[Bug]: HTML rendering of objects with links #1057
Comments
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I'm having trouble reproducing the example. When I run |
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OK, yes, it looks like you fixed this here 2 weeks ago Thanks for doing that! The message looks great. I guess I did not test with the latest pynwb dev branch. I didn't think to update pynwb to test this because I expected the solution to be in hdmf, where the rest of the plotting code lives. While your solution does indeed handle the TimeSeries problem, this issue could come up with any other type that contains links/references, so I think it is also a good idea to build some sort of general cycle detection in the HDMF base class. |
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That makes sense to make a more general solution for links/references in the hdmf class so that the solution is where the rest of the plotting code is. From what I understand, the recursion error was happening in this case specifically because in addition to the link in Maybe also related to #1043? If an object is a link, we can indicate that in the html representation and also stop any circular references. |
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OK, since the immediate issue is fixed (thanks again for this btw), let's close this and change the corresponding PR to draft mode. We can reopen if this types of thing comes up again. |
What happened?
When trying to render an HDMF (or PyNWB) object with a reference to another object, it can cause an infinite recursion error.
In the following code:
ts1renders as expected, butts2._repr_html_()andts3._repr_html_()both cause errors:ts2
--------------------------------------------------------------------------- RecursionError Traceback (most recent call last) File ~/opt/miniconda3/lib/python3.9/site-packages/IPython/core/formatters.py:344, in BaseFormatter.__call__(self, obj) 342 method = get_real_method(obj, self.print_method) 343 if method is not None: --> 344 return method() 345 return None 346 else: File ~/opt/miniconda3/lib/python3.9/site-packages/hdmf/container.py:618, in Container._repr_html_(self) 616 html_repr += "<div class='container-wrap'>" 617 html_repr += f"<div class='container-header'><div class='xr-obj-type'><h3>{header_text}</h3></div></div>" --> 618 html_repr += self._generate_html_repr(self.fields, is_field=True) 619 html_repr += "</div>" 620 return html_repr File ~/opt/miniconda3/lib/python3.9/site-packages/hdmf/container.py:632, in Container._generate_html_repr(self, fields, level, access_code, is_field) 630 html_repr += value._generate_field_html(key, value, level, current_access_code) 631 else: --> 632 html_repr += self._generate_field_html(key, value, level, current_access_code) 633 elif isinstance(fields, list): 634 for index, item in enumerate(fields): File ~/opt/miniconda3/lib/python3.9/site-packages/hdmf/container.py:663, in Container._generate_field_html(self, key, value, level, access_code) 661 html_content = self._generate_html_repr(value.fields, level + 1, access_code, is_field=True) 662 elif isinstance(value, (list, dict, np.ndarray)): --> 663 html_content = self._generate_html_repr(value, level + 1, access_code, is_field=False) 664 else: 665 html_content = f'<span class="field-key">{value}</span>' File ~/opt/miniconda3/lib/python3.9/site-packages/hdmf/container.py:636, in Container._generate_html_repr(self, fields, level, access_code, is_field) 634 for index, item in enumerate(fields): 635 access_code += f'[{index}]' --> 636 html_repr += self._generate_field_html(index, item, level, access_code) 637 elif isinstance(fields, np.ndarray): 638 html_repr += self._generate_array_html(fields, level) File ~/opt/miniconda3/lib/python3.9/site-packages/hdmf/container.py:661, in Container._generate_field_html(self, key, value, level, access_code) 658 html_content = value.__repr_html__() 660 elif hasattr(value, "fields"): --> 661 html_content = self._generate_html_repr(value.fields, level + 1, access_code, is_field=True) 662 elif isinstance(value, (list, dict, np.ndarray)): 663 html_content = self._generate_html_repr(value, level + 1, access_code, is_field=False) File ~/opt/miniconda3/lib/python3.9/site-packages/hdmf/container.py:630, in Container._generate_html_repr(self, fields, level, access_code, is_field) 628 current_access_code = f"{access_code}.{key}" if is_field else f"{access_code}['{key}']" 629 if hasattr(value, '_generate_field_html'): --> 630 html_repr += value._generate_field_html(key, value, level, current_access_code) 631 else: 632 html_repr += self._generate_field_html(key, value, level, current_access_code) File ~/opt/miniconda3/lib/python3.9/site-packages/hdmf/container.py:661, in Container._generate_field_html(self, key, value, level, access_code) 658 html_content = value.__repr_html__() 660 elif hasattr(value, "fields"): --> 661 html_content = self._generate_html_repr(value.fields, level + 1, access_code, is_field=True) 662 elif isinstance(value, (list, dict, np.ndarray)): 663 html_content = self._generate_html_repr(value, level + 1, access_code, is_field=False) File ~/opt/miniconda3/lib/python3.9/site-packages/hdmf/container.py:632, in Container._generate_html_repr(self, fields, level, access_code, is_field) 630 html_repr += value._generate_field_html(key, value, level, current_access_code) 631 else: --> 632 html_repr += self._generate_field_html(key, value, level, current_access_code) 633 elif isinstance(fields, list): 634 for index, item in enumerate(fields): File ~/opt/miniconda3/lib/python3.9/site-packages/hdmf/container.py:663, in Container._generate_field_html(self, key, value, level, access_code) 661 html_content = self._generate_html_repr(value.fields, level + 1, access_code, is_field=True) 662 elif isinstance(value, (list, dict, np.ndarray)): --> 663 html_content = self._generate_html_repr(value, level + 1, access_code, is_field=False) 664 else: 665 html_content = f'<span class="field-key">{value}</span>' File ~/opt/miniconda3/lib/python3.9/site-packages/hdmf/container.py:636, in Container._generate_html_repr(self, fields, level, access_code, is_field) 634 for index, item in enumerate(fields): 635 access_code += f'[{index}]' --> 636 html_repr += self._generate_field_html(index, item, level, access_code) 637 elif isinstance(fields, np.ndarray): 638 html_repr += self._generate_array_html(fields, level) [... skipping similar frames: Container._generate_field_html at line 661 (1 times)] File ~/opt/miniconda3/lib/python3.9/site-packages/hdmf/container.py:630, in Container._generate_html_repr(self, fields, level, access_code, is_field) 628 current_access_code = f"{access_code}.{key}" if is_field else f"{access_code}['{key}']" 629 if hasattr(value, '_generate_field_html'): --> 630 html_repr += value._generate_field_html(key, value, level, current_access_code) 631 else: 632 html_repr += self._generate_field_html(key, value, level, current_access_code) [... skipping similar frames: Container._generate_field_html at line 661 (978 times), Container._generate_field_html at line 663 (489 times), Container._generate_html_repr at line 632 (489 times), Container._generate_html_repr at line 636 (489 times), Container._generate_html_repr at line 630 (488 times)] File ~/opt/miniconda3/lib/python3.9/site-packages/hdmf/container.py:630, in Container._generate_html_repr(self, fields, level, access_code, is_field) 628 current_access_code = f"{access_code}.{key}" if is_field else f"{access_code}['{key}']" 629 if hasattr(value, '_generate_field_html'): --> 630 html_repr += value._generate_field_html(key, value, level, current_access_code) 631 else: 632 html_repr += self._generate_field_html(key, value, level, current_access_code) [... skipping similar frames: Container._generate_field_html at line 661 (1 times), Container._generate_field_html at line 663 (1 times), Container._generate_html_repr at line 632 (1 times)] File ~/opt/miniconda3/lib/python3.9/site-packages/hdmf/container.py:636, in Container._generate_html_repr(self, fields, level, access_code, is_field) 634 for index, item in enumerate(fields): 635 access_code += f'[{index}]' --> 636 html_repr += self._generate_field_html(index, item, level, access_code) 637 elif isinstance(fields, np.ndarray): 638 html_repr += self._generate_array_html(fields, level) File ~/opt/miniconda3/lib/python3.9/site-packages/hdmf/container.py:661, in Container._generate_field_html(self, key, value, level, access_code) 658 html_content = value.__repr_html__() 660 elif hasattr(value, "fields"): --> 661 html_content = self._generate_html_repr(value.fields, level + 1, access_code, is_field=True) 662 elif isinstance(value, (list, dict, np.ndarray)): 663 html_content = self._generate_html_repr(value, level + 1, access_code, is_field=False) File ~/opt/miniconda3/lib/python3.9/site-packages/hdmf/container.py:632, in Container._generate_html_repr(self, fields, level, access_code, is_field) 630 html_repr += value._generate_field_html(key, value, level, current_access_code) 631 else: --> 632 html_repr += self._generate_field_html(key, value, level, current_access_code) 633 elif isinstance(fields, list): 634 for index, item in enumerate(fields): File ~/opt/miniconda3/lib/python3.9/site-packages/hdmf/container.py:663, in Container._generate_field_html(self, key, value, level, access_code) 661 html_content = self._generate_html_repr(value.fields, level + 1, access_code, is_field=True) 662 elif isinstance(value, (list, dict, np.ndarray)): --> 663 html_content = self._generate_html_repr(value, level + 1, access_code, is_field=False) 664 else: 665 html_content = f'<span class="field-key">{value}</span>' File ~/opt/miniconda3/lib/python3.9/site-packages/hdmf/container.py:638, in Container._generate_html_repr(self, fields, level, access_code, is_field) 636 html_repr += self._generate_field_html(index, item, level, access_code) 637 elif isinstance(fields, np.ndarray): --> 638 html_repr += self._generate_array_html(fields, level) 639 else: 640 pass File ~/opt/miniconda3/lib/python3.9/site-packages/hdmf/container.py:677, in Container._generate_array_html(self, array, level) 675 def _generate_array_html(self, array, level): 676 """Generates HTML for a NumPy array.""" --> 677 str_ = str(array).replace("\n", "</br>") 678 return f'<div style="margin-left: {level * 20}px;" class="container-fields">{str_}</div>' File ~/opt/miniconda3/lib/python3.9/site-packages/numpy/core/arrayprint.py:1612, in _array_str_implementation(a, max_line_width, precision, suppress_small, array2string) 1606 if a.shape == (): 1607 # obtain a scalar and call str on it, avoiding problems for subclasses 1608 # for which indexing with () returns a 0d instead of a scalar by using 1609 # ndarray's getindex. Also guard against recursive 0d object arrays. 1610 return _guarded_repr_or_str(np.ndarray.__getitem__(a, ())) -> 1612 return array2string(a, max_line_width, precision, suppress_small, ' ', "") File ~/opt/miniconda3/lib/python3.9/site-packages/numpy/core/arrayprint.py:736, in array2string(a, max_line_width, precision, suppress_small, separator, prefix, style, formatter, threshold, edgeitems, sign, floatmode, suffix, legacy) 733 if a.size == 0: 734 return "[]" --> 736 return _array2string(a, options, separator, prefix) File ~/opt/miniconda3/lib/python3.9/site-packages/numpy/core/arrayprint.py:513, in _recursive_guard.<locals>.decorating_function.