Repeating libs on libtool command line - linker

I'm using automake, and getting a libtool invocation like this:
/bin/sh ../libtool --tag=CC --mode=link gcc -o test_foo test_foo.o -lA -lB -lC -lA -lB -lC
Note that the libraries (which are beyond my control) have circular dependencies that require them to be mentioned more than once. Unfortunately it seems that libtool folds multiple requests for libraries into a single request, and it runs:
gcc -o test_foo test_foo.o -lA -lB -lC
Note that the second pass over the libs is gone; I get a bunch of linker errors. When I manually run that gcc command line with the extra -l flags, it works.
How can I make libtool pass all the libs I've requested to gcc?

How can I make libtool pass all the libs I've requested to gcc?
I don't know how to do that. Note however, that if you are on a system that uses GNU-ld (or gold), you can achieve the same result with
-Wl,--start-group -lA -lB -lC -Wl,--end-group
Perhaps libtool will leave these unmolested? Alas, libtool 2.2.6b moves -Wl,--end-group before all the libraries ;-(
This gross hack does it:
-Wl,--start-group,-lA,-lB,-lC,--end-group
(I find that libtool is wrong 99% of the time and try to avoid it like a plague.)

Related

GTK 3.0 : undefined reference to all the gtk library [duplicate]

Why does the order in which libraries are linked sometimes cause errors in GCC?
(See the history on this answer to get the more elaborate text, but I now think it's easier for the reader to see real command lines).
Common files shared by all below commands
// a depends on b, b depends on d
$ cat a.cpp
extern int a;
int main() {
return a;
}
$ cat b.cpp
extern int b;
int a = b;
$ cat d.cpp
int b;
Linking to static libraries
$ g++ -c b.cpp -o b.o
$ ar cr libb.a b.o
$ g++ -c d.cpp -o d.o
$ ar cr libd.a d.o
$ g++ -L. -ld -lb a.cpp # wrong order
$ g++ -L. -lb -ld a.cpp # wrong order
$ g++ a.cpp -L. -ld -lb # wrong order
$ g++ a.cpp -L. -lb -ld # right order
The linker searches from left to right, and notes unresolved symbols as it goes. If a library resolves the symbol, it takes the object files of that library to resolve the symbol (b.o out of libb.a in this case).
Dependencies of static libraries against each other work the same - the library that needs symbols must be first, then the library that resolves the symbol.
If a static library depends on another library, but the other library again depends on the former library, there is a cycle. You can resolve this by enclosing the cyclically dependent libraries by -( and -), such as -( -la -lb -) (you may need to escape the parens, such as -\( and -\)). The linker then searches those enclosed lib multiple times to ensure cycling dependencies are resolved. Alternatively, you can specify the libraries multiple times, so each is before one another: -la -lb -la.
Linking to dynamic libraries
$ export LD_LIBRARY_PATH=. # not needed if libs go to /usr/lib etc
$ g++ -fpic -shared d.cpp -o libd.so
$ g++ -fpic -shared b.cpp -L. -ld -o libb.so # specifies its dependency!
$ g++ -L. -lb a.cpp # wrong order (works on some distributions)
$ g++ -Wl,--as-needed -L. -lb a.cpp # wrong order
$ g++ -Wl,--as-needed a.cpp -L. -lb # right order
It's the same here - the libraries must follow the object files of the program. The difference here compared with static libraries is that you need not care about the dependencies of the libraries against each other, because dynamic libraries sort out their dependencies themselves.
Some recent distributions apparently default to using the --as-needed linker flag, which enforces that the program's object files come before the dynamic libraries. If that flag is passed, the linker will not link to libraries that are not actually needed by the executable (and it detects this from left to right). My recent archlinux distribution doesn't use this flag by default, so it didn't give an error for not following the correct order.
It is not correct to omit the dependency of b.so against d.so when creating the former. You will be required to specify the library when linking a then, but a doesn't really need the integer b itself, so it should not be made to care about b's own dependencies.
Here is an example of the implications if you miss specifying the dependencies for libb.so
$ export LD_LIBRARY_PATH=. # not needed if libs go to /usr/lib etc
$ g++ -fpic -shared d.cpp -o libd.so
$ g++ -fpic -shared b.cpp -o libb.so # wrong (but links)
$ g++ -L. -lb a.cpp # wrong, as above
$ g++ -Wl,--as-needed -L. -lb a.cpp # wrong, as above
$ g++ a.cpp -L. -lb # wrong, missing libd.so
$ g++ a.cpp -L. -ld -lb # wrong order (works on some distributions)
$ g++ -Wl,--as-needed a.cpp -L. -ld -lb # wrong order (like static libs)
$ g++ -Wl,--as-needed a.cpp -L. -lb -ld # "right"
If you now look into what dependencies the binary has, you note the binary itself depends also on libd, not just libb as it should. The binary will need to be relinked if libb later depends on another library, if you do it this way. And if someone else loads libb using dlopen at runtime (think of loading plugins dynamically), the call will fail as well. So the "right" really should be a wrong as well.
The GNU ld linker is a so-called smart linker. It will keep track of the functions used by preceding static libraries, permanently tossing out those functions that are not used from its lookup tables. The result is that if you link a static library too early, then the functions in that library are no longer available to static libraries later on the link line.
The typical UNIX linker works from left to right, so put all your dependent libraries on the left, and the ones that satisfy those dependencies on the right of the link line. You may find that some libraries depend on others while at the same time other libraries depend on them. This is where it gets complicated. When it comes to circular references, fix your code!
Here's an example to make it clear how things work with GCC when static libraries are involved. So let's assume we have the following scenario:
myprog.o - containing main() function, dependent on libmysqlclient
libmysqlclient - static, for the sake of the example (you'd prefer the shared library, of course, as the libmysqlclient is huge); in /usr/local/lib; and dependent on stuff from libz
libz (dynamic)
How do we link this? (Note: examples from compiling on Cygwin using gcc 4.3.4)
gcc -L/usr/local/lib -lmysqlclient myprog.o
# undefined reference to `_mysql_init'
# myprog depends on libmysqlclient
# so myprog has to come earlier on the command line
gcc myprog.o -L/usr/local/lib -lmysqlclient
# undefined reference to `_uncompress'
# we have to link with libz, too
gcc myprog.o -lz -L/usr/local/lib -lmysqlclient
# undefined reference to `_uncompress'
# libz is needed by libmysqlclient
# so it has to appear *after* it on the command line
gcc myprog.o -L/usr/local/lib -lmysqlclient -lz
# this works
If you add -Wl,--start-group to the linker flags it does not care which order they're in or if there are circular dependencies.
On Qt this means adding:
QMAKE_LFLAGS += -Wl,--start-group
Saves loads of time messing about and it doesn't seem to slow down linking much (which takes far less time than compilation anyway).
Another alternative would be to specify the list of libraries twice:
gcc prog.o libA.a libB.a libA.a libB.a -o prog.x
Doing this, you don't have to bother with the right sequence since the reference will be resolved in the second block.
A quick tip that tripped me up: if you're invoking the linker as "gcc" or "g++", then using "--start-group" and "--end-group" won't pass those options through to the linker -- nor will it flag an error. It will just fail the link with undefined symbols if you had the library order wrong.
You need to write them as "-Wl,--start-group" etc. to tell GCC to pass the argument through to the linker.
You may can use -Xlinker option.
g++ -o foobar -Xlinker -start-group -Xlinker libA.a -Xlinker libB.a -Xlinker libC.a -Xlinker -end-group
is ALMOST equal to
g++ -o foobar -Xlinker -start-group -Xlinker libC.a -Xlinker libB.a -Xlinker libA.a -Xlinker -end-group
Careful !
The order within a group is important !
Here's an example: a debug library has a debug routine, but the non-debug
library has a weak version of the same. You must put the debug library
FIRST in the group or you will resolve to the non-debug version.
You need to precede each library in the group list with -Xlinker
Link order certainly does matter, at least on some platforms. I have seen crashes for applications linked with libraries in wrong order (where wrong means A linked before B but B depends on A).
I have seen this a lot, some of our modules link in excess of a 100 libraries of our code plus system & 3rd party libs.
Depending on different linkers HP/Intel/GCC/SUN/SGI/IBM/etc you can get unresolved functions/variables etc, on some platforms you have to list libraries twice.
For the most part we use structured hierarchy of libraries, core, platform, different layers of abstraction, but for some systems you still have to play with the order in the link command.
Once you hit upon a solution document it so the next developer does not have to work it out again.
My old lecturer used to say, "high cohesion & low coupling", it’s still true today.

Library functions not found when compiling Ubuntu 20.04 [duplicate]

Why does the order in which libraries are linked sometimes cause errors in GCC?
(See the history on this answer to get the more elaborate text, but I now think it's easier for the reader to see real command lines).
Common files shared by all below commands
// a depends on b, b depends on d
$ cat a.cpp
extern int a;
int main() {
return a;
}
$ cat b.cpp
extern int b;
int a = b;
$ cat d.cpp
int b;
Linking to static libraries
$ g++ -c b.cpp -o b.o
$ ar cr libb.a b.o
$ g++ -c d.cpp -o d.o
$ ar cr libd.a d.o
$ g++ -L. -ld -lb a.cpp # wrong order
$ g++ -L. -lb -ld a.cpp # wrong order
$ g++ a.cpp -L. -ld -lb # wrong order
$ g++ a.cpp -L. -lb -ld # right order
The linker searches from left to right, and notes unresolved symbols as it goes. If a library resolves the symbol, it takes the object files of that library to resolve the symbol (b.o out of libb.a in this case).
Dependencies of static libraries against each other work the same - the library that needs symbols must be first, then the library that resolves the symbol.
If a static library depends on another library, but the other library again depends on the former library, there is a cycle. You can resolve this by enclosing the cyclically dependent libraries by -( and -), such as -( -la -lb -) (you may need to escape the parens, such as -\( and -\)). The linker then searches those enclosed lib multiple times to ensure cycling dependencies are resolved. Alternatively, you can specify the libraries multiple times, so each is before one another: -la -lb -la.
Linking to dynamic libraries
$ export LD_LIBRARY_PATH=. # not needed if libs go to /usr/lib etc
$ g++ -fpic -shared d.cpp -o libd.so
$ g++ -fpic -shared b.cpp -L. -ld -o libb.so # specifies its dependency!
$ g++ -L. -lb a.cpp # wrong order (works on some distributions)
$ g++ -Wl,--as-needed -L. -lb a.cpp # wrong order
$ g++ -Wl,--as-needed a.cpp -L. -lb # right order
It's the same here - the libraries must follow the object files of the program. The difference here compared with static libraries is that you need not care about the dependencies of the libraries against each other, because dynamic libraries sort out their dependencies themselves.
Some recent distributions apparently default to using the --as-needed linker flag, which enforces that the program's object files come before the dynamic libraries. If that flag is passed, the linker will not link to libraries that are not actually needed by the executable (and it detects this from left to right). My recent archlinux distribution doesn't use this flag by default, so it didn't give an error for not following the correct order.
It is not correct to omit the dependency of b.so against d.so when creating the former. You will be required to specify the library when linking a then, but a doesn't really need the integer b itself, so it should not be made to care about b's own dependencies.
Here is an example of the implications if you miss specifying the dependencies for libb.so
$ export LD_LIBRARY_PATH=. # not needed if libs go to /usr/lib etc
$ g++ -fpic -shared d.cpp -o libd.so
$ g++ -fpic -shared b.cpp -o libb.so # wrong (but links)
$ g++ -L. -lb a.cpp # wrong, as above
$ g++ -Wl,--as-needed -L. -lb a.cpp # wrong, as above
$ g++ a.cpp -L. -lb # wrong, missing libd.so
$ g++ a.cpp -L. -ld -lb # wrong order (works on some distributions)
$ g++ -Wl,--as-needed a.cpp -L. -ld -lb # wrong order (like static libs)
$ g++ -Wl,--as-needed a.cpp -L. -lb -ld # "right"
If you now look into what dependencies the binary has, you note the binary itself depends also on libd, not just libb as it should. The binary will need to be relinked if libb later depends on another library, if you do it this way. And if someone else loads libb using dlopen at runtime (think of loading plugins dynamically), the call will fail as well. So the "right" really should be a wrong as well.
The GNU ld linker is a so-called smart linker. It will keep track of the functions used by preceding static libraries, permanently tossing out those functions that are not used from its lookup tables. The result is that if you link a static library too early, then the functions in that library are no longer available to static libraries later on the link line.
The typical UNIX linker works from left to right, so put all your dependent libraries on the left, and the ones that satisfy those dependencies on the right of the link line. You may find that some libraries depend on others while at the same time other libraries depend on them. This is where it gets complicated. When it comes to circular references, fix your code!
