Extracting Features "numba.core.errors.UnsupportedRewriteError: Failed in nopython mode pipeline (step: convert to parfors) Only constant step size of 1 is supported for prange"

[ltaxi]

Hello! I've recently installed the newest version of simba and am getting the following error when trying to extract features from dlc tracking/video data--have tried uninstalling/reinstalling, creating a new env and making sure I'm running python 3.6, checking to make sure that my project_folder/logs/video_info.csv file has all the requisite info! I'm at a bit of a loss for what to do moving forward. Any guidance appreciated!

Exception in thread Thread-4:
Traceback (most recent call last):
File "C:\ProgramData\anaconda3\envs\simbaenvnew\lib\threading.py", line 916, in _bootstrap_inner
self.run()
File "C:\ProgramData\anaconda3\envs\simbaenvnew\lib\threading.py", line 864, in run
self._target(*self._args, **self._kwargs)
File "C:\ProgramData\anaconda3\envs\simbaenvnew\lib\site-packages\simba\ui\tkinter_functions.py", line 436, in execute_command
cmd(**evaluated_kwargs)
File "C:\ProgramData\anaconda3\envs\simbaenvnew\lib\site-packages\simba\SimBA.py", line 719, in run_feature_extraction
feature_extractor_classes = get_bp_config_code_class_pairs()
File "C:\ProgramData\anaconda3\envs\simbaenvnew\lib\site-packages\simba\utils\lookups.py", line 99, in get_bp_config_code_class_pairs
from simba.feature_extractors.amber_feature_extractor import
File "C:\ProgramData\anaconda3\envs\simbaenvnew\lib\site-packages\simba\feature_extractors\amber_feature_extractor.py", line 10, in
from simba.mixins.circular_statistics import CircularStatisticsMixin
File "C:\ProgramData\anaconda3\envs\simbaenvnew\lib\site-packages\simba\mixins\circular_statistics.py", line 9, in
class CircularStatisticsMixin(object):
File "C:\ProgramData\anaconda3\envs\simbaenvnew\lib\site-packages\simba\mixins\circular_statistics.py", line 668, in CircularStatisticsMixin
def rao_spacing(data: np.array):
File "C:\ProgramData\anaconda3\envs\simbaenvnew\lib\site-packages\numba\core\decorators.py", line 221, in wrapper
disp.compile(sig)
File "C:\ProgramData\anaconda3\envs\simbaenvnew\lib\site-packages\numba\core\compiler_lock.py", line 32, in _acquire_compile_lock
return func(*args, **kwargs)
File "C:\ProgramData\anaconda3\envs\simbaenvnew\lib\site-packages\numba\core\dispatcher.py", line 857, in compile
cres = self._compiler.compile(args, return_type)
File "C:\ProgramData\anaconda3\envs\simbaenvnew\lib\site-packages\numba\core\dispatcher.py", line 77, in compile
status, retval = self._compile_cached(args, return_type)
File "C:\ProgramData\anaconda3\envs\simbaenvnew\lib\site-packages\numba\core\dispatcher.py", line 91, in _compile_cached
retval = self._compile_core(args, return_type)
File "C:\ProgramData\anaconda3\envs\simbaenvnew\lib\site-packages\numba\core\dispatcher.py", line 109, in _compile_core
pipeline_class=self.pipeline_class)
File "C:\ProgramData\anaconda3\envs\simbaenvnew\lib\site-packages\numba\core\compiler.py", line 602, in compile_extra
return pipeline.compile_extra(func)
File "C:\ProgramData\anaconda3\envs\simbaenvnew\lib\site-packages\numba\core\compiler.py", line 352, in compile_extra
return self._compile_bytecode()
File "C:\ProgramData\anaconda3\envs\simbaenvnew\lib\site-packages\numba\core\compiler.py", line 414, in _compile_bytecode
return self._compile_core()
File "C:\ProgramData\anaconda3\envs\simbaenvnew\lib\site-packages\numba\core\compiler.py", line 394, in _compile_core
raise e
File "C:\ProgramData\anaconda3\envs\simbaenvnew\lib\site-packages\numba\core\compiler.py", line 385, in _compile_core
pm.run(self.state)
File "C:\ProgramData\anaconda3\envs\simbaenvnew\lib\site-packages\numba\core\compiler_machinery.py", line 339, in run
raise patched_exception
File "C:\ProgramData\anaconda3\envs\simbaenvnew\lib\site-packages\numba\core\compiler_machinery.py", line 330, in run
self._runPass(idx, pass_inst, state)
File "C:\ProgramData\anaconda3\envs\simbaenvnew\lib\site-packages\numba\core\compiler_lock.py", line 32, in _acquire_compile_lock
return func(*args, **kwargs)
File "C:\ProgramData\anaconda3\envs\simbaenvnew\lib\site-packages\numba\core\compiler_machinery.py", line 289, in _runPass
mutated |= check(pss.run_pass, internal_state)
File "C:\ProgramData\anaconda3\envs\simbaenvnew\lib\site-packages\numba\core\compiler_machinery.py", line 262, in check
mangled = func(compiler_state)
File "C:\ProgramData\anaconda3\envs\simbaenvnew\lib\site-packages\numba\core\typed_passes.py", line 290, in run_pass
parfor_pass.run()
File "C:\ProgramData\anaconda3\envs\simbaenvnew\lib\site-packages\numba\parfors\parfor.py", line 2730, in run
ConvertLoopPass(self).run(self.func_ir.blocks)
File "C:\ProgramData\anaconda3\envs\simbaenvnew\lib\site-packages\numba\parfors\parfor.py", line 2440, in run
loc=inst.loc,
numba.core.errors.UnsupportedRewriteError: Failed in nopython mode pipeline (step: convert to parfors)
Only constant step size of 1 is supported for prange

File "....\ProgramData\anaconda3\envs\simbaenvnew\lib\site-packages\simba\mixins\circular_statistics.py", line 691:
def rao_spacing(data: np.array):

)
for j in prange(data.shape[0] - 1, -1, -1):
^

[sronilsson]

Hi @ltaxi - yes my bad, not sure how this sneaked in 😬 , let me update and get back to you.

[sronilsson]

can you let me know how it looks like in simba 2.1.1 after running pip install simba-uw-tf-dev --upgrade ?

[ltaxi]

it's working now! Thank you so much!

[sronilsson]

Thanks for reporting, very helpful 👍🏻