Package: python3-instant
Version: 2016.2.0-2
Severity: normal
Testing the new python3 dolfin. It works fine on my own scripts. But
seems to fail when instant is invoked by interpolate.
$ instant-clean-3
$ ipython3
Python 3.5.3 (default, Jan 19 2017, 14:11:04)
In [1]: from fenics import * # dolfin module behaves the same
In [2]: mesh = UnitSquareMesh(2, 2)
In [3]: V = FunctionSpace(mesh, 'P', 1)
In [4]: u = interpolate(Expression('x[0] + x[1]', degree=1), V)
...
AssertionError: Failed to import module found in cache. Modulename:
'dolfin_ee8f3791ac0426bc9e123d64557ccde25f2d90f2';
Path:
'/home/user/.cache/instant/python3.5/cache/dolfin_ee8f3791ac0426bc9e123d64557ccde25f2d90f2';
ImportError:/home/user/.cache/instant/python3.5/cache/dolfin_ee8f3791ac0426bc9e123d64557ccde25f2d90f2/_dolfin_ee8f3791ac0426bc9e123d64557ccde25f2d90f2.so:
undefined symbol: PyClass_Type;
The full error report is:
In [4]: u = interpolate(Expression('x[0] + x[1]', degree=1), V)
Calling DOLFIN just-in-time (JIT) compiler, this may take some time.
--- Instant: compiling ---
In instant.import_module_directly: Failed to import module
'dolfin_ee8f3791ac0426bc9e123d64557ccde25f2d90f2' from
'/home/user/.cache/instant/python3.5/cache/dolfin_ee8f3791ac0426bc9e123d64557ccde25f2d90f2';
ImportError:/home/user/.cache/instant/python3.5/cache/dolfin_ee8f3791ac0426bc9e123d64557ccde25f2d90f2/_dolfin_ee8f3791ac0426bc9e123d64557ccde25f2d90f2.so:
undefined symbol: PyClass_Type;
Failed to import module found in cache. Modulename:
'dolfin_ee8f3791ac0426bc9e123d64557ccde25f2d90f2';
Path:
'/home/user/.cache/instant/python3.5/cache/dolfin_ee8f3791ac0426bc9e123d64557ccde25f2d90f2';
ImportError:/home/user/.cache/instant/python3.5/cache/dolfin_ee8f3791ac0426bc9e123d64557ccde25f2d90f2/_dolfin_ee8f3791ac0426bc9e123d64557ccde25f2d90f2.so:
undefined symbol: PyClass_Type;
---------------------------------------------------------------------------
AssertionError Traceback (most recent call last)
<ipython-input-4-e06382777336> in <module>()
----> 1 u = interpolate(Expression('x[0] + x[1]', degree=1), V)
/usr/lib/python3/dist-packages/dolfin/functions/expression.py in __new__(cls,
cppcode, *args, **kwargs)
652 cpp_base, members = compile_expressions([cppcode],
653
[generic_function_members],
--> 654
mpi_comm=kwargs.get("mpi_comm"))
655 cpp_base, members = cpp_base[0], members[0]
656
/usr/lib/python3/dist-packages/dolfin/compilemodules/expressions.py in
compile_expressions(cppargs, generic_function_members, mpi_comm)
212 "\n\n".join(code_snippets), classnames,
213 additional_declarations="\n".join(additional_declarations),
--> 214 mpi_comm=mpi_comm)
215
216 return expression_classes, all_members
/usr/lib/python3/dist-packages/dolfin/compilemodules/expressions.py in
compile_expression_code(code, classnames, module_name, additional_declarations,
mpi_comm)
139 compiled_module = compile_extension_module(
140 code, additional_declarations=additional_declarations,
--> 141 mpi_comm=mpi_comm)
142
143 # Get the compiled class
/usr/lib/python3/dist-packages/dolfin/compilemodules/jit.py in mpi_jit(*args,
**kwargs)
66 # Just call JIT compiler when running in serial
67 if MPI.size(mpi_comm) == 1:
---> 68 return local_jit(*args, **kwargs)
69
70 # Compile first on process 0
/usr/lib/python3/dist-packages/dolfin/compilemodules/compilemodule.py in
compile_extension_module(code, module_name, additional_declarations,
additional_system_headers, mpi_comm, **instant_kwargs)
470 code=code,
471 additional_declarations=additional_declarations,
--> 472 **instant_kwargs)
473
474 sys.stdout.flush()
/usr/lib/python3/dist-packages/instant/build.py in build_module(modulename,
source_directory, code, init_code, additional_definitions,
additional_declarations, sources, wrap_headers, local_headers, system_headers,
include_dirs, library_dirs, libraries, swigargs, swig_include_dirs, cppargs,
lddargs, object_files, arrays, generate_interface, generate_setup,
cmake_packages, signature, cache_dir)
585
586 # Import module and place in memory cache
--> 587 module = import_and_cache_module(module_path, modulename,
moduleids)
588
589 if not module:
/usr/lib/python3/dist-packages/instant/cache.py in
import_and_cache_module(path, modulename, moduleids)
90 module, e = import_module_directly(path, modulename)
91 instant_assert(module is not None, "Failed to import module found
in cache. Modulename: '%s';\nPath: '%s';\n%s:%s;" % (modulename, path,
type(e).__name__,
---> 92
e))
93 for moduleid in moduleids:
94 place_module_in_memory_cache(moduleid, module)
/usr/lib/python3/dist-packages/instant/output.py in instant_assert(condition,
*message)
101 _log.error(*message)
102 text = message[0] % message[1:]
--> 103 raise AssertionError(text)
104
105
AssertionError: Failed to import module found in cache. Modulename:
'dolfin_ee8f3791ac0426bc9e123d64557ccde25f2d90f2';
Path:
'/home/user/.cache/instant/python3.5/cache/dolfin_ee8f3791ac0426bc9e123d64557ccde25f2d90f2';
ImportError:/home/user/.cache/instant/python3.5/cache/dolfin_ee8f3791ac0426bc9e123d64557ccde25f2d90f2/_dolfin_ee8f3791ac0426bc9e123d64557ccde25f2d90f2.so:
undefined symbol: PyClass_Type;
-- System Information:
Debian Release: 9.0
APT prefers unstable
APT policy: (500, 'unstable'), (1, 'experimental')
Architecture: amd64
(x86_64)
Foreign Architectures: i386
Kernel: Linux 4.9.0-3-amd64 (SMP w/4 CPU cores)
Locale: LANG=en_AU.UTF-8, LC_CTYPE=en_AU.UTF-8 (charmap=UTF-8)
Shell: /bin/sh linked to /bin/dash
Init: systemd (via /run/systemd/system)
Versions of packages python3-instant depends on:
ii build-essential 12.3
ii cmake 3.7.2-1
ii pkg-config 0.29-4+b1
ii python3-dev 3.5.3-1
ii python3-numpy 1:1.12.1-3
ii python3-six 1.10.0-4
pn python3:any <none>
ii swig 3.0.10-1.1
python3-instant recommends no packages.
python3-instant suggests no packages.
-- no debconf information
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