Here's an example to make it clear how things work with GCC when static libraries are involved. So let's assume we have the following scenario:
myprog.o - containing main() function, dependent on libmysqlclient
libmysqlclient - static, for the sake of the example (you'd prefer the shared library, of course, as the libmysqlclient is huge); in /usr/local/lib; and dependent on stuff from libz
libz (dynamic)
How do we link this? (Note: examples from compiling on Cygwin using gcc 4.3.4)
gcc -L/usr/local/lib -lmysqlclient myprog.o
# undefined reference to `_mysql_init'
# myprog depends on libmysqlclient
# so myprog has to come earlier on the command line
gcc myprog.o -L/usr/local/lib -lmysqlclient
# undefined reference to `_uncompress'
# we have to link with libz, too
gcc myprog.o -lz -L/usr/local/lib -lmysqlclient
# undefined reference to `_uncompress'
# libz is needed by libmysqlclient
# so it has to appear *after* it on the command line
gcc myprog.o -L/usr/local/lib -lmysqlclient -lz
# this works
If you add -Wl,--start-group to the linker flags it does not care which order they're in or if there are circular dependencies.
On Qt this means adding:
QMAKE_LFLAGS += -Wl,--start-group
Saves loads of time messing about and it doesn't seem to slow down linking much (which takes far less time than compilation anyway).
Another alternative would be to specify the list of libraries twice:
gcc prog.o libA.a libB.a libA.a libB.a -o prog.x
Doing this, you don't have to bother with the right sequence since the reference will be resolved in the second block.
A quick tip that tripped me up: if you're invoking the linker as "gcc" or "g++", then using "--start-group" and "--end-group" won't pass those options through to the linker -- nor will it flag an error. It will just fail the link with undefined symbols if you had the library order wrong.
You need to write them as "-Wl,--start-group" etc. to tell GCC to pass the argument through to the linker.
You may can use -Xlinker option.
g++ -o foobar -Xlinker -start-group -Xlinker libA.a -Xlinker libB.a -Xlinker libC.a -Xlinker -end-group
is ALMOST equal to
g++ -o foobar -Xlinker -start-group -Xlinker libC.a -Xlinker libB.a -Xlinker libA.a -Xlinker -end-group
Careful !
The order within a group is important !
Here's an example: a debug library has a debug routine, but the non-debug
library has a weak version of the same. You must put the debug library
FIRST in the group or you will resolve to the non-debug version.
You need to precede each library in the group list with -Xlinker
Link order certainly does matter, at least on some platforms. I have seen crashes for applications linked with libraries in wrong order (where wrong means A linked before B but B depends on A).
I have seen this a lot, some of our modules link in excess of a 100 libraries of our code plus system & 3rd party libs.
Depending on different linkers HP/Intel/GCC/SUN/SGI/IBM/etc you can get unresolved functions/variables etc, on some platforms you have to list libraries twice.
For the most part we use structured hierarchy of libraries, core, platform, different layers of abstraction, but for some systems you still have to play with the order in the link command.
Once you hit upon a solution document it so the next developer does not have to work it out again.
My old lecturer used to say, "high cohesion & low coupling", it’s still true today.

I can't cross-compile a simple program that uses libgd because of undefined references though libgd.a is present [duplicate]

Why does the order in which libraries are linked sometimes cause errors in GCC?
(See the history on this answer to get the more elaborate text, but I now think it's easier for the reader to see real command lines).
Common files shared by all below commands
// a depends on b, b depends on d
$ cat a.cpp
extern int a;
int main() {
return a;
}
$ cat b.cpp
extern int b;
int a = b;
$ cat d.cpp
int b;
Linking to static libraries
$ g++ -c b.cpp -o b.o
$ ar cr libb.a b.o
$ g++ -c d.cpp -o d.o
$ ar cr libd.a d.o
$ g++ -L. -ld -lb a.cpp # wrong order
$ g++ -L. -lb -ld a.cpp # wrong order
$ g++ a.cpp -L. -ld -lb # wrong order
$ g++ a.cpp -L. -lb -ld # right order
The linker searches from left to right, and notes unresolved symbols as it goes. If a library resolves the symbol, it takes the object files of that library to resolve the symbol (b.o out of libb.a in this case).
Dependencies of static libraries against each other work the same - the library that needs symbols must be first, then the library that resolves the symbol.
If a static library depends on another library, but the other library again depends on the former library, there is a cycle. You can resolve this by enclosing the cyclically dependent libraries by -( and -), such as -( -la -lb -) (you may need to escape the parens, such as -\( and -\)). The linker then searches those enclosed lib multiple times to ensure cycling dependencies are resolved. Alternatively, you can specify the libraries multiple times, so each is before one another: -la -lb -la.
Linking to dynamic libraries
$ export LD_LIBRARY_PATH=. # not needed if libs go to /usr/lib etc
$ g++ -fpic -shared d.cpp -o libd.so
$ g++ -fpic -shared b.cpp -L. -ld -o libb.so # specifies its dependency!
$ g++ -L. -lb a.cpp # wrong order (works on some distributions)
$ g++ -Wl,--as-needed -L. -lb a.cpp # wrong order
$ g++ -Wl,--as-needed a.cpp -L. -lb # right order
It's the same here - the libraries must follow the object files of the program. The difference here compared with static libraries is that you need not care about the dependencies of the libraries against each other, because dynamic libraries sort out their dependencies themselves.
Some recent distributions apparently default to using the --as-needed linker flag, which enforces that the program's object files come before the dynamic libraries. If that flag is passed, the linker will not link to libraries that are not actually needed by the executable (and it detects this from left to right). My recent archlinux distribution doesn't use this flag by default, so it didn't give an error for not following the correct order.
It is not correct to omit the dependency of b.so against d.so when creating the former. You will be required to specify the library when linking a then, but a doesn't really need the integer b itself, so it should not be made to care about b's own dependencies.
Here is an example of the implications if you miss specifying the dependencies for libb.so
$ export LD_LIBRARY_PATH=. # not needed if libs go to /usr/lib etc
$ g++ -fpic -shared d.cpp -o libd.so
$ g++ -fpic -shared b.cpp -o libb.so # wrong (but links)
$ g++ -L. -lb a.cpp # wrong, as above
$ g++ -Wl,--as-needed -L. -lb a.cpp # wrong, as above
$ g++ a.cpp -L. -lb # wrong, missing libd.so
$ g++ a.cpp -L. -ld -lb # wrong order (works on some distributions)
$ g++ -Wl,--as-needed a.cpp -L. -ld -lb # wrong order (like static libs)
$ g++ -Wl,--as-needed a.cpp -L. -lb -ld # "right"
If you now look into what dependencies the binary has, you note the binary itself depends also on libd, not just libb as it should. The binary will need to be relinked if libb later depends on another library, if you do it this way. And if someone else loads libb using dlopen at runtime (think of loading plugins dynamically), the call will fail as well. So the "right" really should be a wrong as well.
The GNU ld linker is a so-called smart linker. It will keep track of the functions used by preceding static libraries, permanently tossing out those functions that are not used from its lookup tables. The result is that if you link a static library too early, then the functions in that library are no longer available to static libraries later on the link line.
The typical UNIX linker works from left to right, so put all your dependent libraries on the left, and the ones that satisfy those dependencies on the right of the link line. You may find that some libraries depend on others while at the same time other libraries depend on them. This is where it gets complicated. When it comes to circular references, fix your code!
Here's an example to make it clear how things work with GCC when static libraries are involved. So let's assume we have the following scenario:
myprog.o - containing main() function, dependent on libmysqlclient
libmysqlclient - static, for the sake of the example (you'd prefer the shared library, of course, as the libmysqlclient is huge); in /usr/local/lib; and dependent on stuff from libz
libz (dynamic)
How do we link this? (Note: examples from compiling on Cygwin using gcc 4.3.4)
gcc -L/usr/local/lib -lmysqlclient myprog.o
# undefined reference to `_mysql_init'
# myprog depends on libmysqlclient
# so myprog has to come earlier on the command line
gcc myprog.o -L/usr/local/lib -lmysqlclient
# undefined reference to `_uncompress'
# we have to link with libz, too
gcc myprog.o -lz -L/usr/local/lib -lmysqlclient
# undefined reference to `_uncompress'
# libz is needed by libmysqlclient
# so it has to appear *after* it on the command line
gcc myprog.o -L/usr/local/lib -lmysqlclient -lz
# this works
If you add -Wl,--start-group to the linker flags it does not care which order they're in or if there are circular dependencies.
On Qt this means adding:
QMAKE_LFLAGS += -Wl,--start-group
Saves loads of time messing about and it doesn't seem to slow down linking much (which takes far less time than compilation anyway).
Another alternative would be to specify the list of libraries twice:
gcc prog.o libA.a libB.a libA.a libB.a -o prog.x
Doing this, you don't have to bother with the right sequence since the reference will be resolved in the second block.
A quick tip that tripped me up: if you're invoking the linker as "gcc" or "g++", then using "--start-group" and "--end-group" won't pass those options through to the linker -- nor will it flag an error. It will just fail the link with undefined symbols if you had the library order wrong.
You need to write them as "-Wl,--start-group" etc. to tell GCC to pass the argument through to the linker.
You may can use -Xlinker option.
g++ -o foobar -Xlinker -start-group -Xlinker libA.a -Xlinker libB.a -Xlinker libC.a -Xlinker -end-group
is ALMOST equal to
g++ -o foobar -Xlinker -start-group -Xlinker libC.a -Xlinker libB.a -Xlinker libA.a -Xlinker -end-group
Careful !
The order within a group is important !
Here's an example: a debug library has a debug routine, but the non-debug
library has a weak version of the same. You must put the debug library
FIRST in the group or you will resolve to the non-debug version.
You need to precede each library in the group list with -Xlinker
Link order certainly does matter, at least on some platforms. I have seen crashes for applications linked with libraries in wrong order (where wrong means A linked before B but B depends on A).
I have seen this a lot, some of our modules link in excess of a 100 libraries of our code plus system & 3rd party libs.
Depending on different linkers HP/Intel/GCC/SUN/SGI/IBM/etc you can get unresolved functions/variables etc, on some platforms you have to list libraries twice.
For the most part we use structured hierarchy of libraries, core, platform, different layers of abstraction, but for some systems you still have to play with the order in the link command.
Once you hit upon a solution document it so the next developer does not have to work it out again.
My old lecturer used to say, "high cohesion & low coupling", it’s still true today.

compile multiple cuda files (that have dynamic parallelism) and MPI code

I have a bunch of .cu files that use dynamic parallelism (a.cu, b.cu, c.cu.., e.cu, f.cu), and a main.c file that uses MPI to call functions from a.cu on multiple nodes. I'm trying to write a make file to compile the executable, but I keep facing the following errors:
cudafiles.o: In function `__cudaRegisterLinkedBinary_66_tmpxft_00001a84_00000000_17_cuda_device_runtime_compute_61_cpp1_ii_8b1a5d37':
link.stub:(.text+0x1fb): undefined reference to `__fatbinwrap_66_tmpxft_00001a84_00000000_17_cuda_device_runtime_compute_61_cpp1_ii_8b1a5d37'
Here is my makefile:
INCFILES=-I/usr/local/cuda-8.0/include -I/opt/mpi/mvapich2-gnu/2.2/include -I./
LIBFILES=-L/usr/local/cuda-8.0/lib64 -L/opt/mpi/mvapich2-gnu/2.2/lib
LIBS=-lcudart -lcudadevrt -lcublas_device -lmpi
ARCH=-gencode arch=compute_60,code=sm_60
NVCC=nvcc -ccbin g++
default: all
all: clean final.o
io.o: io.cpp
g++ -c -std=c++11 io.cpp
final.o: io.o a.cu b.cu c.cu d.cu e.cu f.cu main.cpp
$(NVCC) -std=c++11 $(INCFILES) $(LIBFILES) $(LIBS) -g -G -Xptxas -v -dc $(ARCH) a.cu b.cu c.cu d.cu e.cu f.cu
$(NVCC) -std=c++11 $(ARCH) $(INCFILES) $(LIBFILES) $(LIBS) -rdc=true -dlink a.o b.o c.o d.o e.o f.o io.o -o cudafiles.o
mpicxx -O3 $(INCFILES) $(LIBFILES) -c main.cpp -o main.o
mpicxx $(INCFILES) $(LIBFILES) $(LIBS) cudafiles.o a.o b.o c.o d.o e.o f.o io.o main.o -o exec
clean:
rm -rf *.o exec
The original problem reported was an undefined reference to main. This was arising from this line in the Makefile:
$(NVCC) -std=c++11 $(ARCH) $(INCFILES) $(LIBFILES) $(LIBS) -rdc=true a.o b.o c.o d.o e.o f.o io.o -o cudafiles.o
As constructed, this actually instructs nvcc to perform full/final linking. However the intent of this line was to perform the device-link step only, required when compiling with -rdc=true or -dc, and when not performing the final link with nvcc. In this case, the final link was being performed by mpicc/mpicxx. To perform the device-link step only, we need to specify -dlink. Without that switch, nvcc expects to do final linking, but fails because none of the supplied objects contain a main function. The correct solution, since we have no intent to do final link at this point, is to use the -dlink switch.
I also suggested converting everything to C++ style linking, since nvcc links that way. It might be possible to sort out a C-style link with a C++-style link, but this just seems troublesome to me. Therefore I suggested converting the only .c file (main.c) to a .cpp file, and convert from mpicc to mpicxx
The next problem that arose was undefined references to e.g. cudaSetDevice() and cudaFree(). These are part of the CUDA runtime API library ("libcudart"). When performing final link with nvcc, these are linked automatically. But since final link is being performed by mpicxx (basically a wrapper on g++), it's necessary to call out the link against that library specifically with -lcudart.
Finally, the remaining problem was a link-order problem. In a nutshell, link dependencies need to be satisfied from left to right in the linker command line. Different compilers are more or less picky about this. The final reordering changes were to specify the libraries to link against in the correct order, and also to specify these libraries at the end of the link command line, so that any dependencies on these libraries, to their left in the link command line, are satisfied.

undefined reference to in C with gcc [duplicate]

Why does the order in which libraries are linked sometimes cause errors in GCC?
(See the history on this answer to get the more elaborate text, but I now think it's easier for the reader to see real command lines).
Common files shared by all below commands
// a depends on b, b depends on d
$ cat a.cpp
extern int a;
int main() {
return a;
}
$ cat b.cpp
extern int b;
int a = b;
$ cat d.cpp
int b;
Linking to static libraries
$ g++ -c b.cpp -o b.o
$ ar cr libb.a b.o
$ g++ -c d.cpp -o d.o
$ ar cr libd.a d.o
$ g++ -L. -ld -lb a.cpp # wrong order
$ g++ -L. -lb -ld a.cpp # wrong order
$ g++ a.cpp -L. -ld -lb # wrong order
$ g++ a.cpp -L. -lb -ld # right order
The linker searches from left to right, and notes unresolved symbols as it goes. If a library resolves the symbol, it takes the object files of that library to resolve the symbol (b.o out of libb.a in this case).
Dependencies of static libraries against each other work the same - the library that needs symbols must be first, then the library that resolves the symbol.
If a static library depends on another library, but the other library again depends on the former library, there is a cycle. You can resolve this by enclosing the cyclically dependent libraries by -( and -), such as -( -la -lb -) (you may need to escape the parens, such as -\( and -\)). The linker then searches those enclosed lib multiple times to ensure cycling dependencies are resolved. Alternatively, you can specify the libraries multiple times, so each is before one another: -la -lb -la.
Linking to dynamic libraries
$ export LD_LIBRARY_PATH=. # not needed if libs go to /usr/lib etc
$ g++ -fpic -shared d.cpp -o libd.so
$ g++ -fpic -shared b.cpp -L. -ld -o libb.so # specifies its dependency!
$ g++ -L. -lb a.cpp # wrong order (works on some distributions)
$ g++ -Wl,--as-needed -L. -lb a.cpp # wrong order
$ g++ -Wl,--as-needed a.cpp -L. -lb # right order
It's the same here - the libraries must follow the object files of the program. The difference here compared with static libraries is that you need not care about the dependencies of the libraries against each other, because dynamic libraries sort out their dependencies themselves.
Some recent distributions apparently default to using the --as-needed linker flag, which enforces that the program's object files come before the dynamic libraries. If that flag is passed, the linker will not link to libraries that are not actually needed by the executable (and it detects this from left to right). My recent archlinux distribution doesn't use this flag by default, so it didn't give an error for not following the correct order.
It is not correct to omit the dependency of b.so against d.so when creating the former. You will be required to specify the library when linking a then, but a doesn't really need the integer b itself, so it should not be made to care about b's own dependencies.
Here is an example of the implications if you miss specifying the dependencies for libb.so
$ export LD_LIBRARY_PATH=. # not needed if libs go to /usr/lib etc
$ g++ -fpic -shared d.cpp -o libd.so
$ g++ -fpic -shared b.cpp -o libb.so # wrong (but links)
$ g++ -L. -lb a.cpp # wrong, as above
$ g++ -Wl,--as-needed -L. -lb a.cpp # wrong, as above
$ g++ a.cpp -L. -lb # wrong, missing libd.so
$ g++ a.cpp -L. -ld -lb # wrong order (works on some distributions)
$ g++ -Wl,--as-needed a.cpp -L. -ld -lb # wrong order (like static libs)
$ g++ -Wl,--as-needed a.cpp -L. -lb -ld # "right"
If you now look into what dependencies the binary has, you note the binary itself depends also on libd, not just libb as it should. The binary will need to be relinked if libb later depends on another library, if you do it this way. And if someone else loads libb using dlopen at runtime (think of loading plugins dynamically), the call will fail as well. So the "right" really should be a wrong as well.
The GNU ld linker is a so-called smart linker. It will keep track of the functions used by preceding static libraries, permanently tossing out those functions that are not used from its lookup tables. The result is that if you link a static library too early, then the functions in that library are no longer available to static libraries later on the link line.
The typical UNIX linker works from left to right, so put all your dependent libraries on the left, and the ones that satisfy those dependencies on the right of the link line. You may find that some libraries depend on others while at the same time other libraries depend on them. This is where it gets complicated. When it comes to circular references, fix your code!
Here's an example to make it clear how things work with GCC when static libraries are involved. So let's assume we have the following scenario:
myprog.o - containing main() function, dependent on libmysqlclient
libmysqlclient - static, for the sake of the example (you'd prefer the shared library, of course, as the libmysqlclient is huge); in /usr/local/lib; and dependent on stuff from libz
libz (dynamic)
How do we link this? (Note: examples from compiling on Cygwin using gcc 4.3.4)
gcc -L/usr/local/lib -lmysqlclient myprog.o
# undefined reference to `_mysql_init'
# myprog depends on libmysqlclient
# so myprog has to come earlier on the command line
gcc myprog.o -L/usr/local/lib -lmysqlclient
# undefined reference to `_uncompress'
# we have to link with libz, too
gcc myprog.o -lz -L/usr/local/lib -lmysqlclient
# undefined reference to `_uncompress'
# libz is needed by libmysqlclient
# so it has to appear *after* it on the command line
gcc myprog.o -L/usr/local/lib -lmysqlclient -lz
# this works
If you add -Wl,--start-group to the linker flags it does not care which order they're in or if there are circular dependencies.
On Qt this means adding:
QMAKE_LFLAGS += -Wl,--start-group
Saves loads of time messing about and it doesn't seem to slow down linking much (which takes far less time than compilation anyway).
Another alternative would be to specify the list of libraries twice:
gcc prog.o libA.a libB.a libA.a libB.a -o prog.x
Doing this, you don't have to bother with the right sequence since the reference will be resolved in the second block.
A quick tip that tripped me up: if you're invoking the linker as "gcc" or "g++", then using "--start-group" and "--end-group" won't pass those options through to the linker -- nor will it flag an error. It will just fail the link with undefined symbols if you had the library order wrong.
You need to write them as "-Wl,--start-group" etc. to tell GCC to pass the argument through to the linker.
You may can use -Xlinker option.
g++ -o foobar -Xlinker -start-group -Xlinker libA.a -Xlinker libB.a -Xlinker libC.a -Xlinker -end-group
is ALMOST equal to
g++ -o foobar -Xlinker -start-group -Xlinker libC.a -Xlinker libB.a -Xlinker libA.a -Xlinker -end-group
Careful !
The order within a group is important !
Here's an example: a debug library has a debug routine, but the non-debug
library has a weak version of the same. You must put the debug library
FIRST in the group or you will resolve to the non-debug version.
You need to precede each library in the group list with -Xlinker
Link order certainly does matter, at least on some platforms. I have seen crashes for applications linked with libraries in wrong order (where wrong means A linked before B but B depends on A).
I have seen this a lot, some of our modules link in excess of a 100 libraries of our code plus system & 3rd party libs.
Depending on different linkers HP/Intel/GCC/SUN/SGI/IBM/etc you can get unresolved functions/variables etc, on some platforms you have to list libraries twice.
For the most part we use structured hierarchy of libraries, core, platform, different layers of abstraction, but for some systems you still have to play with the order in the link command.
Once you hit upon a solution document it so the next developer does not have to work it out again.
My old lecturer used to say, "high cohesion & low coupling", it’s still true today.

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