ah, I found this command useful too
cd $HOME
find . -type f -name libcpptraj.so
Hai
On Tue, Feb 13, 2018 at 8:22 AM, Hai Nguyen <nhai.qn.gmail.com> wrote:
>
>
> 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/AmberToo
>> ls/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
>> > > AMBER.ambermd.org
>> > > http://lists.ambermd.org/mailman/listinfo/amber
>> > >
>> > _______________________________________________
>> > AMBER mailing list
>> > AMBER.ambermd.org
>> > http://lists.ambermd.org/mailman/listinfo/amber
>> >
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>
>
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Received on Tue Feb 13 2018 - 05:30:03 PST
