Re: [AMBER-Developers] gcc: pytraj/_shared_methods.cpp: No such file or directory

From: Daniel Roe <>
Date: Thu, 26 Mar 2015 12:13:26 -0600


I see the same problem/behavior with intel compilers:

building 'pytraj._shared_methods' extension
gcc -pthread -fno-strict-aliasing -O2 -g -pipe -Wall
-Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector
--param=ssp-buffer-size=4 -m64 -mtune=generic -D_GNU_SOURCE -fPIC
-fwrapv -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2
-fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64
-mtune=generic -D_GNU_SOURCE -fPIC -fwrapv -fPIC
-I/usr/include/python2.6 -c
-o build/temp.linux-x86_64-2.6/uufs/
-O0 -ggdb
gcc: /uufs/
No such file or directory
gcc: no input files

Again, gcc being used instead of icc (also seems awkward that it's
even calling gcc for a .cpp file). Haven't been able to pin down
what's happening yet.


On Tue, Mar 24, 2015 at 11:20 AM, Scott Brozell
<> wrote:
> Hi,
> I'm in the middle of other things, so i just report this build failure:
> up to date git master, fresh ./configure -debug pgi, but no distclean
> ...
> make pytraj
> ...
> building 'pytraj._shared_methods' extension
> gcc -pthread -fno-strict-aliasing -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -D_GNU_SOURCE -fPIC -fwrapv -DNDEBUG -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -D_GNU_SOURCE -fPIC -fwrapv -fPIC -I/nfs/10/amber/AmberTools/src/cpptraj//src/ -I/nfs/10/amber/AmberTools/src/pytraj/pytraj/ -I/usr/include/python2.6 -c /nfs/10/amber/AmberTools/src/pytraj/pytraj/_shared_methods.cpp -o build/temp.linux-x86_64-2.6/nfs/10/amber/AmberTools/src/pytraj/pytraj/_shared_methods.o -O0 -ggdb
> gcc: /nfs/10/amber/AmberTools/src/pytraj/pytraj/_shared_methods.cpp: No such file or directory
> gcc: no input files
> error: command 'gcc' failed with exit status 1
> make[2]: *** [pytraj] Error 1
> _______________________________________________
> AMBER-Developers mailing list

Daniel R. Roe, PhD
Department of Medicinal Chemistry
University of Utah
30 South 2000 East, Room 307
Salt Lake City, UT 84112-5820
(801) 587-9652
(801) 585-6208 (Fax)
AMBER-Developers mailing list
Received on Thu Mar 26 2015 - 11:30:03 PDT
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