<locals>.wrapper(self, *args, **kwargs) 511 repr_running.add(key) 512 try: --> 513 return f(self, *args, **kwargs) 514 finally: 515 repr_running.discard(key) File ~/opt/miniconda3/lib/python3.9/site-packages/numpy/core/arrayprint.py:539, in _array2string(a, options, separator, prefix) 536 summary_insert = "" 538 # find the right formatting function for the array --> 539 format_function = _get_format_function(data, **options) 541 # skip over "[" 542 next_line_prefix = " " File ~/opt/miniconda3/lib/python3.9/site-packages/numpy/core/arrayprint.py:467, in _get_format_function(data, **options) 465 return formatdict['timedelta']() 466 else: --> 467 return formatdict['int']() 468 elif issubclass(dtypeobj, _nt.floating): 469 if issubclass(dtypeobj, _nt.longfloat): File ~/opt/miniconda3/lib/python3.9/site-packages/numpy/core/arrayprint.py:410, in _get_formatdict.<locals>.<lambda>() 403 def _get_formatdict(data, *, precision, floatmode, suppress, sign, legacy, 404 formatter, **kwargs): 405 # note: extra arguments in kwargs are ignored 406 407 # wrapped in lambdas to avoid taking a code path with the wrong type of data 408 formatdict = { 409 'bool': lambda: BoolFormat(data), --> 410 'int': lambda: IntegerFormat(data), 411 'float': lambda: FloatingFormat( 412 data, precision, floatmode, suppress, sign, legacy=legacy), 413 'longfloat': lambda: FloatingFormat( 414 data, precision, floatmode, suppress, sign, legacy=legacy), 415 'complexfloat': lambda: ComplexFloatingFormat( 416 data, precision, floatmode, suppress, sign, legacy=legacy), 417 'longcomplexfloat': lambda: ComplexFloatingFormat( 418 data, precision, floatmode, suppress, sign, legacy=legacy), 419 'datetime': lambda: DatetimeFormat(data, legacy=legacy), 420 'timedelta': lambda: TimedeltaFormat(data), 421 'object': lambda: _object_format, 422 'void': lambda: str_format, 423 'numpystr': lambda: repr_format} 425 # we need to wrap values in `formatter` in a lambda, so that the interface 426 # is the same as the above values. 427 def indirect(x): RecursionError: maximum recursion depth exceeded TimeSeries6 pynwb.base.TimeSeries at 0x5895946832 Fields: comments: no comments conversion: 1.0 data: [1 2 3 4] description: no description offset: 0.0 rate: 10.0 resolution: -1.0 starting_time: 0.0 starting_time_unit: seconds timestamp_link: ( TimeSeries7 <class 'pynwb.base.TimeSeries'> ) unit: voltsts3
--------------------------------------------------------------------------- RecursionError Traceback (most recent call last) File ~/opt/miniconda3/lib/python3.9/site-packages/IPython/core/formatters.py:344, in BaseFormatter.__call__(self, obj) 342 method = get_real_method(obj, self.print_method) 343 if method is not None: --> 344 return method() 345 return None 346 else: File ~/opt/miniconda3/lib/python3.9/site-packages/hdmf/container.py:618, in Container._repr_html_(self) 616 html_repr += "<div class='container-wrap'>" 617 html_repr += f"<div class='container-header'><div class='xr-obj-type'><h3>{header_text}</h3></div></div>" --> 618 html_repr += self._generate_html_repr(self.fields, is_field=True) 619 html_repr += "</div>" 620 return html_repr File ~/opt/miniconda3/lib/python3.9/site-packages/hdmf/container.py:630, in Container._generate_html_repr(self, fields, level, access_code, is_field) 628 current_access_code = f"{access_code}.{key}" if is_field else f"{access_code}['{key}']" 629 if hasattr(value, '_generate_field_html'): --> 630 html_repr += value._generate_field_html(key, value, level, current_access_code) 631 else: 632 html_repr += self._generate_field_html(key, value, level, current_access_code) File ~/opt/miniconda3/lib/python3.9/site-packages/hdmf/container.py:661, in Container._generate_field_html(self, key, value, level, access_code) 658 html_content = value.