On Sat, 19 Jul 2014, Francis Poulin wrote: > Hello Barry, > > I was one of the two people that had difficulties with getting the correct > results with John's code. Previously, I didn't have valgrind installed so I > installed it using apt-get. Then I configured it using the following: > > ./configure --with-scalar-type=complex --with-cc=gcc -—with-cxx=c++ > --with-fc=gfortran --with-c2html=0 --download-mpich --download-scalapack > --download-hypre > > This is on ubuntu and is different from what I tried before in that now I am > downloading mpich, scalapack and hypre. I decided to download scalapack > since that seems like it could be useful. I was told that HYPRE doesn't work > with complex variables. Too bad, but not a big deal.
PETSc does not use scalapack. Its useful only if you are using mumps.. --download-metis --download-parmetis --download-scalapack --download-mumps > > It completes the configure, make all and make test and even gives me the > figures of the parallel efficiency (or not quite efficiency maybe). I didn't > catch any errors, but there are possible errors in the log. When I went to > try making an example I found that I can't use petscmpiexec to run anything > in serial or parallel. > > fpoulin@vortex:~/software/petsc/src/ts/examples/tutorials$ > /home/fpoulin/software/petsc/bin/petscmpiexec -n 1 ./ex1 > -bash: /home/fpoulin/software/petsc/bin/petscmpiexec: /bin/csh: bad > interpreter: No such file or directory Perhaps you do not have csh installed on this machine. You can use mpiexec directly ./ex1 /home/fpoulin/software/petsc/arch-linux2-c-debug/bin/mpiexec -n 1 ./ex1 /home/fpoulin/software/petsc/arch-linux2-c-debug/bin/mpiexec -n 2 ./ex1 Satish > > I am sorry to bother you with this. I am also having issues with my > installation on my mac but I thought if i can figure this one out then maybe > I will have a better idea what's wrong with the other. > > Thank, > Francis > > > ------------------ > Francis Poulin > Associate Professor > Associate Chair, Undergraduate Studies > Department of Applied Mathematics > University of Waterloo > > email: fpou...@uwaterloo.ca > Web: https://uwaterloo.ca/poulin-research-group/ > Telephone: +1 519 888 4567 x32637 > > > ________________________________________ > From: Barry Smith [bsm...@mcs.anl.gov] > Sent: Friday, July 18, 2014 9:57 PM > To: John Yawney > Cc: petsc-users@mcs.anl.gov; Francis Poulin; Kim Usi > Subject: Re: [petsc-users] Question about PETSc installs and MPI > > I ran the program on linux with 1,2, 4 processes under valgrind for both > types of boundary conditions and it ran fine. > > Suggest your colleagues do a test configure of PETSc using —download-mpich > and see if they still get the problem or if it runs ok. > > The can also run with valgrind and see what it reports. > http://www.mcs.anl.gov/petsc/documentation/faq.html#valgrind > > Barry > > On Jul 18, 2014, at 8:16 PM, John Yawney <jyawney...@gmail.com> wrote: > > > Hello, > > > > I had a question about PETSc installations. On my local computer I > > configured PETSc (v 3.4.2) using the options: > > > > ./configure --with-cc=mpicc --with-cxx=mpic++ --download-f-blas-lapack > > --download-mpich --download-hypre > > > > I wrote a test program that defines a vector using DMDAs, computes a dot > > product, exchanges halo elements, and computes a low-order FD derivative of > > the vector. Under my installation of PETSc everything works fine. For some > > reason, when my colleagues run the program, they get segmentation fault > > errors. If they change the y and z boundary types to GHOSTED as well, they > > get the program to run until the end (seg faults at the end though) but > > they get a local value of the dot product. I've attached the main.cpp file > > for this script. > > > > When they installed their versions of PETSc they didn't use the > > --download-mpich option but instead used either: > > ./configure --download-f-blas-lapack --with-scalar-type=complex > > or with the option: --with-mpi-dir=/home/kim/anaconda/pkgs/mpich2-1.3-py27_0 > > > > Could this be causing a problem with the parallelization under PETSc? > > > > Thanks for the help and sorry for the long question. > > > > Best regards, > > John > > <main.cpp> > >
