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with the latest docker image there are a few api changes in openmc to accommodate
root ➜ / $ pytest tests ======================================== test session starts ======================================== platform linux -- Python 3.11.2, pytest-7.4.0, pluggy-1.2.0 rootdir: /tests plugins: anyio-3.7.1 collected 18 items tests/test_task_1.py . [ 5%] tests/test_task_10.py . [ 11%] tests/test_task_11.py . [ 16%] tests/test_task_12.py F [ 22%] tests/test_task_13.py F [ 27%] tests/test_task_14.py . [ 33%] tests/test_task_15.py F [ 38%] tests/test_task_16.py F [ 44%] tests/test_task_17.py . [ 50%] tests/test_task_18.py . [ 55%] tests/test_task_2.py . [ 61%] tests/test_task_3.py F [ 66%] tests/test_task_4.py . [ 72%] tests/test_task_5.py . [ 77%] tests/test_task_6.py . [ 83%] tests/test_task_7.py . [ 88%] tests/test_task_8.py F [ 94%] tests/test_task_9.py . [100%] ============================================= FAILURES ============================================== ___________________________________________ test_task_12 ____________________________________________ def test_task_12(): for notebook in Path().rglob("tasks/task_16_*/*.ipynb"): print(notebook) > nb, errors = _notebook_run(notebook) tests/test_task_12.py:45: _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ tests/test_task_12.py:37: in _notebook_run raise e tests/test_task_12.py:31: in _notebook_run ep.preprocess(nb, {'metadata': {'path': this_file_directory}}) opt/venv/lib/python3.11/site-packages/nbconvert/preprocessors/execute.py:89: in preprocess self.preprocess_cell(cell, resources, index) opt/venv/lib/python3.11/site-packages/nbconvert/preprocessors/execute.py:110: in preprocess_cell cell = self.execute_cell(cell, index, store_history=True) opt/venv/lib/python3.11/site-packages/nbclient/util.py:84: in wrapped return just_run(coro(*args, **kwargs)) opt/venv/lib/python3.11/site-packages/nbclient/util.py:62: in just_run return loop.run_until_complete(coro) usr/lib/python3.11/asyncio/base_events.py:653: in run_until_complete return future.result() opt/venv/lib/python3.11/site-packages/nbclient/client.py:965: in async_execute_cell await self._check_raise_for_error(cell, cell_index, exec_reply) _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ self = <nbconvert.preprocessors.execute.ExecutePreprocessor object at 0x7f3c201a6fd0> cell = {'cell_type': 'code', 'execution_count': 1, 'metadata': {'execution': {'iopub.status.busy': '2023-08-06T19:52:58.47606...ue, exist_ok=True)\n with open(filename, mode="w", encoding="utf-8") as f:\n json.dump(result, f, indent=4)'} cell_index = 1 exec_reply = {'buffers': [], 'content': {'ename': 'ModuleNotFoundError', 'engine_info': {'engine_id': -1, 'engine_uuid': 'f7ab179a-...e, 'engine': 'f7ab179a-839c-4a6f-ac8c-fb8f5cbaee2d', 'started': '2023-08-06T19:52:58.476783Z', 'status': 'error'}, ...} async def _check_raise_for_error( self, cell: NotebookNode, cell_index: int, exec_reply: t.Optional[t.Dict] ) -> None: if exec_reply is None: return None exec_reply_content = exec_reply['content'] if exec_reply_content['status'] != 'error': return None cell_allows_errors = (not self.force_raise_errors) and ( self.allow_errors or exec_reply_content.get('ename') in self.allow_error_names or "raises-exception" in cell.metadata.get("tags", []) ) await run_hook(self.on_cell_error, cell=cell, cell_index=cell_index) if not cell_allows_errors: > raise CellExecutionError.from_cell_and_msg(cell, exec_reply_content) E nbclient.exceptions.CellExecutionError: An error occurred while executing the following cell: E ------------------ E # Install dependencies E E import json E import numpy as np E import pandas as pd E import adaptive E import holoviews E import ipywidgets E import nest_asyncio E import plotly.graph_objects as go E E from tqdm import tqdm E from pathlib import Path E from skopt import gp_minimize E from skopt.utils import dump, load E from scipy.interpolate import griddata E E from openmc_model import objective E E adaptive.notebook_extension() E nest_asyncio.apply() E E # method for saving results in json file E def output_result(filepath, result): E filename = filepath E Path(filename).parent.mkdir(parents=True, exist_ok=True) E with open(filename, mode="w", encoding="utf-8") as f: E json.dump(result, f, indent=4) E ------------------ E E --------------------------------------------------------------------------- E ModuleNotFoundError Traceback (most recent call last) E Cell In[1], line 18 E 15 from skopt.utils import dump, load E 16 from scipy.interpolate import griddata E ---> 18 from openmc_model import objective E 20 adaptive.notebook_extension() E 21 nest_asyncio.apply() E E ModuleNotFoundError: No module named 'openmc_model' E ModuleNotFoundError: No module named 'openmc_model' opt/venv/lib/python3.11/site-packages/nbclient/client.py:862: CellExecutionError --------------------------------------- Captured stdout call ---------------------------------------- tasks/task_16_parameter_study_optimisation/parameter_study_optimisation.ipynb --------------------------------------- Captured stderr call ---------------------------------------- 0.00s - Debugger warning: It seems that frozen modules are being used, which may 0.00s - make the debugger miss breakpoints. Please pass -Xfrozen_modules=off 0.00s - to python to disable frozen modules. 0.00s - Note: Debugging will proceed. Set PYDEVD_DISABLE_FILE_VALIDATION=1 to disable this validation. ___________________________________________ test_task_13 ____________________________________________ def test_task_13(): for notebook in Path().rglob("tasks/task_13_*/*.ipynb"): print(f'tests {notebook}') > nb, errors = _notebook_run(notebook) tests/test_task_13.py:41: _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ tests/test_task_13.py:34: in _notebook_run raise e tests/test_task_13.py:29: in _notebook_run ep.preprocess(nb, {'metadata': {'path': this_file_directory}}) opt/venv/lib/python3.11/site-packages/nbconvert/preprocessors/execute.py:89: in preprocess self.preprocess_cell(cell, resources, index) opt/venv/lib/python3.11/site-packages/nbconvert/preprocessors/execute.py:110: in preprocess_cell cell = self.execute_cell(cell, index, store_history=True) opt/venv/lib/python3.11/site-packages/nbclient/util.py:84: in wrapped return just_run(coro(*args, **kwargs)) opt/venv/lib/python3.11/site-packages/nbclient/util.py:62: in just_run return loop.run_until_complete(coro) usr/lib/python3.11/asyncio/base_events.py:653: in run_until_complete return future.result() opt/venv/lib/python3.11/site-packages/nbclient/client.py:965: in async_execute_cell await self._check_raise_for_error(cell, cell_index, exec_reply) _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ self = <nbconvert.preprocessors.execute.ExecutePreprocessor object at 0x7f3c1af20190> cell = {'cell_type': 'code', 'execution_count': 6, 'id': 'a51cd616-b0ff-4322-82db-4608f3082611', 'metadata': {'execution': {'... [surface_filter, energy_filter]\nouter_surface_spectra_tally.id = 12\nmy_tallies.append(outer_surface_spectra_tally)'} cell_index = 11 exec_reply = {'buffers': [], 'content': {'ename': 'TypeError', 'engine_info': {'engine_id': -1, 'engine_uuid': 'dc1961d4-35e6-4d26-...e, 'engine': 'dc1961d4-35e6-4d26-9a15-e48b55596a68', 'started': '2023-08-06T19:53:16.734360Z', 'status': 'error'}, ...} async def _check_raise_for_error( self, cell: NotebookNode, cell_index: int, exec_reply: t.Optional[t.Dict] ) -> None: if exec_reply is None: return None exec_reply_content = exec_reply['content'] if exec_reply_content['status'] != 'error': return None cell_allows_errors = (not self.force_raise_errors) and ( self.allow_errors or exec_reply_content.get('ename') in self.allow_error_names or "raises-exception" in cell.metadata.get("tags", []) ) await run_hook(self.on_cell_error, cell=cell, cell_index=cell_index) if not cell_allows_errors: > raise CellExecutionError.from_cell_and_msg(cell, exec_reply_content) E nbclient.exceptions.CellExecutionError: An error occurred while executing the following cell: E ------------------ E my_tallies = openmc.Tallies() E E # This spherical mesh tally is used