Failed in nopython mode pipeline in Windows Jupyter Notebook

[MatthewBelzer]

I am using Jupyter Notebook on Windows 10 and when I try to run this code

import pde

grid = pde.UnitGrid([64, 64])                 # generate grid
state = pde.ScalarField.random_uniform(grid)  # generate initial condition

eq = pde.DiffusionPDE(diffusivity=0.1)        # define the pde
result = eq.solve(state, t_range=10)          # solve the pde
result.plot()                                 # plot the resulting field

it gives me the following error message. If you can help me I would really appreciate it.

TypingError Traceback (most recent call last)
in
5
6 eq = pde.DiffusionPDE(diffusivity=0.1) # define the pde
----> 7 result = eq.solve(state, t_range=10) # solve the pde
8 result.plot() # plot the resulting field

~\Anaconda3\lib\site-packages\pde\pdes\base.py in solve(self, state, t_range, dt, tracker, method, ret_info, **kwargs)
312
313 # run the simulation
--> 314 final_state = controller.run(state, dt)
315
316 if ret_info:

~\Anaconda3\lib\site-packages\pde\solvers\controller.py in run(self, state, dt)
142
143 # initialize the stepper
--> 144 stepper = self.solver.make_stepper(state=state, dt=dt)
145
146 # initialize profiling information

~\Anaconda3\lib\site-packages\pde\solvers\scipy.py in make_stepper(self, state, dt)
67 # obtain function for evaluating the right hand side
68 rhs = self._make_pde_rhs(state, backend=self.backend,
---> 69 allow_stochastic=False)
70
71 def rhs_helper(t, state_flat):

~\Anaconda3\lib\site-packages\pde\solvers\base.py in _make_pde_rhs(self, state, backend, allow_stochastic)
123 rhs = self.pde.make_sde_rhs(state, backend=backend)
124 else:
--> 125 rhs = self.pde.make_pde_rhs(state, backend=backend)
126
127 if hasattr(rhs, '_backend'):

~\Anaconda3\lib\site-packages\pde\pdes\base.py in make_pde_rhs(self, state, backend)
86 if backend == 'auto':
87 try:
---> 88 rhs = self._make_pde_rhs_numba(state)
89 except NotImplementedError:
90 backend = 'numpy'

~\Anaconda3\lib\site-packages\pde\pdes\diffusion.py in _make_pde_rhs_numba(self, state)
93
94 @jit(signature)
---> 95 def pde_rhs(state_data: np.ndarray, t: float):
96 """ compiled helper function evaluating right hand side """
97 return diffusivity_value * laplace(state_data)

~\Anaconda3\lib\site-packages\pde\tools\misc.py in (realf)
162 else:
163 # decorator arguments
--> 164 return lambda realf: decorator(realf, *args, **kwargs)
165
166 return new_decorator

~\Anaconda3\lib\site-packages\pde\tools\numba.py in jit(function, signature, parallel, **kwargs)
156 logging.getLogger(name).info('Compile %s with parallel=%s',
157 name, jit_kwargs['parallel'])
--> 158 return nb.jit(signature, **jit_kwargs)(function) # type: ignore
159
160

~\Anaconda3\lib\site-packages\numba\decorators.py in wrapper(func)
184 with typeinfer.register_dispatcher(disp):
185 for sig in sigs:
--> 186 disp.compile(sig)
187 disp.disable_compile()
188 return disp

~\Anaconda3\lib\site-packages\numba\compiler_lock.py in _acquire_compile_lock(*args, **kwargs)
30 def _acquire_compile_lock(*args, **kwargs):
31 with self:
---> 32 return func(*args, **kwargs)
33 return _acquire_compile_lock
34

~\Anaconda3\lib\site-packages\numba\dispatcher.py in compile(self, sig)
691
692 self._cache_misses[sig] += 1
--> 693 cres = self._compiler.compile(args, return_type)
694 self.add_overload(cres)
695 self._cache.save_overload(sig, cres)

~\Anaconda3\lib\site-packages\numba\dispatcher.py in compile(self, args, return_type)
78 return retval
79 else:
---> 80 raise retval
81
82 def _compile_cached(self, args, return_type):

~\Anaconda3\lib\site-packages\numba\dispatcher.py in _compile_cached(self, args, return_type)
88
89 try:
---> 90 retval = self._compile_core(args, return_type)
91 except errors.TypingError as e:
92 self._failed_cache[key] = e

~\Anaconda3\lib\site-packages\numba\dispatcher.py in _compile_core(self, args, return_type)
106 args=args, return_type=return_type,
107 flags=flags, locals=self.locals,
--> 108 pipeline_class=self.pipeline_class)
109 # Check typing error if object mode is used
110 if cres.typing_error is not None and not flags.enable_pyobject:

~\Anaconda3\lib\site-packages\numba\compiler.py in compile_extra(typingctx, targetctx, func, args, return_type, flags, locals, library, pipeline_class)
970 pipeline = pipeline_class(typingctx, targetctx, library,
971 args, return_type, flags, locals)
--> 972 return pipeline.compile_extra(func)
973
974

~\Anaconda3\lib\site-packages\numba\compiler.py in compile_extra(self, func)
388 self.lifted = ()
389 self.lifted_from = None
--> 390 return self._compile_bytecode()
391
392 def compile_ir(self, func_ir, lifted=(), lifted_from=None):

~\Anaconda3\lib\site-packages\numba\compiler.py in _compile_bytecode(self)
901 """
902 assert self.func_ir is None
--> 903 return self._compile_core()
904
905 def _compile_ir(self):

~\Anaconda3\lib\site-packages\numba\compiler.py in _compile_core(self)
888 self.define_pipelines(pm)
889 pm.finalize()
--> 890 res = pm.run(self.status)
891 if res is not None:
892 # Early pipeline completion

~\Anaconda3\lib\site-packages\numba\compiler_lock.py in _acquire_compile_lock(*args, **kwargs)
30 def _acquire_compile_lock(*args, **kwargs):
31 with self:
---> 32 return func(*args, **kwargs)
33 return _acquire_compile_lock
34

~\Anaconda3\lib\site-packages\numba\compiler.py in run(self, status)
264 # No more fallback pipelines?
265 if is_final_pipeline:
--> 266 raise patched_exception
267 # Go to next fallback pipeline
268 else:

~\Anaconda3\lib\site-packages\numba\compiler.py in run(self, status)
255 try:
256 event("-- %s" % stage_name)
--> 257 stage()
258 except _EarlyPipelineCompletion as e:
259 return e.result

~\Anaconda3\lib\site-packages\numba\compiler.py in stage_nopython_frontend(self)
513 self.args,
514 self.return_type,
--> 515 self.locals)
516 self.typemap = typemap
517 self.return_type = return_type

~\Anaconda3\lib\site-packages\numba\compiler.py in type_inference_stage(typingctx, interp, args, return_type, locals)
1122
1123 infer.build_constraint()
-> 1124 infer.propagate()
1125 typemap, restype, calltypes = infer.unify()
1126

~\Anaconda3\lib\site-packages\numba\typeinfer.py in propagate(self, raise_errors)
925 if errors:
926 if raise_errors:
--> 927 raise errors[0]
928 else:
929 return errors

TypingError: Failed in nopython mode pipeline (step: nopython frontend)
Failed in nopython mode pipeline (step: nopython frontend)
Invalid use of Function(<function _make_laplace_numba_2d..laplace at 0x00000208DBD26708>) with argument(s) of type(s): (array(float64, 2d, C), out=array(float64, 2d, C))

• parameterized
  In definition 0:
  TypingError: Failed in nopython mode pipeline (step: nopython frontend)
  Invalid use of Function(<function BoundaryPair.make_region_evaluator..region_evaluator at 0x00000208DBD0E438>) with argument(s) of type(s): (array(float64, 2d, C), tuple(int64 x 2))
• parameterized
  In definition 0:
  TypingError: Failed in nopython mode pipeline (step: nopython frontend)
  Invalid use of Function(<function BCBase1stOrder.make_adjacent_evaluator..adjacent_point at 0x00000208DBD0E828>) with argument(s) of type(s): (array(float64, 1d, A), int64, (..., int64))
• parameterized
  In definition 0:
  KeyError: "<class 'numba.targets.cpu.CPUTargetOptions'> does not support option: 'inline'"
  raised from C:\Users\matth\Anaconda3\lib\site-packages\numba\targets\options.py:20
  In definition 1:
  KeyError: "<class 'numba.targets.cpu.CPUTargetOptions'> does not support option: 'inline'"
  raised from C:\Users\matth\Anaconda3\lib\site-packages\numba\targets\options.py:20
  This error is usually caused by passing an argument of a type that is unsupported by the named function.
  [1] During: resolving callee type: Function(<function BCBase1stOrder.make_adjacent_evaluator..adjacent_point at 0x00000208DBD0E828>)
  [2] During: typing of call at C:\Users\matth\Anaconda3\lib\site-packages\pde\grids\boundaries\axis.py (379)

File "..\Anaconda3\lib\site-packages\pde\grids\boundaries\axis.py", line 379:
def region_evaluator(arr, idx: Tuple[int, ...])

arr_1d, i_point, bc_idx = get_arr_1d(arr, idx)
return (ap_low(arr_1d, i_point, bc_idx),
^

raised from C:\Users\matth\Anaconda3\lib\site-packages\numba\typeinfer.py:927

In definition 1:
TypingError: Failed in nopython mode pipeline (step: nopython frontend)
Invalid use of Function(<function BCBase1stOrder.make_adjacent_evaluator..adjacent_point at 0x00000208DBD0E828>) with argument(s) of type(s): (array(float64, 1d, A), int64, (..., int64))

• parameterized
  In definition 0:
  KeyError: "<class 'numba.targets.cpu.CPUTargetOptions'> does not support option: 'inline'"
  raised from C:\Users\matth\Anaconda3\lib\site-packages\numba\targets\options.py:20
  In definition 1:
  KeyError: "<class 'numba.targets.cpu.CPUTargetOptions'> does not support option: 'inline'"
  raised from C:\Users\matth\Anaconda3\lib\site-packages\numba\targets\options.py:20
  This error is usually caused by passing an argument of a type that is unsupported by the named function.
  [1] During: resolving callee type: Function(<function BCBase1stOrder.make_adjacent_evaluator..adjacent_point at 0x00000208DBD0E828>)
  [2] During: typing of call at C:\Users\matth\Anaconda3\lib\site-packages\pde\grids\boundaries\axis.py (379)

File "..\Anaconda3\lib\site-packages\pde\grids\boundaries\axis.py", line 379:
def region_evaluator(arr, idx: Tuple[int, ...])

arr_1d, i_point, bc_idx = get_arr_1d(arr, idx)
return (ap_low(arr_1d, i_point, bc_idx),
^

raised from C:\Users\matth\Anaconda3\lib\site-packages\numba\typeinfer.py:927

This error is usually caused by passing an argument of a type that is unsupported by the named function.
[1] During: resolving callee type: Function(<function BoundaryPair.make_region_evaluator..region_evaluator at 0x00000208DBD0E438>)
[2] During: typing of call at C:\Users\matth\Anaconda3\lib\site-packages\pde\grids\operators\cartesian.py (351)

File "..\Anaconda3\lib\site-packages\pde\grids\operators\cartesian.py", line 351:
def laplace(arr, out=None):

j = 0
arr_x_l, arr_c, arr_x_h = region_x(arr, (i, j))
^

raised from C:\Users\matth\Anaconda3\lib\site-packages\numba\typeinfer.py:927

In definition 1:
TypingError: Failed in nopython mode pipeline (step: nopython frontend)
Invalid use of Function(<function BoundaryPair.make_region_evaluator..region_evaluator at 0x00000208DBD0E438>) with argument(s) of type(s): (array(float64, 2d, C), tuple(int64 x 2))

• parameterized
  In definition 0:
  TypingError: Failed in nopython mode pipeline (step: nopython frontend)
  Invalid use of Function(<function BCBase1stOrder.make_adjacent_evaluator..adjacent_point at 0x00000208DBD0E828>) with argument(s) of type(s): (array(float64, 1d, A), int64, (..., int64))
• parameterized
  In definition 0:
  KeyError: "<class 'numba.targets.cpu.CPUTargetOptions'> does not support option: 'inline'"
  raised from C:\Users\matth\Anaconda3\lib\site-packages\numba\targets\options.py:20
  In definition 1:
  KeyError: "<class 'numba.targets.cpu.CPUTargetOptions'> does not support option: 'inline'"
  raised from C:\Users\matth\Anaconda3\lib\site-packages\numba\targets\options.py:20
  This error is usually caused by passing an argument of a type that is unsupported by the named function.
  [1] During: resolving callee type: Function(<function BCBase1stOrder.make_adjacent_evaluator..adjacent_point at 0x00000208DBD0E828>)
  [2] During: typing of call at C:\Users\matth\Anaconda3\lib\site-packages\pde\grids\boundaries\axis.py (379)

