On Tue, Feb 13, 2018 at 8:11 AM, Elisa Pieri <elisa.pieri90.gmail.com>
wrote:
> Hi and thanks Hai,
>
> now I'm getting get this error:
>
> creating build/lib.linux-x86_64-2.7/pytraj/utils/css
> copying pytraj/utils/css/oceans16.css ->
> build/lib.linux-x86_64-2.7/pytraj/utils/css
> running build_ext
> building 'pytraj.cpp_options' extension
> creating build/temp.linux-x86_64-2.7
> creating build/temp.linux-x86_64-2.7/pytraj
> gcc -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall
> -Wstrict-prototypes -fPIC -I/home/elisa/amber16/AmberTools/src/cpptraj/src
> -I/home/elisa/amber16/AmberTools/src/pytraj/pytraj
> -I/home/elisa/amber16/miniconda/include/python2.7 -c
> pytraj/cpp_options.cpp
> -o build/temp.linux-x86_64-2.7/pytraj/cpp_options.o -O0 -ggdb
> -Wl,-rpath=/home/elisa/amber16/lib
> cc1plus: warning: command line option ‘-Wstrict-prototypes’ is valid for
> C/ObjC but not for C++
> pytraj/cpp_options.cpp: In function ‘PyObject*
> __pyx_pf_6pytraj_11cpp_options_2set_error_silent(PyObject*, PyObject*)’:
> pytraj/cpp_options.cpp:803:28: error: ‘SupressErrorMsg’ was not declared in
> this scope
> SupressErrorMsg(__pyx_t_1);
>
Hi, this means that you have an old libcpptraj.so somewhere. Can you find
it (e.g: locate libcpptraj.so) and delete it, then "make install" again?
Hai
> ^
> error: command 'gcc' failed with exit status 1
> Makefile:508: recipe for target 'pytraj' failed
> make[2]: *** [pytraj] Error 1
> make[2]: Leaving directory '/home/elisa/amber16/AmberTools/src'
> Makefile:17: recipe for target 'serial' failed
> make[1]: *** [serial] Error 2
> make[1]: Leaving directory '/home/elisa/amber16/AmberTools/src'
> Makefile:7: recipe for target 'install' failed
> make: *** [install] Error 2
>
> Is there a problem with my gcc compiler? Its version is "gcc (Ubuntu
> 5.4.0-6ubuntu1~16.04.6) 5.4.0 20160609"
>
> Elisa
>
> On Tue, Feb 13, 2018 at 1:30 PM, Hai Nguyen <nhai.qn.gmail.com> wrote:
>
> > Hi, can you try remove that bin/FEW.pl and “make install” again?
> >
> > Hai
> >
> > On Tue, Feb 13, 2018 at 4:46 AM Elisa Pieri <elisa.pieri90.gmail.com>
> > wrote:
> >
> > > Hello,
> > >
> > > apparently I'm not lucky with this reinstallation..everything in the
> > > "./configure gnu" was fine, but then I get this from the "make
> install":
> > >
> > > make[4]: Entering directory
> > >
> > > '/home/elisa/amber16/AmberTools/src/FEW/additional_
> > libs/PerlMol-0.3500/Parse-Yapp-1.05'
> > > Manifying 1 pod document
> > > Manifying 1 pod document
> > > make[4]: Leaving directory
> > >
> > > '/home/elisa/amber16/AmberTools/src/FEW/additional_
> > libs/PerlMol-0.3500/Parse-Yapp-1.05'
> > > Manifying 1 pod document
> > > Appending installation info to
> > >
> > > /home/elisa/amber16/lib/perl//lib/x86_64-linux-gnu/perl/5.
> > 22.1/perllocal.pod
> > > make[3]: Leaving directory
> > > '/home/elisa/amber16/AmberTools/src/FEW/additional_
> libs/PerlMol-0.3500'
> > > cp -f /home/elisa/amber16/AmberTools/src/FEW/FEW.pl
> > /home/elisa/amber16/bin
> > > cp: '/home/elisa/amber16/AmberTools/src/FEW/FEW.pl' and
> > > '/home/elisa/amber16/bin/FEW.pl' are the same file
> > > Makefile:5: recipe for target 'install' failed
> > > make[2]: *** [install] Error 1
> > > make[2]: Leaving directory '/home/elisa/amber16/AmberTools/src/FEW'
> > > Makefile:17: recipe for target 'serial' failed
> > > make[1]: *** [serial] Error 2
> > > make[1]: Leaving directory '/home/elisa/amber16/AmberTools/src'
> > > Makefile:7: recipe for target 'install' failed
> > > make: *** [install] Error 2
> > >
> > > Can you help me?
> > > Elisa
> > > _______________________________________________
> > > AMBER mailing list
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> > > http://lists.ambermd.org/mailman/listinfo/amber
> > >
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> >
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Received on Tue Feb 13 2018 - 05:30:02 PST
