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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Received on Wed Jan 18 2017 - 10:30:03 PST