File "..\Anaconda3\lib\site-packages\pde\grids\boundaries\axis.py", line 379:
def region_evaluator(arr, idx: Tuple[int, ...])

arr_1d, i_point, bc_idx = get_arr_1d(arr, idx)
return (ap_low(arr_1d, i_point, bc_idx),
^

raised from C:\Users\matth\Anaconda3\lib\site-packages\numba\typeinfer.py:927

In definition 1:
TypingError: Failed in nopython mode pipeline (step: nopython frontend)
Invalid use of Function(<function BCBase1stOrder.make_adjacent_evaluator..adjacent_point at 0x00000208DBD0E828>) with argument(s) of type(s): (array(float64, 1d, A), int64, (..., int64))

• parameterized
  In definition 0:
  KeyError: "<class 'numba.targets.cpu.CPUTargetOptions'> does not support option: 'inline'"
  raised from C:\Users\matth\Anaconda3\lib\site-packages\numba\targets\options.py:20
  In definition 1:
  KeyError: "<class 'numba.targets.cpu.CPUTargetOptions'> does not support option: 'inline'"
  raised from C:\Users\matth\Anaconda3\lib\site-packages\numba\targets\options.py:20
  This error is usually caused by passing an argument of a type that is unsupported by the named function.
  [1] During: resolving callee type: Function(<function BCBase1stOrder.make_adjacent_evaluator..adjacent_point at 0x00000208DBD0E828>)
  [2] During: typing of call at C:\Users\matth\Anaconda3\lib\site-packages\pde\grids\boundaries\axis.py (379)

File "..\Anaconda3\lib\site-packages\pde\grids\boundaries\axis.py", line 379:
def region_evaluator(arr, idx: Tuple[int, ...])

arr_1d, i_point, bc_idx = get_arr_1d(arr, idx)
return (ap_low(arr_1d, i_point, bc_idx),
^

raised from C:\Users\matth\Anaconda3\lib\site-packages\numba\typeinfer.py:927

This error is usually caused by passing an argument of a type that is unsupported by the named function.
[1] During: resolving callee type: Function(<function BoundaryPair.make_region_evaluator..region_evaluator at 0x00000208DBD0E438>)
[2] During: typing of call at C:\Users\matth\Anaconda3\lib\site-packages\pde\grids\operators\cartesian.py (351)

File "..\Anaconda3\lib\site-packages\pde\grids\operators\cartesian.py", line 351:
def laplace(arr, out=None):

j = 0
arr_x_l, arr_c, arr_x_h = region_x(arr, (i, j))
^

raised from C:\Users\matth\Anaconda3\lib\site-packages\numba\typeinfer.py:927

This error is usually caused by passing an argument of a type that is unsupported by the named function.
[1] During: resolving callee type: Function(<function _make_laplace_numba_2d..laplace at 0x00000208DBD26708>)
[2] During: typing of call at C:\Users\matth\Anaconda3\lib\site-packages\pde\tools\numba.py (259)

File "..\Anaconda3\lib\site-packages\pde\tools\numba.py", line 259:
def f_with_allocated_out(arr, out):

""" helper function allocating output array """
return f_jit(arr, out=np.empty_like(arr))
^

[1] During: resolving callee type: type(CPUDispatcher(<function _make_laplace_numba_2d..laplace at 0x00000208DBD268B8>))
[2] During: typing of call at C:\Users\matth\Anaconda3\lib\site-packages\pde\pdes\diffusion.py (97)

[3] During: resolving callee type: type(CPUDispatcher(<function _make_laplace_numba_2d..laplace at 0x00000208DBD268B8>))
[4] During: typing of call at C:\Users\matth\Anaconda3\lib\site-packages\pde\pdes\diffusion.py (97)

File "..\Anaconda3\lib\site-packages\pde\pdes\diffusion.py", line 97:
def pde_rhs(state_data: np.ndarray, t: float):

""" compiled helper function evaluating right hand side """
return diffusivity_value * laplace(state_data)
^

[david-zwicker]

This looks like numba could not compile a part of the package. Are you using a recent version of the numba package (at least 0.48)? Generally, could you post the result of

import pde
pde.environment()

This should give us more information about the environment you're using.

[MatthewBelzer]

It was on version .45 and I updated it. Thank you so much!

[david-zwicker]

Great! I assume that solved the issue and thus closed it.