__repr_html__() 660 elif hasattr(value, "fields"): --> 661 html_content = self._generate_html_repr(value.fields, level + 1, access_code, is_field=True) 662 elif isinstance(value, (list, dict, np.ndarray)): 663 html_content = self._generate_html_repr(value, level + 1, access_code, is_field=False) File ~/opt/miniconda3/lib/python3.9/site-packages/hdmf/container.py:632, in Container._generate_html_repr(self, fields, level, access_code, is_field) 630 html_repr += value._generate_field_html(key, value, level, current_access_code) 631 else: --> 632 html_repr += self._generate_field_html(key, value, level, current_access_code) 633 elif isinstance(fields, list): 634 for index, item in enumerate(fields): File ~/opt/miniconda3/lib/python3.9/site-packages/hdmf/container.py:663, in Container._generate_field_html(self, key, value, level, access_code) 661 html_content = self._generate_html_repr(value.fields, level + 1, access_code, is_field=True) 662 elif isinstance(value, (list, dict, np.ndarray)): --> 663 html_content = self._generate_html_repr(value, level + 1, access_code, is_field=False) 664 else: 665 html_content = f'<span class="field-key">{value}</span>' File ~/opt/miniconda3/lib/python3.9/site-packages/hdmf/container.py:636, in Container._generate_html_repr(self, fields, level, access_code, is_field) 634 for index, item in enumerate(fields): 635 access_code += f'[{index}]' --> 636 html_repr += self._generate_field_html(index, item, level, access_code) 637 elif isinstance(fields, np.ndarray): 638 html_repr += self._generate_array_html(fields, level) File ~/opt/miniconda3/lib/python3.9/site-packages/hdmf/container.py:661, in Container._generate_field_html(self, key, value, level, access_code) 658 html_content = value.__repr_html__() 660 elif hasattr(value, "fields"): --> 661 html_content = self._generate_html_repr(value.fields, level + 1, access_code, is_field=True) 662 elif isinstance(value, (list, dict, np.ndarray)): 663 html_content = self._generate_html_repr(value, level + 1, access_code, is_field=False) File ~/opt/miniconda3/lib/python3.9/site-packages/hdmf/container.py:630, in Container._generate_html_repr(self, fields, level, access_code, is_field) 628 current_access_code = f"{access_code}.{key}" if is_field else f"{access_code}['{key}']" 629 if hasattr(value, '_generate_field_html'): --> 630 html_repr += value._generate_field_html(key, value, level, current_access_code) 631 else: 632 html_repr += self._generate_field_html(key, value, level, current_access_code) [... skipping similar frames: Container._generate_field_html at line 661 (1 times)] File ~/opt/miniconda3/lib/python3.9/site-packages/hdmf/container.py:632, in Container._generate_html_repr(self, fields, level, access_code, is_field) 630 html_repr += value._generate_field_html(key, value, level, current_access_code) 631 else: --> 632 html_repr += self._generate_field_html(key, value, level, current_access_code) 633 elif isinstance(fields, list): 634 for index, item in enumerate(fields): File ~/opt/miniconda3/lib/python3.9/site-packages/hdmf/container.py:663, in Container._generate_field_html(self, key, value, level, access_code) 661 html_content = self._generate_html_repr(value.fields, level + 1, access_code, is_field=True) 662 elif isinstance(value, (list, dict, np.ndarray)): --> 663 html_content = self._generate_html_repr(value, level + 1, access_code, is_field=False) 664 else: 665 html_content = f'<span class="field-key">{value}</span>' File ~/opt/miniconda3/lib/python3.9/site-packages/hdmf/container.py:636, in Container._generate_html_repr(self, fields, level, access_code, is_field) 634 for index, item in enumerate(fields): 635 access_code += f'[{index}]' --> 636 html_repr += self._generate_field_html(index, item, level, access_code) 637 elif isinstance(fields, np.ndarray): 638 html_repr += self._generate_array_html(fields, level) [... skipping similar frames: Container._generate_field_html at line 661 (978 times), Container._generate_field_html at line 663 (489 times), Container._generate_html_repr at line 630 (489 times), Container._generate_html_repr at line 632 (489 times), Container._generate_html_repr at line 636 (488 times)] File ~/opt/miniconda3/lib/python3.9/site-packages/hdmf/container.py:636, in Container._generate_html_repr(self, fields, level, access_code, is_field) 634 for index, item in enumerate(fields): 635 access_code += f'[{index}]' --> 636 html_repr += self._generate_field_html(index, item, level, access_code) 637 elif isinstance(fields, np.ndarray): 638 html_repr += self._generate_array_html(fields, level) [... skipping similar frames: Container._generate_field_html at line 661 (1 times)] File ~/opt/miniconda3/lib/python3.9/site-packages/hdmf/container.py:630, in Container._generate_html_repr(self, fields, level, access_code, is_field) 628 current_access_code = f"{access_code}.{key}" if is_field else f"{access_code}['{key}']" 629 if hasattr(value, '_generate_field_html'): --> 630 html_repr += value._generate_field_html(key, value, level, current_access_code) 631 else: 632 html_repr += self._generate_field_html(key, value, level, current_access_code) File ~/opt/miniconda3/lib/python3.9/site-packages/hdmf/container.py:661, in Container._generate_field_html(self, key, value, level, access_code) 658 html_content = value.__repr_html__() 660 elif hasattr(value, "fields"): --> 661 html_content = self._generate_html_repr(value.fields, level + 1, access_code, is_field=True) 662 elif isinstance(value, (list, dict, np.ndarray)): 663 html_content = self._generate_html_repr(value, level + 1, access_code, is_field=False) File ~/opt/miniconda3/lib/python3.9/site-packages/hdmf/container.py:632, in Container._generate_html_repr(self, fields, level, access_code, is_field) 630 html_repr += value._generate_field_html(key, value, level, current_access_code) 631 else: --> 632 html_repr += self._generate_field_html(key, value, level, current_access_code) 633 elif isinstance(fields, list): 634 for index, item in enumerate(fields): File ~/opt/miniconda3/lib/python3.9/site-packages/hdmf/container.py:663, in Container._generate_field_html(self, key, value, level, access_code) 661 html_content = self._generate_html_repr(value.fields, level + 1, access_code, is_field=True) 662 elif isinstance(value, (list, dict, np.ndarray)): --> 663 html_content = self._generate_html_repr(value, level + 1, access_code, is_field=False) 664 else: 665 html_content = f'<span class="field-key">{value}</span>' File ~/opt/miniconda3/lib/python3.9/site-packages/hdmf/container.py:638, in Container._generate_html_repr(self, fields, level, access_code, is_field) 636 html_repr += self._generate_field_html(index, item, level, access_code) 637 elif isinstance(fields, np.ndarray): --> 638 html_repr += self._generate_array_html(fields, level) 639 else: 640 pass File ~/opt/miniconda3/lib/python3.9/site-packages/hdmf/container.py:677, in Container._generate_array_html(self, array, level) 675 def _generate_array_html(self, array, level): 676 """Generates HTML for a NumPy array.""" --> 677 str_ = str(array).replace("\n", "</br>") 678 return f'<div style="margin-left: {level * 20}px;" class="container-fields">{str_}</div>' File ~/opt/miniconda3/lib/python3.9/site-packages/numpy/core/arrayprint.py:1612, in _array_str_implementation(a, max_line_width, precision, suppress_small, array2string) 1606 if a.shape == (): 1607 # obtain a scalar and call str on it, avoiding problems for subclasses 1608 # for which indexing with () returns a 0d instead of a scalar by using 1609 # ndarray's getindex. Also guard against recursive 0d object arrays. 1610 return _guarded_repr_or_str(np.ndarray.__getitem__(a, ())) -> 1612 return array2string(a, max_line_width, precision, suppress_small, ' ', "") File ~/opt/miniconda3/lib/python3.9/site-packages/numpy/core/arrayprint.py:736, in array2string(a, max_line_width, precision, suppress_small, separator, prefix, style, formatter, threshold, edgeitems, sign, floatmode, suffix, legacy) 733 if a.size == 0: 734 return "[]" --> 736 return _array2string(a, options, separator, prefix) File ~/opt/miniconda3/lib/python3.9/site-packages/numpy/core/arrayprint.py:513, in _recursive_guard.<locals>.decorating_function.<locals>.wrapper(self, *args, **kwargs) 511 repr_running.add(key) 512 try: --> 513 return f(self, *args, **kwargs) 514 finally: 515 repr_running.discard(key) File ~/opt/miniconda3/lib/python3.9/site-packages/numpy/core/arrayprint.py:539, in _array2string(a, options, separator, prefix) 536 summary_insert = "" 538 # find the right formatting function for the array --> 539 format_function = _get_format_function(data, **options) 541 # skip over "[" 542 next_line_prefix = " " File ~/opt/miniconda3/lib/python3.9/site-packages/numpy/core/arrayprint.py:467, in _get_format_function(data, **options) 465 return formatdict['timedelta']() 466 else: --> 467 return formatdict['int']() 468 elif issubclass(dtypeobj, _nt.floating): 469 if issubclass(dtypeobj, _nt.longfloat): File ~/opt/miniconda3/lib/python3.9/site-packages/numpy/core/arrayprint.py:410, in _get_formatdict.<locals>.<lambda>() 403 def _get_formatdict(data, *, precision, floatmode, suppress, sign, legacy, 404 formatter, **kwargs): 405 # note: extra arguments in kwargs are ignored 406 407 # wrapped in lambdas to avoid taking a code path with the wrong type of data 408 formatdict = { 409 'bool': lambda: BoolFormat(data), --> 410 'int': lambda: IntegerFormat(data), 411 'float': lambda: FloatingFormat( 412 data, precision, floatmode, suppress, sign, legacy=legacy), 413 'longfloat': lambda: FloatingFormat( 414 data, precision, floatmode, suppress, sign, legacy=legacy), 415 'complexfloat': lambda: ComplexFloatingFormat( 416 data, precision, floatmode, suppress, sign, legacy=legacy), 417 'longcomplexfloat': lambda: ComplexFloatingFormat( 418 data, precision, floatmode, suppress, sign, legacy=legacy), 419 'datetime': lambda: DatetimeFormat(data, legacy=legacy), 420 'timedelta': lambda: TimedeltaFormat(data), 421 'object': lambda: _object_format, 422 'void': lambda: str_format, 423 'numpystr': lambda: repr_format} 425 # we need to wrap values in `formatter` in a lambda, so that the interface 426 # is the same as the above values. 427 def indirect(x): File ~/opt/miniconda3/lib/python3.9/site-packages/numpy/core/arrayprint.py:1225, in IntegerFormat.__init__(self, data) 1223 def __init__(self, data): 1224 if data.size > 0: -> 1225 max_str_len = max(len(str(np.max(data))), 1226 len(str(np.min(data)))) 1227 else: 1228 max_str_len = 0 File ~/opt/miniconda3/lib/python3.9/site-packages/numpy/core/fromnumeric.py:2810, in max(a, axis, out, keepdims, initial, where) 2692 @array_function_dispatch(_max_dispatcher) 2693 @set_module('numpy') 2694 def max(a, axis=None, out=None, keepdims=np._NoValue, initial=np._NoValue, 2695 where=np._NoValue): 2696 """ 2697 Return the maximum of an array or maximum along an axis. 2698 (...) 2808 5 2809 """ -> 2810 return _wrapreduction(a, np.maximum, 'max', axis, None, out, 2811 keepdims=keepdims, initial=initial, where=where) RecursionError: maximum recursion depth exceeded in comparison TimeSeries7 pynwb.base.TimeSeries at 0x5864063040 Fields: comments: no comments conversion: 1.0 data: [1 2 3 4] description: no description interval: 1 offset: 0.0 resolution: -1.0 timestamps: TimeSeries6 pynwb.base.TimeSeries at 0x5895946832 Fields: comments: no comments conversion: 1.0 data: [1 2 3 4] description: no description offset: 0.0 rate: 10.0 resolution: -1.0 starting_time: 0.0 starting_time_unit: seconds timestamp_link: ( TimeSeries7 <class 'pynwb.base.TimeSeries'> ) unit: volts timestamps_unit: seconds unit: voltsSteps to Reproduce
Traceback
No response
Operating System
macOS
Python Executable
Conda
Python Version
3.12
Package Versions
No response
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