# Cmake can't find openbabel when compiling latest release **URL:** \ **Category:** General Discussion\ **Created:** [July 30, 2013, 3:01pm UTC](https://discuss.avogadro.cc/t/cmake-cant-find-openbabel-when-compiling-latest-release/334 "2013-07-30T15:01:18Z")\ **Posts on this page:** 3\ **Page:** 1
**Author:** ![Kyle\_Bentley](https://discuss.avogadro.cc/letter_avatar_proxy/v4/letter/k/9dc877/32.png) [@Kyle\_Bentley](https://discuss.avogadro.cc/u/Kyle_Bentley)\ **Post date:** [July 30, 2013, 3:01pm UTC](https://discuss.avogadro.cc/t/cmake-cant-find-openbabel-when-compiling-latest-release/334/1 "2013-07-30T15:01:18Z")
I’m trying to compile the latest release, and everything has gone semi-smoothly up till now. I only had to manually enter a few of the paths, the libgl file path (using AMD’s catalyst libgl) and the qmake-qt4 path into the CMakeCache. I’m at a point where I’m not sure what to enter into the CMakeCache internal entries. cmake is complaining about not being able to find the openbabel libs. I’m certain they are installed, and I can see them in /usr/lib/openbabel/2.3.1 (I’m running debian testing if that helps). The suspect section is here: OPENBABEL2\_CFLAGS:INTERNAL= OPENBABEL2\_CFLAGS\_I:INTERNAL= OPENBABEL2\_CFLAGS\_OTHER:INTERNAL= OPENBABEL2\_FOUND:INTERNAL= OPENBABEL2\_INCLUDEDIR:INTERNAL= OPENBABEL2\_LIBDIR:INTERNAL= OPENBABEL2\_LIBS:INTERNAL= OPENBABEL2\_LIBS\_L:INTERNAL= OPENBABEL2\_LIBS\_OTHER:INTERNAL= OPENBABEL2\_LIBS\_PATHS:INTERNAL= OPENBABEL2\_PREFIX:INTERNAL= OPENBABEL2\_STATIC\_CFLAGS:INTERNAL= OPENBABEL2\_STATIC\_CFLAGS\_I:INTERNAL= OPENBABEL2\_STATIC\_CFLAGS\_OTHER:INTERNAL= OPENBABEL2\_STATIC\_LIBDIR:INTERNAL= OPENBABEL2\_STATIC\_LIBS:INTERNAL= OPENBABEL2\_STATIC\_LIBS\_L:INTERNAL= OPENBABEL2\_STATIC\_LIBS\_OTHER:INTERNAL= OPENBABEL2\_STATIC\_LIBS\_PATHS:INTERNAL= OPENBABEL2\_VERSION:INTERNAL= OPENBABEL2\_openbabel-2.0\_INCLUDEDIR:INTERNAL= OPENBABEL2\_openbabel-2.0\_LIBDIR:INTERNAL= OPENBABEL2\_openbabel-2.0\_PREFIX:INTERNAL= OPENBABEL2\_openbabel-2.0\_VERSION:INTERNAL= I’m sure that I need to point one of these to /usr/lib/ or /usr/lib/openbabel, but I don’t want to botch the whole setup. I’ve attached my current cache file too, incase it’s needed. Thanks, Kyle Bentley ---
**Author:** ![allison.vacanti](https://discuss.avogadro.cc/user_avatar/discuss.avogadro.cc/allison.vacanti/32/112_2.png) [@allison.vacanti](https://discuss.avogadro.cc/u/allison.vacanti)\ **Post date:** [July 30, 2013, 3:15pm UTC](https://discuss.avogadro.cc/t/cmake-cant-find-openbabel-when-compiling-latest-release/334/2 "2013-07-30T15:15:11Z")
Hi Kyle, You shouldn’t need to modify the cache directly, especially not the internal cache variables. See [http://avogadro.openmolecules.net/wiki/Compiling\_on\_Linux\_and\_Mac\_OS\_X](http://avogadro.openmolecules.net/wiki/Compiling_on_Linux_and_Mac_OS_X) (It’s a bit confusing, there are two sections on building Avogadro on that page for some reason). You want to set OPENBABEL2\_INCLUDE\_DIR to something like $HOME/src/openbabel-2.2/include and OPENBABEL2\_LIBRARIES to something like $HOME/src/openbabel-2.2/src/.libs/libopenbabel.so, depending on where OB is installed. Rather than editing the cache-file directly, try using cmake-gui (requires Qt) or ccmake (terminal based, requires ncurses), depending on if you’re at a terminal or not. Otherwise, you can just run: cmake . -D= in the build directory to adjust the settings. Hope this helps, Dave On Tue, Jul 30, 2013 at 11:01 AM, Kyle Bentley [kwbent@uab.edu](mailto:kwbent@uab.edu) wrote: > I’m trying to compile the latest release, and everything has gone > semi-smoothly up till now. I only had to manually enter a few of the paths, > the libgl file path (using AMD’s catalyst libgl) and the qmake-qt4 path into > the CMakeCache. I’m at a point where I’m not sure what to enter into the > CMakeCache internal entries. cmake is complaining about not being able to > find the openbabel libs. I’m certain they are installed, and I can see them > in /usr/lib/openbabel/2.3.1 (I’m running debian testing if that helps). The > suspect section is here: > > OPENBABEL2\_CFLAGS:INTERNAL= > OPENBABEL2\_CFLAGS\_I:INTERNAL= > OPENBABEL2\_CFLAGS\_OTHER:INTERNAL= > OPENBABEL2\_FOUND:INTERNAL= > OPENBABEL2\_INCLUDEDIR:INTERNAL= > OPENBABEL2\_LIBDIR:INTERNAL= > OPENBABEL2\_LIBS:INTERNAL= > OPENBABEL2\_LIBS\_L:INTERNAL= > OPENBABEL2\_LIBS\_OTHER:INTERNAL= > OPENBABEL2\_LIBS\_PATHS:INTERNAL= > OPENBABEL2\_PREFIX:INTERNAL= > OPENBABEL2\_STATIC\_CFLAGS:INTERNAL= > OPENBABEL2\_STATIC\_CFLAGS\_I:INTERNAL= > OPENBABEL2\_STATIC\_CFLAGS\_OTHER:INTERNAL= > OPENBABEL2\_STATIC\_LIBDIR:INTERNAL= > OPENBABEL2\_STATIC\_LIBS:INTERNAL= > OPENBABEL2\_STATIC\_LIBS\_L:INTERNAL= > OPENBABEL2\_STATIC\_LIBS\_OTHER:INTERNAL= > OPENBABEL2\_STATIC\_LIBS\_PATHS:INTERNAL= > OPENBABEL2\_VERSION:INTERNAL= > OPENBABEL2\_openbabel-2.0\_INCLUDEDIR:INTERNAL= > OPENBABEL2\_openbabel-2.0\_LIBDIR:INTERNAL= > OPENBABEL2\_openbabel-2.0\_PREFIX:INTERNAL= > OPENBABEL2\_openbabel-2.0\_VERSION:INTERNAL= > > I’m sure that I need to point one of these to /usr/lib/ or > /usr/lib/openbabel, but I don’t want to botch the whole setup. I’ve > attached my current cache file too, incase it’s needed. > > Thanks, > > Kyle Bentley > > * * * > > Get your SQL database under version control now! > Version control is standard for application code, but databases havent > caught up. So what steps can you take to put your SQL databases under > version control? Why should you start doing it? Read more to find out. > [http://pubads.g.doubleclick.net/gampad/clk?id=49501711&iu=/4140/ostg.clktrk](http://pubads.g.doubleclick.net/gampad/clk?id=49501711&iu=/4140/ostg.clktrk) > > * * * > > Avogadro-Discuss mailing list > [Avogadro-Discuss@lists.sourceforge.net](mailto:Avogadro-Discuss@lists.sourceforge.net) > [avogadro-discuss List Signup and Options](https://lists.sourceforge.net/lists/listinfo/avogadro-discuss) ---
**Author:** ![Kyle\_Bentley](https://discuss.avogadro.cc/letter_avatar_proxy/v4/letter/k/9dc877/32.png) [@Kyle\_Bentley](https://discuss.avogadro.cc/u/Kyle_Bentley)\ **Post date:** [July 30, 2013, 3:36pm UTC](https://discuss.avogadro.cc/t/cmake-cant-find-openbabel-when-compiling-latest-release/334/3 "2013-07-30T15:36:07Z")
Dave, Thanks for the advice. I hadn’t noticed that I’d forgotten the openbabel dev files. Once I installed libopenbabel-dev and rebuilt the cache everything was fine. Kyle B On 07/30/2013 10:15 AM, David Lonie wrote: > Hi Kyle, > > You shouldn’t need to modify the cache directly, especially not the > internal cache variables. > > See [http://avogadro.openmolecules.net/wiki/Compiling\_on\_Linux\_and\_Mac\_OS\_X](http://avogadro.openmolecules.net/wiki/Compiling_on_Linux_and_Mac_OS_X) > (It’s a bit confusing, there are two sections on building Avogadro on > that page for some reason). You want to set OPENBABEL2\_INCLUDE\_DIR to > something like $HOME/src/openbabel-2.2/include and > OPENBABEL2\_LIBRARIES to something like > $HOME/src/openbabel-2.2/src/.libs/libopenbabel.so, depending on where > OB is installed. > > Rather than editing the cache-file directly, try using cmake-gui > (requires Qt) or ccmake (terminal based, requires ncurses), depending > on if you’re at a terminal or not. Otherwise, you can just run: > > cmake . -D= > > in the build directory to adjust the settings. > > Hope this helps, > > Dave > > On Tue, Jul 30, 2013 at 11:01 AM, Kyle Bentley[kwbent@uab.edu](mailto:kwbent@uab.edu) wrote: > > > I’m trying to compile the latest release, and everything has gone > > semi-smoothly up till now. I only had to manually enter a few of the paths, > > the libgl file path (using AMD’s catalyst libgl) and the qmake-qt4 path into > > the CMakeCache. I’m at a point where I’m not sure what to enter into the > > CMakeCache internal entries. cmake is complaining about not being able to > > find the openbabel libs. I’m certain they are installed, and I can see them > > in /usr/lib/openbabel/2.3.1 (I’m running debian testing if that helps). The > > suspect section is here: > > > > OPENBABEL2\_CFLAGS:INTERNAL= > > OPENBABEL2\_CFLAGS\_I:INTERNAL= > > OPENBABEL2\_CFLAGS\_OTHER:INTERNAL= > > OPENBABEL2\_FOUND:INTERNAL= > > OPENBABEL2\_INCLUDEDIR:INTERNAL= > > OPENBABEL2\_LIBDIR:INTERNAL= > > OPENBABEL2\_LIBS:INTERNAL= > > OPENBABEL2\_LIBS\_L:INTERNAL= > > OPENBABEL2\_LIBS\_OTHER:INTERNAL= > > OPENBABEL2\_LIBS\_PATHS:INTERNAL= > > OPENBABEL2\_PREFIX:INTERNAL= > > OPENBABEL2\_STATIC\_CFLAGS:INTERNAL= > > OPENBABEL2\_STATIC\_CFLAGS\_I:INTERNAL= > > OPENBABEL2\_STATIC\_CFLAGS\_OTHER:INTERNAL= > > OPENBABEL2\_STATIC\_LIBDIR:INTERNAL= > > OPENBABEL2\_STATIC\_LIBS:INTERNAL= > > OPENBABEL2\_STATIC\_LIBS\_L:INTERNAL= > > OPENBABEL2\_STATIC\_LIBS\_OTHER:INTERNAL= > > OPENBABEL2\_STATIC\_LIBS\_PATHS:INTERNAL= > > OPENBABEL2\_VERSION:INTERNAL= > > OPENBABEL2\_openbabel-2.0\_INCLUDEDIR:INTERNAL= > > OPENBABEL2\_openbabel-2.0\_LIBDIR:INTERNAL= > > OPENBABEL2\_openbabel-2.0\_PREFIX:INTERNAL= > > OPENBABEL2\_openbabel-2.0\_VERSION:INTERNAL= > > > > I’m sure that I need to point one of these to /usr/lib/ or > > /usr/lib/openbabel, but I don’t want to botch the whole setup. I’ve > > attached my current cache file too, incase it’s needed. > > > > Thanks, > > > > Kyle Bentley > > > > * * * > > > > Get your SQL database under version control now! > > Version control is standard for application code, but databases havent > > caught up. So what steps can you take to put your SQL databases under > > version control? Why should you start doing it? Read more to find out. > > [http://pubads.g.doubleclick.net/gampad/clk?id=49501711&iu=/4140/ostg.clktrk](http://pubads.g.doubleclick.net/gampad/clk?id=49501711&iu=/4140/ostg.clktrk) > > > > * * * > > > > Avogadro-Discuss mailing list > > [Avogadro-Discuss@lists.sourceforge.net](mailto:Avogadro-Discuss@lists.sourceforge.net) > > [avogadro-discuss List Signup and Options](https://lists.sourceforge.net/lists/listinfo/avogadro-discuss) > > * * * > > Get your SQL database under version control now! > Version control is standard for application code, but databases havent > caught up. So what steps can you take to put your SQL databases under > version control? Why should you start doing it? Read more to find out. > [http://pubads.g.doubleclick.net/gampad/clk?id=49501711&iu=/4140/ostg.clktrk](http://pubads.g.doubleclick.net/gampad/clk?id=49501711&iu=/4140/ostg.clktrk) > > * * * > > Avogadro-Discuss mailing list > [Avogadro-Discuss@lists.sourceforge.net](mailto:Avogadro-Discuss@lists.sourceforge.net) > [avogadro-discuss List Signup and Options](https://lists.sourceforge.net/lists/listinfo/avogadro-discuss)