[firedrake] error installing PyOP2

[Justin Chang]

Hi everyone,

I am trying to installing firedrake on my Ubuntu machine. Following the
instructions for PyOP2, I get this error when I run "make test"

cd test; py.test unit --backend=sequential
Segmentation fault (core dumped)
make: *** [unit_sequential] Error 139

I have installed everything via sudo pip install ... with the exception of
petsc4py which was installed via pip install --user -U --no-deps ...

python -c 'from pprint import pprint; import sys; pprint(sys.path)'
gives the following:

['',
 '/usr/lib/python2.7/dist-packages',
 '/home/justin/.local/lib/python2.7/site-packages',
 '/home/justin/Software/firedrake-deps/PyOP2',
 '/home/justin/Software/firedrake-deps/firedrake',
 '/home/justin/.local/lib/python2.7/dist-packages',
 '/usr/lib/python2.7',
 '/usr/lib/python2.7/plat-x86_64-linux-gnu',
 '/usr/lib/python2.7/lib-tk',
 '/usr/lib/python2.7/lib-old',
 '/usr/lib/python2.7/lib-dynload',
 '/usr/local/lib/python2.7/dist-packages',
 '/usr/lib/python2.7/dist-packages/PILcompat',
 '/usr/lib/python2.7/dist-packages/gtk-2.0',
 '/usr/lib/pymodules/python2.7',
 '/usr/lib/python2.7/dist-packages/ubuntu-sso-client']

and py.test test/unit -vsx --tb=short --backend=sequential gives the following:

[pacotaco-xps:29386] *** Process received signal ***
[pacotaco-xps:29386] Signal: Segmentation fault (11)
[pacotaco-xps:29386] Signal code: Address not mapped (1)
[pacotaco-xps:29386] Failing at address: 0x44000098
[pacotaco-xps:29386] [ 0]
/lib/x86_64-linux-gnu/libpthread.so.0(+0x10340) [0x7f7eafdd8340]
[pacotaco-xps:29386] [ 1]
/usr/lib/libmpi.so.1(MPI_Comm_set_errhandler+0x4d) [0x7f7ead7fca1d]
[pacotaco-xps:29386] [ 2]
/home/justin/Software/petsc-dev/arch-linux2-c-opt/lib/libpetsc.so.3.06(PetscInitialize+0x2a7)
[0x7f7e9063f6b6]
[pacotaco-xps:29386] [ 3]
/home/justin/.local/lib/python2.7/site-packages/petsc4py/lib/arch-linux2-c-opt/PETSc.so(+0x11d3e8)
[0x7f7e8e33c3e8]
[pacotaco-xps:29386] [ 4] /usr/bin/python(PyEval_EvalFrameEx+0x40d) [0x49968d]
[pacotaco-xps:29386] [ 5] /usr/bin/python(PyEval_EvalCodeEx+0x2ac) [0x4a090c]
[pacotaco-xps:29386] [ 6] /usr/bin/python(PyEval_EvalCode+0x32) [0x588d42]
[pacotaco-xps:29386] [ 7]
/usr/bin/python(PyImport_ExecCodeModuleEx+0xaa) [0x588dfa]
[pacotaco-xps:29386] [ 8] /usr/bin/python() [0x5b1f0f]
[pacotaco-xps:29386] [ 9] /usr/bin/python() [0x540948]
[pacotaco-xps:29386] [10] /usr/bin/python() [0x540d08]
[pacotaco-xps:29386] [11] /usr/bin/python() [0x541510]
[pacotaco-xps:29386] [12] /usr/bin/python() [0x51dd20]
[pacotaco-xps:29386] [13] /usr/bin/python(PyObject_Call+0x36) [0x505f96]
[pacotaco-xps:29386] [14] /usr/bin/python() [0x536095]
[pacotaco-xps:29386] [15] /usr/bin/python(PyObject_CallFunction+0xa5) [0x4ca095]
[pacotaco-xps:29386] [16] /usr/bin/python(PyImport_Import+0xdd) [0x525e8d]
[pacotaco-xps:29386] [17]
/home/justin/Software/firedrake-deps/PyOP2/pyop2/sparsity.so(+0x770a)
[0x7f7e915de70a]
[pacotaco-xps:29386] [18]
/home/justin/Software/firedrake-deps/PyOP2/pyop2/sparsity.so(initsparsity+0x1244)
[0x7f7e915f91a4]
[pacotaco-xps:29386] [19]
/usr/bin/python(_PyImport_LoadDynamicModule+0x9b) [0x42266c]
[pacotaco-xps:29386] [20] /usr/bin/python() [0x540948]
[pacotaco-xps:29386] [21] /usr/bin/python() [0x540d08]
[pacotaco-xps:29386] [22] /usr/bin/python() [0x54111b]
[pacotaco-xps:29386] [23] /usr/bin/python() [0x51dd20]
[pacotaco-xps:29386] [24]
/usr/bin/python(PyEval_CallObjectWithKeywords+0x6b) [0x4dc9cb]
[pacotaco-xps:29386] [25] /usr/bin/python(PyEval_EvalFrameEx+0x25fe) [0x49b87e]
[pacotaco-xps:29386] [26] /usr/bin/python(PyEval_EvalCodeEx+0x2ac) [0x4a090c]
[pacotaco-xps:29386] [27] /usr/bin/python(PyEval_EvalCode+0x32) [0x588d42]
[pacotaco-xps:29386] [28]
/usr/bin/python(PyImport_ExecCodeModuleEx+0xaa) [0x588dfa]
[pacotaco-xps:29386] [29] /usr/bin/python() [0x5b1f0f]
[pacotaco-xps:29386] *** End of error message ***
Segmentation fault (core dumped)

Any idea what's going on?

Thanks,
Justin

PS - this is a slightly separate issue from the petsc4py issue I posted in
petsc-users (though it might be related?) But I figured I should try
to resolve this one first.
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