for generating the weight windows. E mesh = openmc.SphericalMesh() E mesh.r_grid = np.linspace(0, outer_surface.r, 5000) E mesh_filter = openmc.MeshFilter(mesh) E flux_tally_for_ww = openmc.Tally(name="flux tally") E flux_tally_for_ww.filters = [mesh_filter] E flux_tally_for_ww.scores = ["flux"] E flux_tally_for_ww.id = 42 E my_tallies.append(flux_tally_for_ww) E E # This spectrum tally is on the outer shell and shows then energy distribution E # of neutrons present in the cell. E energy_filter = openmc.EnergyFilter.from_group_structure('CCFE-709') E surface_filter = openmc.CellFilter(cell_2) E outer_surface_spectra_tally = openmc.Tally(name='outer_surface_spectra_tally') E outer_surface_spectra_tally.scores = ['current'] E outer_surface_spectra_tally.filters = [surface_filter, energy_filter] E outer_surface_spectra_tally.id = 12 E my_tallies.append(outer_surface_spectra_tally) E ------------------ E E --------------------------------------------------------------------------- E TypeError Traceback (most recent call last) E Cell In[6], line 4 E 1 my_tallies = openmc.Tallies() E 3 # This spherical mesh tally is used for generating the weight windows. E ----> 4 mesh = openmc.SphericalMesh() E 5 mesh.r_grid = np.linspace(0, outer_surface.r, 5000) E 6 mesh_filter = openmc.MeshFilter(mesh) E E TypeError: SphericalMesh.__init__() missing 1 required positional argument: 'r_grid' E TypeError: SphericalMesh.__init__() missing 1 required positional argument: 'r_grid' opt/venv/lib/python3.11/site-packages/nbclient/client.py:862: CellExecutionError --------------------------------------- Captured stdout call ---------------------------------------- tests tasks/task_13_variance_reduction/1_shielded_room_survival_biasing.ipynb tests tasks/task_13_variance_reduction/4_sphere_iterative_per_batch_ww.ipynb --------------------------------------- Captured stderr call ---------------------------------------- 0.00s - Debugger warning: It seems that frozen modules are being used, which may 0.00s - make the debugger miss breakpoints. Please pass -Xfrozen_modules=off 0.00s - to python to disable frozen modules. 0.00s - Note: Debugging will proceed. Set PYDEVD_DISABLE_FILE_VALIDATION=1 to disable this validation. 0.00s - Debugger warning: It seems that frozen modules are being used, which may 0.00s - make the debugger miss breakpoints. Please pass -Xfrozen_modules=off 0.00s - to python to disable frozen modules. 0.00s - Note: Debugging will proceed. Set PYDEVD_DISABLE_FILE_VALIDATION=1 to disable this validation. ___________________________________________ test_task_14 ____________________________________________ def test_task_14(): for notebook in Path().rglob("tasks/task_15_*/*.ipynb"): print(notebook) > nb, errors = _notebook_run(notebook) tests/test_task_15.py:45: _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ tests/test_task_15.py:37: in _notebook_run raise e tests/test_task_15.py:31: in _notebook_run ep.preprocess(nb, {'metadata': {'path': this_file_directory}}) opt/venv/lib/python3.11/site-packages/nbconvert/preprocessors/execute.py:89: in preprocess self.preprocess_cell(cell, resources, index) opt/venv/lib/python3.11/site-packages/nbconvert/preprocessors/execute.py:110: in preprocess_cell cell = self.execute_cell(cell, index, store_history=True) opt/venv/lib/python3.11/site-packages/nbclient/util.py:84: in wrapped return just_run(coro(*args, **kwargs)) opt/venv/lib/python3.11/site-packages/nbclient/util.py:62: in just_run return loop.run_until_complete(coro) usr/lib/python3.11/asyncio/base_events.py:653: in run_until_complete return future.result() opt/venv/lib/python3.11/site-packages/nbclient/client.py:965: in async_execute_cell await self._check_raise_for_error(cell, cell_index, exec_reply) _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ self = <nbconvert.preprocessors.execute.ExecutePreprocessor object at 0x7f3c21ad0ad0> cell = {'cell_type': 'code', 'execution_count': 1, 'metadata': {'execution': {'iopub.status.busy': '2023-08-06T19:58:03.01214... plot_simulation_results(filtered_results_df)\n fig = go.Figure()\n fig.add_trace(sample_trace)\n return fig'} cell_index = 1 exec_reply = {'buffers': [], 'content': {'ename': 'ModuleNotFoundError', 'engine_info': {'engine_id': -1, 'engine_uuid': '9cbe83ce-...e, 'engine': '9cbe83ce-6661-448f-ae90-24c6d1b76239', 'started': '2023-08-06T19:58:03.012816Z', 'status': 'error'}, ...} async def _check_raise_for_error( self, cell: NotebookNode, cell_index: int, exec_reply: t.Optional[t.Dict] ) -> None: if exec_reply is None: return None exec_reply_content = exec_reply['content'] if exec_reply_content['status'] != 'error': return None cell_allows_errors = (not self.force_raise_errors) and ( self.allow_errors or exec_reply_content.get('ename') in self.allow_error_names or "raises-exception" in cell.metadata.get("tags", []) ) await run_hook(self.on_cell_error, cell=cell, cell_index=cell_index) if not cell_allows_errors: > raise CellExecutionError.from_cell_and_msg(cell, exec_reply_content) E nbclient.exceptions.CellExecutionError: An error occurred while executing the following cell: E ------------------ E # import dependencies for sampling and plotting E E import uuid E from pathlib import Path E import json E import pandas as pd E import adaptive E import numpy as np E import plotly.graph_objects as go E from tqdm import tqdm E from plotly.subplots import make_subplots E from skopt.sampler import Halton E from skopt.space import Space E from skopt.sampler import Grid E E import nest_asyncio E adaptive.notebook_extension() E nest_asyncio.apply() E E # imports pre-defined neutronics model and plotting tools E from openmc_model import * # this is where find_tbr_hcpb is E from plotting_tools import read_in_data, plot_simulation_results, plot_interpolated_results E E # method for saving results in json file E def output_result(result): E filename = "outputs/" + str(uuid.uuid4()) + ".json" E Path(filename).parent.mkdir(parents=True, exist_ok=True) E with open(filename, mode="w", encoding="utf-8") as f: E json.dump(result, f, indent=4) E E # method for showing results E def show_results(filtered_results_df): E sample_trace = plot_simulation_results(filtered_results_df) E fig = go.Figure() E fig.add_trace(sample_trace) E return fig E ------------------ E E --------------------------------------------------------------------------- E ModuleNotFoundError Traceback (most recent call last) E Cell In[1], line 21 E 18 nest_asyncio.apply() E 20 # imports pre-defined neutronics model and plotting tools E ---> 21 from openmc_model import * # this is where find_tbr_hcpb is E 22 from plotting_tools import read_in_data, plot_simulation_results, plot_interpolated_results E 24 # method for saving results in json file E E ModuleNotFoundError: No module named 'openmc_model' E ModuleNotFoundError: No module named 'openmc_model' opt/venv/lib/python3.11/site-packages/nbclient/client.py:862: CellExecutionError --------------------------------------- Captured stdout call ---------------------------------------- tasks/task_15_parameter_study_sampling/1_techniques_for_sampling_design_space.ipynb --------------------------------------- Captured stderr call ---------------------------------------- 0.00s - Debugger warning: It seems that frozen modules are being used, which may 0.00s - make the debugger miss breakpoints. Please pass -Xfrozen_modules=off 0.00s - to python to disable frozen modules. 0.00s - Note: Debugging will proceed. Set PYDEVD_DISABLE_FILE_VALIDATION=1 to disable this validation. ___________________________________________ test_task_14 ____________________________________________ def test_task_14(): for notebook in Path().rglob("tasks/task_16_*/*.ipynb"): print(notebook) > nb, errors = _notebook_run(notebook) tests/test_task_16.py:45: _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ tests/test_task_16.py:37: in _notebook_run raise e tests/test_task_16.py:31: in _notebook_run ep.preprocess(nb, {'metadata': {'path': this_file_directory}}) opt/venv/lib/python3.11/site-packages/nbconvert/preprocessors/execute.py:89: in preprocess self.preprocess_cell(cell, resources, index) opt/venv/lib/python3.11/site-packages/nbconvert/preprocessors/execute.py:110: in preprocess_cell cell = self.execute_cell(cell, index, store_history=True) opt/venv/lib/python3.11/site-packages/nbclient/util.py:84: in wrapped return just_run(coro(*args, **kwargs)) opt/venv/lib/python3.11/site-packages/nbclient/util.py:62: in just_run return loop.run_until_complete(coro) usr/lib/python3.11/asyncio/base_events.py:653: in run_until_complete return future.result() opt/venv/lib/python3.11/site-packages/nbclient/client.py:965: in async_execute_cell await self._check_raise_for_error(cell, cell_index, exec_reply) _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ self = <nbconvert.preprocessors.execute.ExecutePreprocessor object at 0x7f3c21b023d0> cell = {'cell_type': 'code', 'execution_count': 1, 'metadata': {'execution': {'iopub.status.busy': '2023-08-06T19:58:08.08778...ue, exist_ok=True)\n with open(filename, mode="w", encoding="utf-8") as f:\n json.dump(result, f, indent=4)'} cell_index = 1 exec_reply = {'buffers': [], 'content': {'ename': 'ModuleNotFoundError', 'engine_info': {'engine_id': -1, 'engine_uuid': '1114a438-...e, 'engine': '1114a438-7d1d-4ec4-a425-50a06418d737', 'started': '2023-08-06T19:58:08.088569Z', 'status': 'error'}, ...} async def _check_raise_for_error( self, cell: NotebookNode, cell_index: int, exec_reply: t.Optional[t.Dict] ) -> None: if exec_reply is None: return None exec_reply_content = exec_reply['content'] if exec_reply_content['status'] != 'error': return None cell_allows_errors = (not self.force_raise_errors) and ( self.allow_errors or exec_reply_content.get('ename') in self.allow_error_names or "raises-exception" in cell.metadata.get("tags", []) ) await run_hook(self.on_cell_error, cell=cell, cell_index=cell_index) if not cell_allows_errors: > raise CellExecutionError.from_cell_and_msg(cell, exec_reply_content) E nbclient.exceptions.CellExecutionError: An error occurred while executing the following cell: E ------------------ E # Install dependencies E E import json E import numpy as np E import pandas as pd E import adaptive E import holoviews E import ipywidgets E import nest_asyncio E import plotly.graph_objects as go E E from tqdm import tqdm E from pathlib import Path E from skopt import gp_minimize E from skopt.utils import dump, load E from scipy.interpolate import griddata E E from openmc_model import objective E E adaptive.notebook_extension() E nest_asyncio.apply() E E # method for saving results in json file E def output_result(filepath, result): E filename = filepath E Path(filename).parent.mkdir(parents=True, exist_ok=True) E with open(filename, mode="w", encoding="utf-8") as f: E json.dump(result, f, indent=4) E ------------------ E E --------------------------------------------------------------------------- E ModuleNotFoundError Traceback (most recent call last) E Cell In[1], line 18 E 15 from skopt.utils import dump, load E 16 from scipy.interpolate import griddata E ---> 18 from openmc_model import objective E 20 adaptive.notebook_extension() E 21 nest_asyncio.apply() E E ModuleNotFoundError: No module named 'openmc_model' E ModuleNotFoundError: No module named 'openmc_model' opt/venv/lib/python3.11/site-packages/nbclient/client.py:862: CellExecutionError --------------------------------------- Captured stdout call ---------------------------------------- tasks/task_16_parameter_study_optimisation/parameter_study_optimisation.ipynb --------------------------------------- Captured stderr call ---------------------------------------- 0.00s - Debugger warning: It seems that frozen modules are being used, which may 0.00s - make the debugger miss breakpoints. Please pass -Xfrozen_modules=off 0.00s - to python to disable frozen modules. 