[NbConvertApp] Converting notebook ScintillationProbes_MT.ipynb to html 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. Traceback (most recent call last): File "/opt/anaconda3/envs/tunklScintHiRes/bin/jupyter-nbconvert", line 11, in sys.exit(main()) ^^^^^^ File "/opt/anaconda3/envs/tunklScintHiRes/lib/python3.11/site-packages/jupyter_core/application.py", line 280, in launch_instance super().launch_instance(argv=argv, **kwargs) File "/opt/anaconda3/envs/tunklScintHiRes/lib/python3.11/site-packages/traitlets/config/application.py", line 992, in launch_instance app.start() File "/opt/anaconda3/envs/tunklScintHiRes/lib/python3.11/site-packages/nbconvert/nbconvertapp.py", line 412, in start self.convert_notebooks() File "/opt/anaconda3/envs/tunklScintHiRes/lib/python3.11/site-packages/nbconvert/nbconvertapp.py", line 590, in convert_notebooks self.convert_single_notebook(notebook_filename) File "/opt/anaconda3/envs/tunklScintHiRes/lib/python3.11/site-packages/nbconvert/nbconvertapp.py", line 556, in convert_single_notebook output, resources = self.export_single_notebook( ^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File "/opt/anaconda3/envs/tunklScintHiRes/lib/python3.11/site-packages/nbconvert/nbconvertapp.py", line 479, in export_single_notebook output, resources = self.exporter.from_filename( ^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File "/opt/anaconda3/envs/tunklScintHiRes/lib/python3.11/site-packages/nbconvert/exporters/templateexporter.py", line 389, in from_filename return super().from_filename(filename, resources, **kw) # type:ignore[return-value] ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File "/opt/anaconda3/envs/tunklScintHiRes/lib/python3.11/site-packages/nbconvert/exporters/exporter.py", line 203, in from_filename return self.from_file(f, resources=resources, **kw) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File "/opt/anaconda3/envs/tunklScintHiRes/lib/python3.11/site-packages/nbconvert/exporters/templateexporter.py", line 395, in from_file return super().from_file(file_stream, resources, **kw) # type:ignore[return-value] ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File "/opt/anaconda3/envs/tunklScintHiRes/lib/python3.11/site-packages/nbconvert/exporters/exporter.py", line 222, in from_file return self.from_notebook_node( ^^^^^^^^^^^^^^^^^^^^^^^^ File "/opt/anaconda3/envs/tunklScintHiRes/lib/python3.11/site-packages/nbconvert/exporters/html.py", line 260, in from_notebook_node html, resources = super().from_notebook_node(nb, resources, **kw) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File "/opt/anaconda3/envs/tunklScintHiRes/lib/python3.11/site-packages/nbconvert/exporters/templateexporter.py", line 411, in from_notebook_node nb_copy, resources = super().from_notebook_node(nb, resources, **kw) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File "/opt/anaconda3/envs/tunklScintHiRes/lib/python3.11/site-packages/nbconvert/exporters/exporter.py", line 156, in from_notebook_node nb_copy, resources = self._preprocess(nb_copy, resources) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File "/opt/anaconda3/envs/tunklScintHiRes/lib/python3.11/site-packages/nbconvert/exporters/exporter.py", line 354, in _preprocess nbc, resc = preprocessor(nbc, resc) # type:ignore[operator] ^^^^^^^^^^^^^^^^^^^^^^^ File "/opt/anaconda3/envs/tunklScintHiRes/lib/python3.11/site-packages/nbconvert/preprocessors/base.py", line 48, in __call__ return self.preprocess(nb, resources) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File "/opt/anaconda3/envs/tunklScintHiRes/lib/python3.11/site-packages/nbconvert/preprocessors/execute.py", line 102, in preprocess self.preprocess_cell(cell, resources, index) File "/opt/anaconda3/envs/tunklScintHiRes/lib/python3.11/site-packages/nbconvert/preprocessors/execute.py", line 123, in preprocess_cell cell = self.execute_cell(cell, index, store_history=True) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File "/opt/anaconda3/envs/tunklScintHiRes/lib/python3.11/site-packages/jupyter_core/utils/__init__.py", line 173, in wrapped return loop.run_until_complete(inner) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File "/opt/anaconda3/envs/tunklScintHiRes/lib/python3.11/asyncio/base_events.py", line 653, in run_until_complete return future.result() ^^^^^^^^^^^^^^^ File "/opt/anaconda3/envs/tunklScintHiRes/lib/python3.11/site-packages/nbclient/client.py", line 1058, in async_execute_cell await self._check_raise_for_error(cell, cell_index, exec_reply) File "/opt/anaconda3/envs/tunklScintHiRes/lib/python3.11/site-packages/nbclient/client.py", line 914, in _check_raise_for_error raise CellExecutionError.from_cell_and_msg(cell, exec_reply_content) nbclient.exceptions.CellExecutionError: An error occurred while executing the following cell: ------------------ ip_url = f'http://golem.fjfi.cvut.cz/shots/{shot_no}/Diagnostics/BasicDiagnostics/Results/Ip.csv' ip = ds.open(ip_url) ip = np.loadtxt(ip,delimiter=',') ------------------ --------------------------------------------------------------------------- PermissionError Traceback (most recent call last) Cell In[17], line 2  1 ip_url = f'http://golem.fjfi.cvut.cz/shots/{shot_no}/Diagnostics/BasicDiagnostics/Results/Ip.csv' ----> 2 ip = ds.open(ip_url)  3 ip = np.loadtxt(ip,delimiter=',') File /opt/anaconda3/envs/tunklScintHiRes/lib/python3.11/site-packages/numpy/lib/_datasource.py:525, in DataSource.open(self, path, mode, encoding, newline)  522 raise ValueError("URLs are not writeable")  524 # NOTE: _findfile will fail on a new file opened for writing. --> 525 found = self._findfile(path)  526 if found:  527 _fname, ext = self._splitzipext(found) File /opt/anaconda3/envs/tunklScintHiRes/lib/python3.11/site-packages/numpy/lib/_datasource.py:371, in DataSource._findfile(self, path)  369 if self.exists(name):  370 if self._isurl(name): --> 371 name = self._cache(name)  372 return name  373 return None File /opt/anaconda3/envs/tunklScintHiRes/lib/python3.11/site-packages/numpy/lib/_datasource.py:333, in DataSource._cache(self, path)  331 # ensure directory exists  332 if not os.path.exists(os.path.dirname(upath)): --> 333 os.makedirs(os.path.dirname(upath))  335 # TODO: Doesn't handle compressed files!  336 if self._isurl(path): File :215, in makedirs(name, mode, exist_ok) File :215, in makedirs(name, mode, exist_ok) [... skipping similar frames: makedirs at line 215 (7 times)] File :215, in makedirs(name, mode, exist_ok) File :225, in makedirs(name, mode, exist_ok) PermissionError: [Errno 13] Permission denied: '/home/marek' ERROR conda.cli.main_run:execute(49): `conda run jupyter-nbconvert --ExecutePreprocessor.timeout=60 --to html --execute ScintillationProbes_MT.ipynb --output analysis.html` failed. (See above for error)