jkellndorfer
commented
2 years ago Thanks for raising this issue @martin-git. I just tested the notebook again on the seppoloc environment on a macos (Monterey 12.3.1) platform without issue. Maybe an issue with the OS Linux flavor. Also, have you ensured that seppoloc is installed only from the conda-forge channel? Possibly doublecheck your .condarc file to be something like
show_channel_urls: true
channel_priority: strict
channels:
- conda-forge
ssl_verify: true
martin-git
I created a conda environment using the seppoloc.yml file and now am trying to run the global coherence visualization notebook.
The ze = ZarrExplorer() cell is throwing the following error though:
`Unexpected exception formatting exception. Falling back to standard exception Traceback (most recent call last): File "/home/gritsch/anaconda3/envs/seppoloc/lib/python3.8/site-packages/IPython/core/interactiveshell.py", line 3369, in run_code exec(code_obj, self.user_global_ns, self.user_ns) File "/tmp/ipykernel_14889/2546988111.py", line 1, in <cell line: 1> ze = ZarrExplorer() File "/tmp/ipykernel_14889/4126985306.py", line 12, in init self.global_map() File "/home/gritsch/anaconda3/envs/seppoloc/lib/python3.8/site-packages/param/parameterized.py", line 400, in _depends return func(*args, *kw) File "/tmp/ipykernel_14889/4126985306.py", line 27, in global_map overlay = overlay self.withregion() File "/tmp/ipykernel_14889/4126985306.py", line 43, in withregion return hv.DynamicMap(make_point, streams=dict(x=self.stream_tap_global.param.x, y=self.stream_tap_global.param.y)) File "/home/gritsch/anaconda3/envs/seppoloc/lib/python3.8/site-packages/holoviews/core/spaces.py", line 920, in init raise TypeError(msg.format(objs = ', '.join('%r' % el for el in invalid))) TypeError: The supplied streams list contains objects that are not Stream instances: 'x', 'y'
During handling of the above exception, another exception occurred:
Traceback (most recent call last): File "/home/gritsch/anaconda3/envs/seppoloc/lib/python3.8/site-packages/IPython/core/interactiveshell.py", line 1982, in showtraceback stb = self.InteractiveTB.structured_traceback( File "/home/gritsch/anaconda3/envs/seppoloc/lib/python3.8/site-packages/IPython/core/ultratb.py", line 1118, in structured_traceback return FormattedTB.structured_traceback( File "/home/gritsch/anaconda3/envs/seppoloc/lib/python3.8/site-packages/IPython/core/ultratb.py", line 1012, in structured_traceback return VerboseTB.structured_traceback( File "/home/gritsch/anaconda3/envs/seppoloc/lib/python3.8/site-packages/IPython/core/ultratb.py", line 865, in structured_traceback formatted_exception = self.format_exception_as_a_whole(etype, evalue, etb, number_of_lines_of_context, File "/home/gritsch/anaconda3/envs/seppoloc/lib/python3.8/site-packages/IPython/core/ultratb.py", line 818, in format_exception_as_a_whole frames.append(self.format_record(r)) File "/home/gritsch/anaconda3/envs/seppoloc/lib/python3.8/site-packages/IPython/core/ultratb.py", line 736, in format_record result += ''.join(_format_traceback_lines(frame_info.lines, Colors, self.has_colors, lvals)) File "/home/gritsch/anaconda3/envs/seppoloc/lib/python3.8/site-packages/stack_data/utils.py", line 145, in cached_property_wrapper value = obj.dict[self.func.name] = self.func(obj) File "/home/gritsch/anaconda3/envs/seppoloc/lib/python3.8/site-packages/stack_data/core.py", line 698, in lines pieces = self.included_pieces File "/home/gritsch/anaconda3/envs/seppoloc/lib/python3.8/site-packages/stack_data/utils.py", line 145, in cached_property_wrapper value = obj.dict[self.func.name] = self.func(obj) File "/home/gritsch/anaconda3/envs/seppoloc/lib/python3.8/site-packages/stack_data/core.py", line 645, in included_pieces scope_pieces = self.scope_pieces File "/home/gritsch/anaconda3/envs/seppoloc/lib/python3.8/site-packages/stack_data/utils.py", line 145, in cached_property_wrapper value = obj.dict[self.func.name] = self.func(obj) File "/home/gritsch/anaconda3/envs/seppoloc/lib/python3.8/site-packages/stack_data/core.py", line 585, in scope_pieces for piece in self.source.pieces File "/home/gritsch/anaconda3/envs/seppoloc/lib/python3.8/site-packages/stack_data/utils.py", line 145, in cached_property_wrapper value = obj.dict[self.func.name] = self.func(obj) File "/home/gritsch/anaconda3/envs/seppoloc/lib/python3.8/site-packages/stack_data/core.py", line 90, in pieces return list(self._clean_pieces()) File "/home/gritsch/anaconda3/envs/seppoloc/lib/python3.8/site-packages/stack_data/core.py", line 114, in _clean_pieces raise AssertionError("Pieces mismatches: %s" % mismatches) AssertionError: Pieces mismatches: [{681, 682}, {696, 697}, {709, 710}, {715, 716}]`