0.00s - Note: Debugging will proceed. Set PYDEVD_DISABLE_FILE_VALIDATION=1 to disable this validation. ____________________________________________ test_task_3 ____________________________________________ def test_task_3(): for notebook in Path().rglob("tasks/task_03_*/*.ipynb"): print(notebook) > nb, errors = _notebook_run(notebook) tests/test_task_3.py:46: _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ tests/test_task_3.py:38: in _notebook_run raise e tests/test_task_3.py:32: in _notebook_run ep.preprocess(nb, {'metadata': {'path': this_file_directory}}) opt/venv/lib/python3.11/site-packages/nbconvert/preprocessors/execute.py:89: in preprocess self.preprocess_cell(cell, resources, index) opt/venv/lib/python3.11/site-packages/nbconvert/preprocessors/execute.py:110: in preprocess_cell cell = self.execute_cell(cell, index, store_history=True) opt/venv/lib/python3.11/site-packages/nbclient/util.py:84: in wrapped return just_run(coro(*args, **kwargs)) opt/venv/lib/python3.11/site-packages/nbclient/util.py:62: in just_run return loop.run_until_complete(coro) usr/lib/python3.11/asyncio/base_events.py:653: in run_until_complete return future.result() opt/venv/lib/python3.11/site-packages/nbclient/client.py:965: in async_execute_cell await self._check_raise_for_error(cell, cell_index, exec_reply) _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ self = <nbconvert.preprocessors.execute.ExecutePreprocessor object at 0x7f3c1af13110> cell = {'cell_type': 'code', 'execution_count': 2, 'metadata': {'execution': {'iopub.status.busy': '2023-08-06T19:58:38.88470...and the available openmc colors\n# vox_plot.colors = {copper: \'blue\'}\n\nvox_plot.to_vtk(output=\'voxel_plot.vti\')'} cell_index = 4 exec_reply = {'buffers': [], 'content': {'ename': 'ImportError', 'engine_info': {'engine_id': -1, 'engine_uuid': '9161dac6-f154-405...e, 'engine': '9161dac6-f154-405b-9d6f-956f48cba0a3', 'started': '2023-08-06T19:58:38.885004Z', 'status': 'error'}, ...} async def _check_raise_for_error( self, cell: NotebookNode, cell_index: int, exec_reply: t.Optional[t.Dict] ) -> None: if exec_reply is None: return None exec_reply_content = exec_reply['content'] if exec_reply_content['status'] != 'error': return None cell_allows_errors = (not self.force_raise_errors) and ( self.allow_errors or exec_reply_content.get('ename') in self.allow_error_names or "raises-exception" in cell.metadata.get("tags", []) ) await run_hook(self.on_cell_error, cell=cell, cell_index=cell_index) if not cell_allows_errors: > raise CellExecutionError.from_cell_and_msg(cell, exec_reply_content) E nbclient.exceptions.CellExecutionError: An error occurred while executing the following cell: E ------------------ E # makes the 3d "cube" style geometry E vox_plot = openmc.Plot() E vox_plot.type = 'voxel' E E # makes sure the bounds of the plot include the whole geometry E vox_plot.width = my_geometry.bounding_box.width E E # makes sure the voxel plot is centered at the center of the geometry E vox_plot.origin = my_geometry.bounding_box.center E E # sets the pixels in each direction to be proportional to the size of the geometry in that direction E # Your computer RAM will limit the number of pixels you can set in each direction. E # The * 0.1 part of this line reduces the number of pixels in each direction to a reasonable amount but this could be increased if you want more resolution. E vox_plot.pixels = [int(w* 0.1) for w in my_geometry.bounding_box.width] E E vox_plot.color_by = 'material' E # materials can be coloured using this command and the available openmc colors E # vox_plot.colors = {copper: 'blue'} E E vox_plot.to_vtk(output='voxel_plot.vti') E ------------------ E E --------------------------------------------------------------------------- E ImportError Traceback (most recent call last) E Cell In[2], line 20 E 16 vox_plot.color_by = 'material' E 17 # materials can be coloured using this command and the available openmc colors E 18 # vox_plot.colors = {copper: 'blue'} E ---> 20 vox_plot.to_vtk(output='voxel_plot.vti') E E File /opt/venv/lib/python3.11/site-packages/openmc/plots.py:977, in Plot.to_vtk(self, output, openmc_exec, cwd) E 974 if output is None: E 975 output = h5_voxel_file.with_suffix('.vti') E --> 977 return voxel_to_vtk(h5_voxel_file, output) E E File /opt/venv/lib/python3.11/site-packages/openmc/plots.py:203, in voxel_to_vtk(voxel_file, output) E 185 """Converts a voxel HDF5 file to a VTK file E 186 E 187 .. versionadded:: 0.13.4 E (...) E 199 Path of the .vti file produced E 200 """ E 202 # imported vtk only if used as vtk is an option dependency E --> 203 import vtk E 205 _min_version = (2, 0) E 207 # Read data from voxel file E E File /opt/venv/lib/python3.11/site-packages/vtk.py:5 E 3 # this module has the same contents as vtkmodules.all E 4 from vtkmodules.vtkCommonCore import * E ----> 5 from vtkmodules.vtkWebCore import * E 6 from vtkmodules.vtkCommonMath import * E 7 from vtkmodules.vtkCommonTransforms import * E E ImportError: Initialization failed for vtkWebCore, not compatible with vtkmodules.vtkCommonCore E ImportError: Initialization failed for vtkWebCore, not compatible with vtkmodules.vtkCommonCore opt/venv/lib/python3.11/site-packages/nbclient/client.py:862: CellExecutionError --------------------------------------- Captured stdout call ---------------------------------------- tasks/task_03_making_CSG_geometry/3_viewing_the_geometry_as_vtk.ipynb --------------------------------------- Captured stderr call ---------------------------------------- 0.00s - Debugger warning: It seems that frozen modules are being used, which may 0.00s - make the debugger miss breakpoints. Please pass -Xfrozen_modules=off 0.00s - to python to disable frozen modules. 0.00s - Note: Debugging will proceed. Set PYDEVD_DISABLE_FILE_VALIDATION=1 to disable this validation. ____________________________________________ test_task_8 ____________________________________________ def test_task_8(): for notebook in Path().rglob("tasks/task_08_*/*.ipynb"): print(notebook) > nb, errors = _notebook_run(notebook) tests/test_task_8.py:45: _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ tests/test_task_8.py:37: in _notebook_run raise e tests/test_task_8.py:31: in _notebook_run ep.preprocess(nb, {'metadata': {'path': this_file_directory}}) opt/venv/lib/python3.11/site-packages/nbconvert/preprocessors/execute.py:89: in preprocess self.preprocess_cell(cell, resources, index) opt/venv/lib/python3.11/site-packages/nbconvert/preprocessors/execute.py:110: in preprocess_cell cell = self.execute_cell(cell, index, store_history=True) opt/venv/lib/python3.11/site-packages/nbclient/util.py:84: in wrapped return just_run(coro(*args, **kwargs)) opt/venv/lib/python3.11/site-packages/nbclient/util.py:62: in just_run return loop.run_until_complete(coro) usr/lib/python3.11/asyncio/base_events.py:653: in run_until_complete return future.result() opt/venv/lib/python3.11/site-packages/nbclient/client.py:965: in async_execute_cell await self._check_raise_for_error(cell, cell_index, exec_reply) _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ self = <nbconvert.preprocessors.execute.ExecutePreprocessor object at 0x7f3c201abad0> cell = {'cell_type': 'code', 'execution_count': 7, 'metadata': {'execution': {'iopub.status.busy': '2023-08-06T20:02:08.01030...y=my_geometry,\n outline_by='material',\n outline_kwargs={'colour':['black']}\n)\nplot.figure.savefig('yz.png')"} cell_index = 14 exec_reply = {'buffers': [], 'content': {'ename': 'AttributeError', 'engine_info': {'engine_id': -1, 'engine_uuid': '1c43a002-b080-...e, 'engine': '1c43a002-b080-4099-b16a-6cfd4351f37b', 'started': '2023-08-06T20:02:08.010804Z', 'status': 'error'}, ...} async def _check_raise_for_error( self, cell: NotebookNode, cell_index: int, exec_reply: t.Optional[t.Dict] ) -> None: if exec_reply is None: return None exec_reply_content = exec_reply['content'] if exec_reply_content['status'] != 'error': return None cell_allows_errors = (not self.force_raise_errors) and ( self.allow_errors or exec_reply_content.get('ename') in self.allow_error_names or "raises-exception" in cell.metadata.get("tags", []) ) await run_hook(self.on_cell_error, cell=cell, cell_index=cell_index) if not cell_allows_errors: > raise CellExecutionError.from_cell_and_msg(cell, exec_reply_content) E nbclient.exceptions.CellExecutionError: An error occurred while executing the following cell: E ------------------ E plot = openmc.plot_mesh_tally( E tally=my_tbr_tally, E basis='xz', E axis_units='m', E # slice_index=9, # max value of slice selected E value= 'std_dev', E outline=True, E geometry=my_geometry, E outline_by='material', E outline_kwargs={'colour':['black']} E ) E plot.figure.savefig('yz.png') E ------------------ E E --------------------------------------------------------------------------- E AttributeError Traceback (most recent call last) E Cell In[7], line 1 E ----> 1 plot = openmc.plot_mesh_tally( E 2 tally=my_tbr_tally, E 3 basis='xz', E 4 axis_units='m', E 5 # slice_index=9, # max value of slice selected E 6 value= 'std_dev', E 7 outline=True, E 8 geometry=my_geometry, E 9 outline_by='material', E 10 outline_kwargs={'colour':['black']} E 11 ) E 12 plot.figure.savefig('yz.png') E E AttributeError: module 'openmc' has no attribute 'plot_mesh_tally' E AttributeError: module 'openmc' has no attribute 'plot_mesh_tally' opt/venv/lib/python3.11/site-packages/nbclient/client.py:862: CellExecutionError --------------------------------------- Captured stdout call ---------------------------------------- tasks/task_08_CSG_mesh_tally/1_example_2d_mesh_tallies.ipynb tasks/task_08_CSG_mesh_tally/2_example_3d_mesh_tallies.ipynb --------------------------------------- Captured stderr call ---------------------------------------- 0.00s - Debugger warning: It seems that frozen modules are being used, which may 0.00s - make the debugger miss breakpoints. Please pass -Xfrozen_modules=off 0.00s - to python to disable frozen modules. 0.00s - Note: Debugging will proceed. Set PYDEVD_DISABLE_FILE_VALIDATION=1 to disable this validation. 0.00s - Debugger warning: It seems that frozen modules are being used, which may 0.00s - make the debugger miss breakpoints. Please pass -Xfrozen_modules=off 0.00s - to python to disable frozen modules. 0.00s - Note: Debugging will proceed. Set PYDEVD_DISABLE_FILE_VALIDATION=1 to disable this validation. ========================================= warnings summary ========================================== opt/venv/lib/python3.11/site-packages/jupyter_client/connect.py:28 /opt/venv/lib/python3.11/site-packages/jupyter_client/connect.py:28: DeprecationWarning: Jupyter is migrating its paths to use standard platformdirs given by the platformdirs library. To remove this warning and see the appropriate new directories, set the environment variable `JUPYTER_PLATFORM_DIRS=1` and then run `jupyter --paths`. The use of platformdirs will be the default in `jupyter_core` v6 from jupyter_core.paths import jupyter_data_dir, jupyter_runtime_dir, secure_write -- Docs: https://docs.pytest.org/en/stable/how-to/capture-warnings.html ====================================== short test summary info ====================================== FAILED tests/test_task_12.py::test_task_12 - nbclient.exceptions.CellExecutionError: An error occurred while executing the following cell: FAILED tests/test_task_13.py::test_task_13 - nbclient.exceptions.CellExecutionError: An error occurred while executing the following cell: FAILED tests/test_task_15.py::test_task_14 - nbclient.exceptions.CellExecutionError: An error occurred while executing the following cell: FAILED tests/test_task_16.py::test_task_14 - nbclient.exceptions.CellExecutionError: An error occurred while executing the following cell: FAILED tests/test_task_3.py::test_task_3 - nbclient.exceptions.CellExecutionError: An error occurred while executing the following cell: FAILED tests/test_task_8.py::test_task_8 - nbclient.exceptions.CellExecutionError: An error occurred while executing the following cell: ======================== 6 failed, 12 passed, 1 warning in 833.32s (0:13:53) ======================== root ➜ / $
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tasks/task_13_variance_reduction/4_sphere_iterative_per_batch_ww.ipynb has been solved
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ci is now reported for each task, so this tracker issue can be closed
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with the latest docker image there are a few api changes in openmc to accommodate
The text was updated successfully, but these errors were encountered: