Compiling issue undefined reference to symbol 'clock_gettime@@GLIBC_2.2'

[nevixa]

Hi,

When compiling my c/c++ program in Netbeans I get this error:

gcc -I/usr/local/include/opencv -I/usr/local/include -pthread -I/usr/include/libxml2 -I/usr/include/glibmm-2.4 -I/usr/lib/i386-linux-gnu/glibmm-2.4/include -I/usr/include/sigc++-2.0 -I/usr/lib/i386-linux-gnu/sigc++-2.0/include -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -I/usr/include/libxml++-2.6 -I/usr/lib/libxml++-2.6/include -lxml++-2.6 -lxml2 -lglibmm-2.4 -lgobject-2.0 -lsigc-2.0 -lglib-2.0 -fpermissive    -L/usr/local/lib -lopencv_core -lopencv_imgproc -lopencv_highgui -lopencv_ml -lopencv_video -lopencv_features2d -lopencv_calib3d -lopencv_objdetect -lopencv_contrib -lopencv_legacy -lopencv_flann -ldecodeqr -L/usr/local/lib/ -lcurl -pthread -lxml++-2.6 -lxml2 -lglibmm-2.4 -lgobject-2.0 -lsigc-2.0 -lgthread-2.0 -lrt -lglib-2.0 -o dist/Debug/GNU-Linux-x86/trunk build/Debug/GNU-Linux-x86/cardObject.o build/Debug/GNU-Linux-x86/visualisation.o build/Debug/GNU-Linux-x86/monitoring.o build/Debug/GNU-Linux-x86/main.o build/Debug/GNU-Linux-x86/player.o build/Debug/GNU-Linux-x86/detectBiddings.o build/Debug/GNU-Linux-x86/gameStatsObject.o build/Debug/GNU-Linux-x86/cardOCR.o build/Debug/GNU-Linux-x86/cardModifications.o build/Debug/GNU-Linux-x86/geometry.o build/Debug/GNU-Linux-x86/boardNumber.o build/Debug/GNU-Linux-x86/cardSuit.o build/Debug/GNU-Linux-x86/bidObject.o build/Debug/GNU-Linux-x86/dummyCorner.o build/Debug/GNU-Linux-x86/trayCorner.o build/Debug/GNU-Linux-x86/logicConnection.o build/Debug/GNU-Linux-x86/bidSuit.o build/Debug/GNU-Linux-x86/bmCommunication.o build/Debug/GNU-Linux-x86/imageProcessing.o build/Debug/GNU-Linux-x86/bidOCR.o -lopencv_core -lopencv_highgui -lopencv_imgproc -lopencv_video -lclsocket -ldecodeqr 
/usr/bin/ld: build/Debug/GNU-Linux-x86/imageProcessing.o: undefined reference to symbol 'clock_gettime@@GLIBC_2.2'
/usr/bin/ld: note: 'clock_gettime@@GLIBC_2.2' is defined in DSO /usr/lib/gcc/i686-linux-gnu/4.6/../../../i386-linux-gnu/librt.so so try adding it to the linker command line
/usr/lib/gcc/i686-linux-gnu/4.6/../../../i386-linux-gnu/librt.so: could not read symbols: Invalid operation
collect2: ld returned 1 exit status
make[2]: *** [dist/Debug/GNU-Linux-x86/trunk] Error 1
make[2]: Leaving directory `/home/user/NetBeansProjects/bcr/trunk'
make[1]: *** [.build-conf] Error 2
make[1]: Leaving directory `/home/user/NetBeansProjects/bcr/trunk'
make: *** [.build-impl] Error 2

I'm on Ubuntu 12.04. I have the same code running on Ubuntu 10.10 without any compiling problems. I assume there is a library linking problem, but I do not have a clue how to solve this.

Thank you

[roelforg]

Move your sourcefiles to the begin of the command and put -lrt after the source files.

G++ can be a little picky about the order (i know why, but i don't feel like explaining it)

[nevixa]

Thank you roelforg. I made a mess of the included libraries, so I start with cleaning that up.

[roelforg]

Thank you roelforg. I made a mess of the included libraries, so I start with cleaning that up.

If you don't mind the longer compile times, order like this:

-Wl,--start-group <source files and libraries go here, order not important> -Wl,--end-group

This'll cause the linker to keep researching the list until all references are resolved.

[nevixa]

Good tip, thanx.

[nevixa]

I cleaned out my code and tried to clean out my includes. I'm trying to add libxml++-2.6 (version 2.35.2?) to my Netbeans program.

My includes before adding libxml++-2.6:

-Wl,--start-group -I/usr/local/include/opencv -I/usr/local/include -pthread -Wl,--end-group -fpermissive

Compiles perfectly.
I added the output of pkg-config libxml++-2.6 --cflags --libsto my addition compiler options. Giving me:

gcc -Wl,--start-group -L/usr/local/lib -lopencv_core -lopencv_imgproc -lopencv_highgui -lopencv_ml -lopencv_video -lopencv_features2d -lopencv_calib3d -lopencv_objdetect -lopencv_contrib -lopencv_legacy -lopencv_flann -pthread -I/usr/local/include/libxml++-2.6 -I/usr/local/lib/libxml++-2.6/include -I/usr/include/libxml2 -I/usr/include/glibmm-2.4 -I/usr/lib/i386-linux-gnu/glibmm-2.4/include -I/usr/include/sigc++-2.0 -I/usr/lib/i386-linux-gnu/sigc++-2.0/include -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -L/usr/local/lib -lxml++-2.6 -lxml2 -lglibmm-2.4 -lgobject-2.0 -lsigc-2.0 -lglib-2.0 -Wl,--end-group -o dist/Debug/GNU-Linux-x86/trunk build/Debug/GNU-Linux-x86/cardObject.o build/Debug/GNU-Linux-x86/visualisation.o build/Debug/GNU-Linux-x86/monitoring.o build/Debug/GNU-Linux-x86/main.o build/Debug/GNU-Linux-x86/player.o build/Debug/GNU-Linux-x86/detectBiddings.o build/Debug/GNU-Linux-x86/gameStatsObject.o build/Debug/GNU-Linux-x86/cardOCR.o build/Debug/GNU-Linux-x86/cardModifications.o build/Debug/GNU-Linux-x86/geometry.o build/Debug/GNU-Linux-x86/boardNumber.o build/Debug/GNU-Linux-x86/cardSuit.o build/Debug/GNU-Linux-x86/bidObject.o build/Debug/GNU-Linux-x86/dummyCorner.o build/Debug/GNU-Linux-x86/trayCorner.o build/Debug/GNU-Linux-x86/logicConnection.o build/Debug/GNU-Linux-x86/bidSuit.o build/Debug/GNU-Linux-x86/bmCommunication.o build/Debug/GNU-Linux-x86/imageProcessing.o build/Debug/GNU-Linux-x86/bidOCR.o -lclsocket -lopencv_core -lopencv_highgui -lopencv_imgproc -lopencv_legacy -lopencv_ml -lopencv_video -lcurl -lxml++-2.6 
/usr/bin/ld: build/Debug/GNU-Linux-x86/logicConnection.o: undefined reference to symbol 'Glib::ustring::compare(char const*) const'
/usr/bin/ld: note: 'Glib::ustring::compare(char const*) const' is defined in DSO /usr/lib/gcc/i686-linux-gnu/4.6/../../../i386-linux-gnu/libglibmm-2.4.so so try adding it to the linker command line
/usr/lib/gcc/i686-linux-gnu/4.6/../../../i386-linux-gnu/libglibmm-2.4.so: could not read symbols: Invalid operation
collect2: ld returned 1 exit status
make[2]: *** [dist/Debug/GNU-Linux-x86/trunk] Error 1
make[2]: Leaving directory `/home/user/NetBeansProjects/bcr/trunk'
make[1]: *** [.build-conf] Error 2
make[1]: Leaving directory `/home/user/NetBeansProjects/bcr/trunk'
make: *** [.build-impl] Error 2

Any ideas what I'm doing wrong?

[roelforg]

I cleaned out my code and tried to clean out my includes. I'm trying to add libxml++-2.6 (version 2.35.2?) to my Netbeans program.

My includes before adding libxml++-2.6:

-Wl,--start-group -I/usr/local/include/opencv -I/usr/local/include -pthread -Wl,--end-group -fpermissive

Compiles perfectly.
I added the output of pkg-config libxml++-2.6 --cflags --libsto my addition compiler options. Giving me:

gcc -Wl,--start-group -L/usr/local/lib -lopencv_core -lopencv_imgproc -lopencv_highgui -lopencv_ml -lopencv_video -lopencv_features2d -lopencv_calib3d -lopencv_objdetect -lopencv_contrib -lopencv_legacy -lopencv_flann -pthread -I/usr/local/include/libxml++-2.6 -I/usr/local/lib/libxml++-2.6/include -I/usr/include/libxml2 -I/usr/include/glibmm-2.4 -I/usr/lib/i386-linux-gnu/glibmm-2.4/include -I/usr/include/sigc++-2.0 -I/usr/lib/i386-linux-gnu/sigc++-2.0/include -I/usr/include/glib-2.0 -I/usr/lib/i386-linux-gnu/glib-2.0/include -L/usr/local/lib -lxml++-2.6 -lxml2 -lglibmm-2.4 -lgobject-2.0 -lsigc-2.0 -lglib-2.0 -Wl,--end-group -o dist/Debug/GNU-Linux-x86/trunk build/Debug/GNU-Linux-x86/cardObject.o build/Debug/GNU-Linux-x86/visualisation.o build/Debug/GNU-Linux-x86/monitoring.o build/Debug/GNU-Linux-x86/main.o build/Debug/GNU-Linux-x86/player.o build/Debug/GNU-Linux-x86/detectBiddings.o build/Debug/GNU-Linux-x86/gameStatsObject.o build/Debug/GNU-Linux-x86/cardOCR.o build/Debug/GNU-Linux-x86/cardModifications.o build/Debug/GNU-Linux-x86/geometry.o build/Debug/GNU-Linux-x86/boardNumber.o build/Debug/GNU-Linux-x86/cardSuit.o build/Debug/GNU-Linux-x86/bidObject.o build/Debug/GNU-Linux-x86/dummyCorner.o build/Debug/GNU-Linux-x86/trayCorner.o build/Debug/GNU-Linux-x86/logicConnection.o build/Debug/GNU-Linux-x86/bidSuit.o build/Debug/GNU-Linux-x86/bmCommunication.o build/Debug/GNU-Linux-x86/imageProcessing.o build/Debug/GNU-Linux-x86/bidOCR.o -lclsocket -lopencv_core -lopencv_highgui -lopencv_imgproc -lopencv_legacy -lopencv_ml -lopencv_video -lcurl -lxml++-2.6 
/usr/bin/ld: build/Debug/GNU-Linux-x86/logicConnection.o: undefined reference to symbol 'Glib::ustring::compare(char const*) const'
/usr/bin/ld: note: 'Glib::ustring::compare(char const*) const' is defined in DSO /usr/lib/gcc/i686-linux-gnu/4.6/../../../i386-linux-gnu/libglibmm-2.4.so so try adding it to the linker command line
/usr/lib/gcc/i686-linux-gnu/4.6/../../../i386-linux-gnu/libglibmm-2.4.so: could not read symbols: Invalid operation
collect2: ld returned 1 exit status
make[2]: *** [dist/Debug/GNU-Linux-x86/trunk] Error 1
make[2]: Leaving directory `/home/user/NetBeansProjects/bcr/trunk'
make[1]: *** [.build-conf] Error 2
make[1]: Leaving directory `/home/user/NetBeansProjects/bcr/trunk'
make: *** [.build-impl] Error 2

Any ideas what I'm doing wrong?

It's not the includes that you need to put in the -Wl,--start-group -Wl,--end-group
This command line is how you should've done it:

gcc -L/usr/local/lib -I/usr/local/include/libxml++-2.6 -I/usr/local/lib/libxml++-2.6/include  -I/usr/include/libxml2 -I/usr/include/glibmm-2.4  -I/usr/lib/i386-linux-gnu/glibmm-2.4/include -I/usr/include/sigc++-2.0  -I/usr/lib/i386-linux-gnu/sigc++-2.0/include -I/usr/include/glib-2.0  -I/usr/lib/i386-linux-gnu/glib-2.0/include -L/usr/local/lib  -Wl,--start-group -lopencv_core  -lopencv_imgproc -lopencv_highgui -lopencv_ml -lopencv_video  -lopencv_features2d -lopencv_calib3d -lopencv_objdetect -lopencv_contrib  -lopencv_legacy -lopencv_flann -pthread -lxml++-2.6  -lxml2 -lglibmm-2.4 -lgobject-2.0 -lsigc-2.0 -lglib-2.0 build/Debug/GNU-Linux-x86/cardObject.o  build/Debug/GNU-Linux-x86/visualisation.o  build/Debug/GNU-Linux-x86/monitoring.o build/Debug/GNU-Linux-x86/main.o  build/Debug/GNU-Linux-x86/player.o  build/Debug/GNU-Linux-x86/detectBiddings.o  build/Debug/GNU-Linux-x86/gameStatsObject.o  build/Debug/GNU-Linux-x86/cardOCR.o  build/Debug/GNU-Linux-x86/cardModifications.o  build/Debug/GNU-Linux-x86/geometry.o  build/Debug/GNU-Linux-x86/boardNumber.o  build/Debug/GNU-Linux-x86/cardSuit.o  build/Debug/GNU-Linux-x86/bidObject.o  build/Debug/GNU-Linux-x86/dummyCorner.o  build/Debug/GNU-Linux-x86/trayCorner.o  build/Debug/GNU-Linux-x86/logicConnection.o  build/Debug/GNU-Linux-x86/bidSuit.o  build/Debug/GNU-Linux-x86/bmCommunication.o  build/Debug/GNU-Linux-x86/imageProcessing.o  build/Debug/GNU-Linux-x86/bidOCR.o -lclsocket -lopencv_core  -lopencv_highgui -lopencv_imgproc -lopencv_legacy -lopencv_ml  -lopencv_video -lcurl -lxml++-2.6 -Wl,--end-group   -o dist/Debug/GNU-Linux-x86/trunk

[MadCow108]

instead of messing around with groups, why not just do it right to begin with?
just move all -l... to the end of the line.

[roelforg]

instead of messing around with groups, why not just do it right to begin with?
just move all -l... to the end of the line.

It's useful when you have circular dependencies (try using sdl with several of it's helper libs and you'll see how picky it is about where the source goes (hint: it's not at the end, or beginning but somewhere in the middle of the libs), then it's very useful to have groups).

[nevixa]

It's not the includes that you need to put in the -Wl,--start-group -Wl,--end-group
This command line is how you should've done it:

gcc -L/usr/local/lib -I/usr/local/include/libxml++-2.6 -I/usr/local/lib/libxml++-2.6/include  -I/usr/include/libxml2 -I/usr/include/glibmm-2.4  -I/usr/lib/i386-linux-gnu/glibmm-2.4/include -I/usr/include/sigc++-2.0  -I/usr/lib/i386-linux-gnu/sigc++-2.0/include -I/usr/include/glib-2.0  -I/usr/lib/i386-linux-gnu/glib-2.0/include -L/usr/local/lib  -Wl,--start-group -lopencv_core  -lopencv_imgproc -lopencv_highgui -lopencv_ml -lopencv_video  -lopencv_features2d -lopencv_calib3d -lopencv_objdetect -lopencv_contrib  -lopencv_legacy -lopencv_flann -pthread -lxml++-2.6  -lxml2 -lglibmm-2.4 -lgobject-2.0 -lsigc-2.0 -lglib-2.0 build/Debug/GNU-Linux-x86/cardObject.o  build/Debug/GNU-Linux-x86/visualisation.o  build/Debug/GNU-Linux-x86/monitoring.o build/Debug/GNU-Linux-x86/main.o  build/Debug/GNU-Linux-x86/player.o  build/Debug/GNU-Linux-x86/detectBiddings.o  build/Debug/GNU-Linux-x86/gameStatsObject.o  build/Debug/GNU-Linux-x86/cardOCR.o  build/Debug/GNU-Linux-x86/cardModifications.o  build/Debug/GNU-Linux-x86/geometry.o  build/Debug/GNU-Linux-x86/boardNumber.o  build/Debug/GNU-Linux-x86/cardSuit.o  build/Debug/GNU-Linux-x86/bidObject.o  build/Debug/GNU-Linux-x86/dummyCorner.o  build/Debug/GNU-Linux-x86/trayCorner.o  build/Debug/GNU-Linux-x86/logicConnection.o  build/Debug/GNU-Linux-x86/bidSuit.o  build/Debug/GNU-Linux-x86/bmCommunication.o  build/Debug/GNU-Linux-x86/imageProcessing.o  build/Debug/GNU-Linux-x86/bidOCR.o -lclsocket -lopencv_core  -lopencv_highgui -lopencv_imgproc -lopencv_legacy -lopencv_ml  -lopencv_video -lcurl -lxml++-2.6 -Wl,--end-group   -o dist/Debug/GNU-Linux-x86/trunk

When I compile in terminal with the command line above I still get the Glib::ustring compile error:

/usr/bin/ld: build/Debug/GNU-Linux-x86/logicConnection.o: undefined reference to symbol 'Glib::ustring::compare(char const*) const'
/usr/bin/ld: note: 'Glib::ustring::compare(char const*) const' is defined in DSO /usr/lib/gcc/i686-linux-gnu/4.6/../../../i386-linux-gnu/libglibmm-2.4.so so try adding it to the linker command line
/usr/lib/gcc/i686-linux-gnu/4.6/../../../i386-linux-gnu/libglibmm-2.4.so: could not read symbols: Invalid operation
collect2: ld returned 1 exit status

@MadCow108 thank you for your reaction. Do you mean like this:

gcc -L/usr/local/lib -I/usr/local/include/libxml++-2.6 -I/usr/local/lib/libxml++-2.6/include  -I/usr/include/libxml2 -I/usr/include/glibmm-2.4  -I/usr/lib/i386-linux-gnu/glibmm-2.4/include -I/usr/include/sigc++-2.0  -I/usr/lib/i386-linux-gnu/sigc++-2.0/include -I/usr/include/glib-2.0  -I/usr/lib/i386-linux-gnu/glib-2.0/include -L/usr/local/lib   build/Debug/GNU-Linux-x86/cardObject.o  build/Debug/GNU-Linux-x86/visualisation.o  build/Debug/GNU-Linux-x86/monitoring.o build/Debug/GNU-Linux-x86/main.o  build/Debug/GNU-Linux-x86/player.o  build/Debug/GNU-Linux-x86/detectBiddings.o  build/Debug/GNU-Linux-x86/gameStatsObject.o  build/Debug/GNU-Linux-x86/cardOCR.o  build/Debug/GNU-Linux-x86/cardModifications.o  build/Debug/GNU-Linux-x86/geometry.o  build/Debug/GNU-Linux-x86/boardNumber.o  build/Debug/GNU-Linux-x86/cardSuit.o  build/Debug/GNU-Linux-x86/bidObject.o  build/Debug/GNU-Linux-x86/dummyCorner.o  build/Debug/GNU-Linux-x86/trayCorner.o  build/Debug/GNU-Linux-x86/logicConnection.o  build/Debug/GNU-Linux-x86/bidSuit.o  build/Debug/GNU-Linux-x86/bmCommunication.o  build/Debug/GNU-Linux-x86/imageProcessing.o  build/Debug/GNU-Linux-x86/bidOCR.o -lclsocket -lopencv_core  -lopencv_highgui -lopencv_imgproc -lopencv_legacy -lopencv_ml  -lopencv_video -lcurl -lxml++-2.6 -pthread -lxml++-2.6  -lxml2 -lglibmm-2.4 -lgobject-2.0 -lsigc-2.0 -lglib-2.0  -o dist/Debug/GNU-Linux-x86/trunk

That seems actually to compile without errors! Now I am going to figure out how to get this compiled within netbeans. Thanks again!