.jam
./bjam toolset=gcc target-os=windows --address-model=32 variant=release threading=multi threadapi=win32 link=static runtime-link=static --prefix=/opt/boost_1_50_0-release-static-windows-32 --user-config=user-config.jam -j 10 --without-mpi --without-python -sNO_BZIP2=1 -sNO_ZLIB=1 --layout=tagged install
In order to compile files in my project I use something like
i686-w64-mingw32-g++ -march=corei7 -mfpmath=sse -m32 -Wall -fmessage-length=0 -I"/opt/boost_1_50_0-release-static-windows-32/include" -std=c++0x -O3 -g0 -DNDEBUG -I"myProject/src/cpp" -c -o myProject/build/release/src/cpp/myproject.o myproject/src/cpp/myproject.cpp
The tests I have indicate that the regexps run fine but still I would like to resolve the warning.
EDIT
I found that additional options to the boost compiler can be added using a cxxflags= argument of bjam.
Example:
bjam cxxflags='-fPIC' ....
Maybe making sure to pass the same arguments as I do to the project could resolve the problem (particularly the arguments related to optimizations as suggested in the linked question).
Your compilers were compiled with different options :) Compiling the library on Linux and the program on Windows result in a situation where there is an identically named .data segment, but they aren't the same size. That could theoretically be interesting, inasmuch as a data segment is writable, but in practice, it shouldn't matter. Unless there is evidence to suggest this causes a problem of which I'm not aware, you can safely suppress that warning; I don't know how you'd make it go away, though.
I recently encountered this problem (i.e. linker warning "duplicate section has different size") when trying to compile boost for Windows using mingw.
The issue I had was that I compiled my application with -std=c++14 but when compiling boost I didn't specifically provide a dialect flag (which defaulted to -std=c++98 for g++ 5.3.0). Adding the dialect flag -std=c++14 when compiling boost solved the problem for me. See this answer for an explaination on how to set cxxflags when compiling boost.
I believe my solution might have worked for you (your application was compiled with -std=c++0x but boost was not provided any dialect flag). Although I am 6 years too late, I'll leave my answer here for others who happen to stumble-upon this issue.