may be try
export YACC=/usr/bin/yacc
to force amber to use your system yacc?
Hai
On Wed, Jan 18, 2017 at 1:19 PM, Ada Sedova <ada.a.sedova.gmail.com> wrote:
> Hi, I have not received any responses about this problem since my last
> reply. There is also another reply from me in a previous thread which
> provided the requested logfiles and other info.
>
> I am still trying (unsuccessfully) to solve this problem. I think I can be
> pretty confident that the mpi make is rebuilding the byacc binary, however,
> and that is what is causing errors.
>
>
> Thanks,
>
> Ada
>
>
> ---------- Forwarded message ----------
> From: Ada Sedova <ada.a.sedova.gmail.com>
> Date: Tue, Jan 17, 2017 at 2:42 PM
> Subject: some clues about yacc errors on OLCF rhea
> To: david.case.rutgers.edu
>
>
> Hi David,
>
> I'm guessing you guys are building yacc as part of the amber build. When I
> run
>
> /ccs/home/adaa/AMBER/amber14/bin/yacc -v -d cifparse.y
>
> from the serial-build folder,
>
> I get no error.
>
>
> However, when I run the same command from the parallel build folder,
>
> I get the same error that crashes the make install:
>
>
> bash-4.1$ /ccs/home/adaa/AMBER/AMBER_PARALLEL/amber14/bin/yacc -v -d
> cifparse.y
>
> yacc:39196 terminated with signal 11 at PC=40abac SP=7ffed5cb7530.
> Backtrace:
>
> /ccs/home/adaa/AMBER/AMBER_PARALLEL/amber14/bin/yacc[0x40abac]
>
> /ccs/home/adaa/AMBER/AMBER_PARALLEL/amber14/bin/yacc[0x40ce6b]
>
> /ccs/home/adaa/AMBER/AMBER_PARALLEL/amber14/bin/yacc[0x404dfd]
>
> /lib64/libc.so.6(__libc_start_main+0xfd)[0x7fcb1871ed1d]
>
> /ccs/home/adaa/AMBER/AMBER_PARALLEL/amber14/bin/yacc[0x400ea9]
>
>
> Also. when I try it using the system yacc in the parallel folder, I get no
> error:
>
> -bash-4.1$ which yacc
>
> /usr/bin/yacc
>
> -bash-4.1$ /usr/bin/yacc -v -d cifparse.y
>
> (no error)
>
>
> I'm guessing that building byacc with mpicc is incompatible with our
> system, and I should try to get the cifparse workflow to use the system
> yacc, if that would work.
>
>
> What do you think?
>
>
> Ada
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>
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Received on Wed Jan 18 2017 - 11:00:02 PST
