handline timeouts

[lheagy]

When trying to create the release of an assignment with a few cells that take a long time to run, I encountered the following

File "/opt/conda/lib/python3.10/site-packages/nbgrader/preprocessors/instantiatetests.py", line 582, in _async_poll_for_reply_code
        shell_msg = await self._ensure_async(self.kc.shell_channel.get_msg(timeout=new_timeout))
      File "/opt/conda/lib/python3.10/site-packages/nbgrader/preprocessors/instantiatetests.py", line 475, in _ensure_async
        result = await obj
      File "/opt/conda/lib/python3.10/site-packages/jupyter_client/channels.py", line 230, in get_msg
        raise Empty
    _queue.Empty
    
    During handling of the above exception, another exception occurred:
    
    Traceback (most recent call last):
      File "/opt/conda/lib/python3.10/site-packages/nbgrader/converters/base.py", line 390, in convert_notebooks
        self.convert_single_notebook(notebook_filename)
      File "/opt/conda/lib/python3.10/site-packages/nbgrader/converters/base.py", line 344, in convert_single_notebook
        output, resources = self.exporter.from_filename(notebook_filename, resources=resources)
      File "/opt/conda/lib/python3.10/site-packages/nbconvert/exporters/exporter.py", line 190, in from_filename
        return self.from_file(f, resources=resources, **kw)
      File "/opt/conda/lib/python3.10/site-packages/nbconvert/exporters/exporter.py", line 207, in from_file
        return self.from_notebook_node(
      File "/opt/conda/lib/python3.10/site-packages/nbconvert/exporters/notebook.py", line 35, in from_notebook_node
        nb_copy, resources = super().from_notebook_node(nb, resources, **kw)
      File "/opt/conda/lib/python3.10/site-packages/nbconvert/exporters/exporter.py", line 147, in from_notebook_node
        nb_copy, resources = self._preprocess(nb_copy, resources)
      File "/opt/conda/lib/python3.10/site-packages/nbconvert/exporters/exporter.py", line 342, in _preprocess
        nbc, resc = preprocessor(nbc, resc)
      File "/opt/conda/lib/python3.10/site-packages/nbconvert/preprocessors/base.py", line 47, in __call__
        return self.preprocess(nb, resources)
      File "/opt/conda/lib/python3.10/site-packages/nbgrader/preprocessors/instantiatetests.py", line 180, in preprocess
        nb, resources = super(InstantiateTests, self).preprocess(nb, resources)
      File "/opt/conda/lib/python3.10/site-packages/nbconvert/preprocessors/execute.py", line 91, in preprocess
        self.preprocess_cell(cell, resources, index)
      File "/opt/conda/lib/python3.10/site-packages/nbgrader/preprocessors/instantiatetests.py", line 322, in preprocess_cell
        asyncio.run(self._async_execute_code_snippet("\n".join(non_autotest_code_lines)))
      File "/opt/conda/lib/python3.10/site-packages/nest_asyncio.py", line 35, in run
        return loop.run_until_complete(task)
      File "/opt/conda/lib/python3.10/site-packages/nest_asyncio.py", line 90, in run_until_complete
        return f.result()
      File "/opt/conda/lib/python3.10/asyncio/futures.py", line 201, in result
        raise self._exception.with_traceback(self._exception_tb)
      File "/opt/conda/lib/python3.10/asyncio/tasks.py", line 234, in __step
        result = coro.throw(exc)
      File "/opt/conda/lib/python3.10/site-packages/nbgrader/preprocessors/instantiatetests.py", line 618, in _async_execute_code_snippet
        msg = await task_poll_for_reply
      File "/opt/conda/lib/python3.10/asyncio/futures.py", line 285, in __await__
        yield self  # This tells Task to wait for completion.
      File "/opt/conda/lib/python3.10/asyncio/tasks.py", line 304, in __wakeup
        future.result()
      File "/opt/conda/lib/python3.10/asyncio/futures.py", line 201, in result
        raise self._exception.with_traceback(self._exception_tb)
      File "/opt/conda/lib/python3.10/asyncio/tasks.py", line 232, in __step
        result = coro.send(None)
      File "/opt/conda/lib/python3.10/site-packages/nbgrader/preprocessors/instantiatetests.py", line 599, in _async_poll_for_reply_code
        await self._async_handle_timeout()
    TypeError: InstantiateTests._async_handle_timeout() missing 1 required positional argument: 'timeout'

For an example, the DSCI 100 py_worksheet_inference1 will fail when sample sizes are set to 1500 (https://github.ubc.ca/UBC-DSCI/dsci-100-instructor/issues/763)