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import autode as ade
ade.Config.n_cores = 8
reaction = ade.Reaction('C=CC=C.C=C>>C1C=CCCC1', name='diels_alder')
reaction.calculate_reaction_profile()
Expected behavior
Generate rxn profile
Environment
Operating System: Linux on Aleph
Python version: Python 3.9.17
autodE version: 1.4.0
Additional context
concurrent.futures.process._RemoteTraceback:
"""
Traceback (most recent call last):
File "/u/fd/wadh4597/miniconda3/envs/autode_env/lib/python3.9/concurrent/futures/process.py", line 246, in _process_worker
r = call_item.fn(*call_item.args, **call_item.kwargs)
File "/u/fd/wadh4597/miniconda3/envs/autode_env/lib/python3.9/site-packages/autode/conformers/conformers.py", line 25, in _calc_conformer
getattr(conformer, calc_type)(
File "/u/fd/wadh4597/miniconda3/envs/autode_env/lib/python3.9/site-packages/autode/conformers/conformer.py", line 108, in optimise
super().optimise(
File "/u/fd/wadh4597/miniconda3/envs/autode_env/lib/python3.9/site-packages/autode/utils.py", line 378, in wrapped_function
return func(*args, **kwargs)
File "/u/fd/wadh4597/miniconda3/envs/autode_env/lib/python3.9/site-packages/autode/species/species.py", line 1226, in optimise
calc.run()
File "/u/fd/wadh4597/miniconda3/envs/autode_env/lib/python3.9/site-packages/autode/calculations/calculation.py", line 122, in run
self._executor.run()
File "/u/fd/wadh4597/miniconda3/envs/autode_env/lib/python3.9/site-packages/autode/calculations/executors.py", line 85, in run
self.set_properties()
File "/u/fd/wadh4597/miniconda3/envs/autode_env/lib/python3.9/site-packages/autode/utils.py", line 473, in wrapped_function
return func(*args, **kwargs)
File "/u/fd/wadh4597/miniconda3/envs/autode_env/lib/python3.9/site-packages/autode/calculations/executors.py", line 158, in set_properties
self.molecule.energy = self.method.energy_from(self)
File "/u/fd/wadh4597/miniconda3/envs/autode_env/lib/python3.9/site-packages/autode/wrappers/methods.py", line 213, in energy_from
energy = self._energy_from(calc)
File "/u/fd/wadh4597/miniconda3/envs/autode_env/lib/python3.9/site-packages/autode/wrappers/XTB.py", line 249, in _energy_from
raise CouldNotGetProperty(name="energy")
autode.exceptions.CouldNotGetProperty: Could not get energy
"""
The above exception was the direct cause of the following exception:
Traceback (most recent call last):
File "/home/aleph/fd/wadh4597/aldehyde_interconversion/rxn_4py.py", line 14, in
rxn.calculate_reaction_profile()
File "/u/fd/wadh4597/miniconda3/envs/autode_env/lib/python3.9/site-packages/autode/utils.py", line 440, in wrapped_function
return func(*args, **kwargs)
File "/u/fd/wadh4597/miniconda3/envs/autode_env/lib/python3.9/site-packages/autode/reactions/reaction.py", line 162, in calculate_reaction_profile
calculate(self)
File "/u/fd/wadh4597/miniconda3/envs/autode_env/lib/python3.9/site-packages/autode/utils.py", line 242, in wrapped_function
result = func(*args, **kwargs)
File "/u/fd/wadh4597/miniconda3/envs/autode_env/lib/python3.9/site-packages/autode/reactions/reaction.py", line 150, in calculate
reaction.find_lowest_energy_conformers()
File "/u/fd/wadh4597/miniconda3/envs/autode_env/lib/python3.9/site-packages/autode/utils.py", line 679, in wrapped_function
result = func(reaction)
File "/u/fd/wadh4597/miniconda3/envs/autode_env/lib/python3.9/site-packages/autode/reactions/reaction.py", line 617, in find_lowest_energy_conformers
mol.find_lowest_energy_conformer(hmethod=h_method)
File "/u/fd/wadh4597/miniconda3/envs/autode_env/lib/python3.9/site-packages/autode/utils.py", line 242, in wrapped_function
result = func(*args, **kwargs)
File "/u/fd/wadh4597/miniconda3/envs/autode_env/lib/python3.9/site-packages/autode/species/species.py", line 1419, in find_lowest_energy_conformer
self.conformers.optimise(method=lmethod)
File "/u/fd/wadh4597/miniconda3/envs/autode_env/lib/python3.9/site-packages/autode/conformers/conformers.py", line 310, in optimise
return self._parallel_calc("optimise", method, keywords)
File "/u/fd/wadh4597/miniconda3/envs/autode_env/lib/python3.9/site-packages/autode/conformers/conformers.py", line 292, in _parallel_calc
self[idx] = res.result()
File "/u/fd/wadh4597/miniconda3/envs/autode_env/lib/python3.9/concurrent/futures/_base.py", line 446, in result
return self.__get_result()
File "/u/fd/wadh4597/miniconda3/envs/autode_env/lib/python3.9/concurrent/futures/_base.py", line 391, in __get_result
raise self._exception
autode.exceptions.CouldNotGetProperty: Could not get energy
The text was updated successfully, but these errors were encountered:
Hey @allybo – this looks like an electronic structure calculation has failed. Probably worth looking in the output files, if you have them. Which low and high-level methods are you using? (orca/xtb?) I'd be surprised if this doesn't work as it was run as part of the benchmark for the previous release
Describe the bug
Could not get energy when running the DA example
To Reproduce
import autode as ade
ade.Config.n_cores = 8
reaction = ade.Reaction('C=CC=C.C=C>>C1C=CCCC1', name='diels_alder')
reaction.calculate_reaction_profile()
Expected behavior
Generate rxn profile
Environment
Additional context
concurrent.futures.process._RemoteTraceback:
"""
Traceback (most recent call last):
File "/u/fd/wadh4597/miniconda3/envs/autode_env/lib/python3.9/concurrent/futures/process.py", line 246, in _process_worker
r = call_item.fn(*call_item.args, **call_item.kwargs)
File "/u/fd/wadh4597/miniconda3/envs/autode_env/lib/python3.9/site-packages/autode/conformers/conformers.py", line 25, in _calc_conformer
getattr(conformer, calc_type)(
File "/u/fd/wadh4597/miniconda3/envs/autode_env/lib/python3.9/site-packages/autode/conformers/conformer.py", line 108, in optimise
super().optimise(
File "/u/fd/wadh4597/miniconda3/envs/autode_env/lib/python3.9/site-packages/autode/utils.py", line 378, in wrapped_function
return func(*args, **kwargs)
File "/u/fd/wadh4597/miniconda3/envs/autode_env/lib/python3.9/site-packages/autode/species/species.py", line 1226, in optimise
calc.run()
File "/u/fd/wadh4597/miniconda3/envs/autode_env/lib/python3.9/site-packages/autode/calculations/calculation.py", line 122, in run
self._executor.run()
File "/u/fd/wadh4597/miniconda3/envs/autode_env/lib/python3.9/site-packages/autode/calculations/executors.py", line 85, in run
self.set_properties()
File "/u/fd/wadh4597/miniconda3/envs/autode_env/lib/python3.9/site-packages/autode/utils.py", line 473, in wrapped_function
return func(*args, **kwargs)
File "/u/fd/wadh4597/miniconda3/envs/autode_env/lib/python3.9/site-packages/autode/calculations/executors.py", line 158, in set_properties
self.molecule.energy = self.method.energy_from(self)
File "/u/fd/wadh4597/miniconda3/envs/autode_env/lib/python3.9/site-packages/autode/wrappers/methods.py", line 213, in energy_from
energy = self._energy_from(calc)
File "/u/fd/wadh4597/miniconda3/envs/autode_env/lib/python3.9/site-packages/autode/wrappers/XTB.py", line 249, in _energy_from
raise CouldNotGetProperty(name="energy")
autode.exceptions.CouldNotGetProperty: Could not get energy
"""
The above exception was the direct cause of the following exception:
Traceback (most recent call last):
File "/home/aleph/fd/wadh4597/aldehyde_interconversion/rxn_4py.py", line 14, in
rxn.calculate_reaction_profile()
File "/u/fd/wadh4597/miniconda3/envs/autode_env/lib/python3.9/site-packages/autode/utils.py", line 440, in wrapped_function
return func(*args, **kwargs)
File "/u/fd/wadh4597/miniconda3/envs/autode_env/lib/python3.9/site-packages/autode/reactions/reaction.py", line 162, in calculate_reaction_profile
calculate(self)
File "/u/fd/wadh4597/miniconda3/envs/autode_env/lib/python3.9/site-packages/autode/utils.py", line 242, in wrapped_function
result = func(*args, **kwargs)
File "/u/fd/wadh4597/miniconda3/envs/autode_env/lib/python3.9/site-packages/autode/reactions/reaction.py", line 150, in calculate
reaction.find_lowest_energy_conformers()
File "/u/fd/wadh4597/miniconda3/envs/autode_env/lib/python3.9/site-packages/autode/utils.py", line 679, in wrapped_function
result = func(reaction)
File "/u/fd/wadh4597/miniconda3/envs/autode_env/lib/python3.9/site-packages/autode/reactions/reaction.py", line 617, in find_lowest_energy_conformers
mol.find_lowest_energy_conformer(hmethod=h_method)
File "/u/fd/wadh4597/miniconda3/envs/autode_env/lib/python3.9/site-packages/autode/utils.py", line 242, in wrapped_function
result = func(*args, **kwargs)
File "/u/fd/wadh4597/miniconda3/envs/autode_env/lib/python3.9/site-packages/autode/species/species.py", line 1419, in find_lowest_energy_conformer
self.conformers.optimise(method=lmethod)
File "/u/fd/wadh4597/miniconda3/envs/autode_env/lib/python3.9/site-packages/autode/conformers/conformers.py", line 310, in optimise
return self._parallel_calc("optimise", method, keywords)
File "/u/fd/wadh4597/miniconda3/envs/autode_env/lib/python3.9/site-packages/autode/conformers/conformers.py", line 292, in _parallel_calc
self[idx] = res.result()
File "/u/fd/wadh4597/miniconda3/envs/autode_env/lib/python3.9/concurrent/futures/_base.py", line 446, in result
return self.__get_result()
File "/u/fd/wadh4597/miniconda3/envs/autode_env/lib/python3.9/concurrent/futures/_base.py", line 391, in __get_result
raise self._exception
autode.exceptions.CouldNotGetProperty: Could not get energy
The text was updated successfully, but these errors were encountered: