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just got this by running an MDA without having loaded a system config. In should fail more gracefully:
File ~/dev/self/napari-micromanager/.venv/lib/python3.12/site-packages/superqt/utils/_ensure_thread.py:179, in _run_in_thread(func=<function _NapariMDAHandler._on_mda_started>, thread=<PyQt6.QtCore.QThread object>, await_return=False, timeout=1000, args=(<napari_micromanager._mda_handler._NapariMDAHandler object>, MDASequence(metadata={'pymmcore_widgets': {'vers...False, interval=datetime.timedelta(0), loops=10))), kwargs={}) 177 future = Future() # type: ignore 178 if thread is QThread.currentThread(): --> 179 result = func(*args, **kwargs) func = <function _NapariMDAHandler._on_mda_started at 0x1400980e0> args = (<napari_micromanager._mda_handler._NapariMDAHandler object at 0x151cb8e90>, MDASequence(metadata={'pymmcore_widgets': {'version': '0.7.2'}, 'napari_micromanager': {'split_channels': False}}, axis_order=('t', 'p', 'c'), stage_positions=(Position(x=None, y=None, z=None, name=None, sequence=None),), channels=(Channel(config='', group='Channel', exposure=100.0, do_stack=True, z_offset=0.0, acquire_every=1, camera=None),), time_plan=TIntervalLoops(prioritize_duration=False, interval=datetime.timedelta(0), loops=10))) kwargs = {} 180 if not await_return: 181 future.set_result(result) File ~/dev/self/napari-micromanager/src/napari_micromanager/_mda_handler.py:103, in _NapariMDAHandler._on_mda_started(self=<napari_micromanager._mda_handler._NapariMDAHandler object>, sequence=MDASequence(metadata={'pymmcore_widgets': {'vers...False, interval=datetime.timedelta(0), loops=10))) 101 dtype = f"u{self._mmc.getBytesPerPixel()}" 102 # create the zarr array and add it to the viewer --> 103 z = zarr.open( tmp = <TemporaryDirectory '/var/folders/30/fpzwkh4103s6xj67y2k0q4pr0000gn/T/tmpl4t9gdfy'> str(tmp.name) = '/var/folders/30/fpzwkh4103s6xj67y2k0q4pr0000gn/T/tmpl4t9gdfy' tmp.name = '/var/folders/30/fpzwkh4103s6xj67y2k0q4pr0000gn/T/tmpl4t9gdfy' yx_shape = [0, 0] shape = [10, 1, 1] shape + yx_shape = [10, 1, 1, 0, 0] dtype = 'u0' tuple([1] * len(shape) + yx_shape) = (1, 1, 1, 0, 0) [1] * len(shape) + yx_shape = [1, 1, 1, 0, 0] [1] * len(shape) = [1, 1, 1] len(shape) = 3 104 str(tmp.name), 105 shape=shape + yx_shape, 106 dtype=dtype, 107 chunks=tuple([1] * len(shape) + yx_shape), # VERY IMPORTANT FOR SPEED! 108 ) 109 # get filename from MDASequence metadata 110 fname = _get_file_name_from_metadata(sequence) File ~/dev/self/napari-micromanager/.venv/lib/python3.12/site-packages/zarr/convenience.py:127, in open(store='/var/folders/30/fpzwkh4103s6xj67y2k0q4pr0000gn/T/tmpl4t9gdfy', mode='a', zarr_version=None, path='', **kwargs={'chunks': (1, 1, 1, 0, 0), 'dtype': 'u0', 'path': '', 'shape': [10, 1, 1, 0, 0]}) 125 elif mode == "a": 126 if "shape" in kwargs or contains_array(_store, path): --> 127 return open_array(_store, mode=mode, **kwargs) _store = <zarr.storage.DirectoryStore object at 0x308069370> kwargs = {'shape': [10, 1, 1, 0, 0], 'dtype': 'u0', 'chunks': (1, 1, 1, 0, 0), 'path': ''} mode = 'a' 128 else: 129 return open_group(_store, mode=mode, **kwargs) File ~/dev/self/napari-micromanager/.venv/lib/python3.12/site-packages/zarr/creation.py:618, in open_array(store=<zarr.storage.DirectoryStore object>, mode='a', shape=[10, 1, 1, 0, 0], chunks=(1, 1, 1, 0, 0), dtype='u0', compressor='default', fill_value=0, order='C', synchronizer=None, filters=None, cache_metadata=True, cache_attrs=True, path='', object_codec=None, chunk_store=None, storage_options=None, partial_decompress=False, write_empty_chunks=True, zarr_version=2, dimension_separator=None, meta_array=None, **kwargs={}) 616 # ensure fill_value of correct type 617 if fill_value is not None: --> 618 fill_value = np.array(fill_value, dtype=dtype)[()] fill_value = 0 np = <module 'numpy' from '/Users/talley/dev/self/napari-micromanager/.venv/lib/python3.12/site-packages/numpy/__init__.py'> dtype = 'u0' 620 # ensure store is initialized 622 if mode in ["r", "r+"]: TypeError: data type 'u0' not understood
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just got this by running an MDA without having loaded a system config. In should fail more gracefully:
The text was updated successfully, but these errors were encountered: