this line here can lead to a possible error local variable 'contrastLimits' referenced before assignment depending on the dtype

https://github.com/CBI-PITT/napari-imaris-loader/blob/fccb04f4dafda8e3f16a38150db88faaa5597fc6/napari_imaris_loader/reader.py#L106

Dear,

I installed your plugin on a freshly napari installed and got an error while opening an ims file:

---------------------------------------------------------------------------
IndexError                                Traceback (most recent call last)
c:\gbw_myprograms\anaconda3\envs\napari-env2\lib\site-packages\napari\_qt\qt_viewer.py in _open_files_dialog(self=)
    636 
    637         if (filenames != []) and (filenames is not None):
--> 638             self.viewer.open(filenames)
        self.viewer.open = ), dims=Dims(ndim=2, ndisplay=2, last_used=0, range=((0, 2, 1), (0, 2, 1)), current_step=(0, 0), order=(0, 1), axis_labels=('0', '1')), grid=GridCanvas(stride=1, shape=(-1, -1), enabled=False), layers=[], scale_bar=ScaleBar(visible=False, colored=False, ticks=True, position=, font_size=10.0, unit=None), text_overlay=TextOverlay(visible=False, color= (4,) float64, font_size=10.0, position=, text=''), help='', status='Ready', tooltip=Tooltip(visible=False, text=''), theme='dark', title='napari', mouse_move_callbacks=[], mouse_drag_callbacks=[], mouse_double_click_callbacks=[], mouse_wheel_callbacks=[], _persisted_mouse_event={}, _mouse_drag_gen={}, _mouse_wheel_gen={}, keymap={'Control-Shift-C': >})>
        filenames = ['C:/Users/u0094799/Desktop/2021_11_Imaging_workshop_Leuven/Napari/large_2d/CD1.1_15_1001_2.ims']
    639             update_open_history(filenames[0])
    640 

c:\gbw_myprograms\anaconda3\envs\napari-env2\lib\site-packages\napari\components\viewer_model.py in open(self=Viewer(axes=Axes(visible=False, labels=True, col..._viewer.QtViewer object at 0x000002645B31D8B0>>}), path=['C:/Users/u0094799/Desktop/2021_11_Imaging_workshop_Leuven/Napari/large_2d/CD1.1_15_1001_2.ims'], stack=False, plugin=None, layer_type=None, **kwargs={})
    883             for _path in pbr:
    884                 added.extend(
--> 885                     self._add_layers_with_plugins(
        self._add_layers_with_plugins = ), dims=Dims(ndim=2, ndisplay=2, last_used=0, range=((0, 2, 1), (0, 2, 1)), current_step=(0, 0), order=(0, 1), axis_labels=('0', '1')), grid=GridCanvas(stride=1, shape=(-1, -1), enabled=False), layers=[], scale_bar=ScaleBar(visible=False, colored=False, ticks=True, position=, font_size=10.0, unit=None), text_overlay=TextOverlay(visible=False, color= (4,) float64, font_size=10.0, position=, text=''), help='', status='Ready', tooltip=Tooltip(visible=False, text=''), theme='dark', title='napari', mouse_move_callbacks=[], mouse_drag_callbacks=[], mouse_double_click_callbacks=[], mouse_wheel_callbacks=[], _persisted_mouse_event={}, _mouse_drag_gen={}, _mouse_wheel_gen={}, keymap={'Control-Shift-C': >})>
        _path = 'C:/Users/u0094799/Desktop/2021_11_Imaging_workshop_Leuven/Napari/large_2d/CD1.1_15_1001_2.ims'
        kwargs = {}
        plugin = None
        layer_type = None
    886                         _path, kwargs, plugin=plugin, layer_type=layer_type
    887                     )

c:\gbw_myprograms\anaconda3\envs\napari-env2\lib\site-packages\napari\components\viewer_model.py in _add_layers_with_plugins(self=Viewer(axes=Axes(visible=False, labels=True, col..._viewer.QtViewer object at 0x000002645B31D8B0>>}), path_or_paths='C:/Users/u0094799/Desktop/2021_11_Imaging_workshop_Leuven/Napari/large_2d/CD1.1_15_1001_2.ims', kwargs={}, plugin='napari-imaris-loader', layer_type=None)
    956             # actually add the layer
    957             with layer_source(path=filename, reader_plugin=plugin):
--> 958                 added.extend(self._add_layer_from_data(*_data))
        added.extend = 
        self._add_layer_from_data = ), dims=Dims(ndim=2, ndisplay=2, last_used=0, range=((0, 2, 1), (0, 2, 1)), current_step=(0, 0), order=(0, 1), axis_labels=('0', '1')), grid=GridCanvas(stride=1, shape=(-1, -1), enabled=False), layers=[], scale_bar=ScaleBar(visible=False, colored=False, ticks=True, position=, font_size=10.0, unit=None), text_overlay=TextOverlay(visible=False, color= (4,) float64, font_size=10.0, position=, text=''), help='', status='Ready', tooltip=Tooltip(visible=False, text=''), theme='dark', title='napari', mouse_move_callbacks=[], mouse_drag_callbacks=[], mouse_double_click_callbacks=[], mouse_wheel_callbacks=[], _persisted_mouse_event={}, _mouse_drag_gen={}, _mouse_wheel_gen={}, keymap={'Control-Shift-C': >})>
        _data = ([dask.array, dask.array, dask.array, dask.array], {'scale': [(2.0, 0.311, 0.311), (2.0, 0.311, 0.311), (2.0, 0.311, 0.311), (2.0, 0.311, 0.311), (2.0, 0.311, 0.311), (2.0, 0.311, 0.311)], 'contrast_limits': [0, 65534], 'name': ['Channel 0', 'Channel 1', 'Channel 2', 'Channel 3', 'Channel 4', 'Channel 5'], 'metadata': {'fileName': 'C:\\Users\\u0094799\\Desktop\\2021_11_Imaging_workshop_Leuven\\Napari\\large_2d\\CD1.1_15_1001_2.ims', 'resolutionLevels': 4}, 'channel_axis': 0, 'multiscale': True}, 'image')
    959         return added
    960 

c:\gbw_myprograms\anaconda3\envs\napari-env2\lib\site-packages\napari\components\viewer_model.py in _add_layer_from_data(self=Viewer(axes=Axes(visible=False, labels=True, col..._viewer.QtViewer object at 0x000002645B31D8B0>>}), data=[dask.array, dask.array, dask.array, dask.array], meta={'channel_axis': 0, 'contrast_limits': [0, 65534], 'metadata': {'fileName': r'C:\Users\u0094799\Desktop\2021_11_Imaging_workshop_Leuven\Napari\large_2d\CD1.1_15_1001_2.ims', 'resolutionLevels': 4}, 'multiscale': True, 'name': ['Channel 0', 'Channel 1', 'Channel 2', 'Channel 3', 'Channel 4', 'Channel 5'], 'scale': [(2.0, 0.311, 0.311), (2.0, 0.311, 0.311), (2.0, 0.311, 0.311), (2.0, 0.311, 0.311), (2.0, 0.311, 0.311), (2.0, 0.311, 0.311)]}, layer_type='image')
   1030         try:
   1031             add_method = getattr(self, 'add_' + layer_type)
-> 1032             layer = add_method(data, **(meta or {}))
        layer = undefined
        add_method = ), dims=Dims(ndim=2, ndisplay=2, last_used=0, range=((0, 2, 1), (0, 2, 1)), current_step=(0, 0), order=(0, 1), axis_labels=('0', '1')), grid=GridCanvas(stride=1, shape=(-1, -1), enabled=False), layers=[], scale_bar=ScaleBar(visible=False, colored=False, ticks=True, position=, font_size=10.0, unit=None), text_overlay=TextOverlay(visible=False, color= (4,) float64, font_size=10.0, position=, text=''), help='', status='Ready', tooltip=Tooltip(visible=False, text=''), theme='dark', title='napari', mouse_move_callbacks=[], mouse_drag_callbacks=[], mouse_double_click_callbacks=[], mouse_wheel_callbacks=[], _persisted_mouse_event={}, _mouse_drag_gen={}, _mouse_wheel_gen={}, keymap={'Control-Shift-C': >})>
        data = [dask.array, dask.array, dask.array, dask.array]
        meta = {'scale': [(2.0, 0.311, 0.311), (2.0, 0.311, 0.311), (2.0, 0.311, 0.311), (2.0, 0.311, 0.311), (2.0, 0.311, 0.311), (2.0, 0.311, 0.311)], 'contrast_limits': [0, 65534], 'name': ['Channel 0', 'Channel 1', 'Channel 2', 'Channel 3', 'Channel 4', 'Channel 5'], 'metadata': {'fileName': 'C:\\Users\\u0094799\\Desktop\\2021_11_Imaging_workshop_Leuven\\Napari\\large_2d\\CD1.1_15_1001_2.ims', 'resolutionLevels': 4}, 'channel_axis': 0, 'multiscale': True}
   1033         except TypeError as exc:
   1034             if 'unexpected keyword argument' not in str(exc):

c:\gbw_myprograms\anaconda3\envs\napari-env2\lib\site-packages\napari\components\viewer_model.py in add_image(self=Viewer(axes=Axes(visible=False, labels=True, col..._viewer.QtViewer object at 0x000002645B31D8B0>>}), data=[dask.array, dask.array, dask.array, dask.array], channel_axis=0, rgb=None, colormap=None, contrast_limits=[0, 65534], gamma=1, interpolation='nearest', rendering='mip', iso_threshold=0.5, attenuation=0.05, name=['Channel 0', 'Channel 1', 'Channel 2', 'Channel 3', 'Channel 4', 'Channel 5'], metadata={'fileName': r'C:\Users\u0094799\Desktop\2021_11_Imaging_workshop_Leuven\Napari\large_2d\CD1.1_15_1001_2.ims', 'resolutionLevels': 4}, scale=[(2.0, 0.311, 0.311), (2.0, 0.311, 0.311), (2.0, 0.311, 0.311), (2.0, 0.311, 0.311), (2.0, 0.311, 0.311), (2.0, 0.311, 0.311)], translate=None, rotate=None, shear=None, affine=None, opacity=1, blending=None, visible=True, multiscale=True, cache=True, experimental_slicing_plane=None, experimental_clipping_planes=None)
    723             layer_list = list()
    724             for image, i_kwargs, _ in layerdata_list:
--> 725                 layer = Image(image, **i_kwargs)
        layer = undefined
        global Image = 
        image = [dask.array, dask.array, dask.array, dask.array]
        i_kwargs = {'rgb': None, 'colormap': 'cyan', 'contrast_limits': [0, 65534], 'gamma': 1, 'interpolation': 'nearest', 'rendering': 'mip', 'iso_threshold': 0.5, 'attenuation': 0.05, 'name': 'Channel 0', 'metadata': {'fileName': 'C:\\Users\\u0094799\\Desktop\\2021_11_Imaging_workshop_Leuven\\Napari\\large_2d\\CD1.1_15_1001_2.ims', 'resolutionLevels': 4}, 'scale': (2.0, 0.311, 0.311), 'translate': None, 'rotate': None, 'shear': None, 'affine': None, 'opacity': 1, 'blending': 'additive', 'visible': True, 'multiscale': True, 'cache': True, 'experimental_slicing_plane': None, 'experimental_clipping_planes': None}
    726                 self.layers.append(layer)
    727                 layer_list.append(layer)

c:\gbw_myprograms\anaconda3\envs\napari-env2\lib\site-packages\napari\layers\image\image.py in __init__(self=, data=[dask.array, dask.array, dask.array, dask.array], rgb=False, colormap='cyan', contrast_limits=[0, 65534], gamma=1, interpolation='nearest', rendering='mip', iso_threshold=0.5, attenuation=0.05, name='Channel 0', metadata={'fileName': r'C:\Users\u0094799\Desktop\2021_11_Imaging_workshop_Leuven\Napari\large_2d\CD1.1_15_1001_2.ims', 'resolutionLevels': 4}, scale=(2.0, 0.311, 0.311), translate=None, rotate=None, shear=None, affine=None, opacity=1, blending='additive', visible=True, multiscale=True, cache=True, experimental_slicing_plane=None, experimental_clipping_planes=None)
    330 
    331         # Trigger generation of view slice and thumbnail
--> 332         self._update_dims()
        self._update_dims = >
    333 
    334     def _new_empty_slice(self):

c:\gbw_myprograms\anaconda3\envs\napari-env2\lib\site-packages\napari\layers\base\base.py in _update_dims(self=, event=None)
    639         self._ndim = ndim
    640 
--> 641         self.refresh()
        self.refresh = >
    642 
    643     @property

c:\gbw_myprograms\anaconda3\envs\napari-env2\lib\site-packages\napari\layers\base\base.py in refresh(self=, event=None)
   1107         """Refresh all layer data based on current view slice."""
   1108         if self.visible:
-> 1109             self.set_view_slice()
        self.set_view_slice = >
   1110             self.events.set_data()
   1111             self._update_thumbnail()

c:\gbw_myprograms\anaconda3\envs\napari-env2\lib\site-packages\napari\layers\base\base.py in set_view_slice(self=)
    900     def set_view_slice(self):
    901         with self.dask_optimized_slicing():
--> 902             self._set_view_slice()
        self._set_view_slice = >
    903 
    904     @abstractmethod

c:\gbw_myprograms\anaconda3\envs\napari-env2\lib\site-packages\napari\layers\image\image.py in _set_view_slice(self=)
    698             self, image_indices, image, thumbnail_source
    699         )
--> 700         self._load_slice(data)
        self._load_slice = >
        data = 
    701         if self._keep_autoscale or self._should_calc_clims:
    702             self.reset_contrast_limits()

c:\gbw_myprograms\anaconda3\envs\napari-env2\lib\site-packages\napari\layers\image\image.py in _load_slice(self=, data=)
    719         data : Slice
    720         """
--> 721         if self._slice.load(data):
        self._slice.load = >
        data = 
    722             # The load was synchronous.
    723             self._on_data_loaded(data, sync=True)

c:\gbw_myprograms\anaconda3\envs\napari-env2\lib\site-packages\napari\layers\image\_image_slice.py in load(self=, data=)
    121         """
    122         self.loaded = False  # False until self._on_loaded is calls
--> 123         return self.loader.load(data)
        self.loader.load = >
        data = 
    124 
    125     def on_loaded(self, data: ImageSliceData) -> bool:

c:\gbw_myprograms\anaconda3\envs\napari-env2\lib\site-packages\napari\layers\image\_image_loader.py in load(self=, data=)
     20             True if load happened synchronously.
     21         """
---> 22         data.load_sync()
        data.load_sync = >
     23         return True
     24 

c:\gbw_myprograms\anaconda3\envs\napari-env2\lib\site-packages\napari\layers\image\_image_slice_data.py in load_sync(self=)
     42     def load_sync(self) -> None:
     43         """Call asarray on our images to load them."""
---> 44         self.image = np.asarray(self.image)
        self.image = dask.array
        global np.asarray = 
     45 
     46         if self.thumbnail_source is not None:

c:\gbw_myprograms\anaconda3\envs\napari-env2\lib\site-packages\numpy\core\_asarray.py in asarray(a=dask.array, dtype=None, order=None, like=None)
    100         return _asarray_with_like(a, dtype=dtype, order=order, like=like)
    101 
--> 102     return array(a, dtype, copy=False, order=order)
        global array = 
        a = dask.array
        dtype = None
        global copy = undefined
        order = None
    103 
    104 

c:\gbw_myprograms\anaconda3\envs\napari-env2\lib\site-packages\dask\array\core.py in __array__(self=dask.array, dtype=None, **kwargs={})
   1532 
   1533     def __array__(self, dtype=None, **kwargs):
-> 1534         x = self.compute()
        x = undefined
        self.compute = >
   1535         if dtype and x.dtype != dtype:
   1536             x = x.astype(dtype)

c:\gbw_myprograms\anaconda3\envs\napari-env2\lib\site-packages\dask\base.py in compute(self=dask.array, **kwargs={})
    286         dask.base.compute
    287         """
--> 288         (result,) = compute(self, traverse=False, **kwargs)
        result = undefined
        global compute = 
        self = dask.array
        global traverse = undefined
        kwargs = {}
    289         return result
    290 

c:\gbw_myprograms\anaconda3\envs\napari-env2\lib\site-packages\dask\base.py in compute(*args=(dask.array,), **kwargs={})
    568         postcomputes.append(x.__dask_postcompute__())
    569 
--> 570     results = schedule(dsk, keys, **kwargs)
        results = undefined
        schedule = 
        dsk = HighLevelGraph with 4 layers.

 0. array-c9ee8e0f4c10c6c23a4318f58ff94a46
 1. getitem-46da6b34d2c45791bf57c6feccb4b594
 2. getitem-a90b1329abe5c89d9750e440ffd497ad
 3. getitem-74d10f3e832693dd7fd89549fa7725a5

        keys = [[[('getitem-74d10f3e832693dd7fd89549fa7725a5', 0, 0)]]]
        kwargs = {}
    571     return repack([f(r, *a) for r, (f, a) in zip(results, postcomputes)])
    572 

c:\gbw_myprograms\anaconda3\envs\napari-env2\lib\site-packages\dask\threaded.py in get(dsk=HighLevelGraph with 4 layers.
 3. getitem-74d10f3e832693dd7fd89549fa7725a5
, result=[[[('getitem-74d10f3e832693dd7fd89549fa7725a5', 0, 0)]]], cache=None, num_workers=None, pool=, **kwargs={})
     77             pool = MultiprocessingPoolExecutor(pool)
     78 
---> 79     results = get_async(
        results = undefined
        global get_async = 
        pool.submit = >
        pool._max_workers = 16
        dsk = HighLevelGraph with 4 layers.

 0. array-c9ee8e0f4c10c6c23a4318f58ff94a46
 1. getitem-46da6b34d2c45791bf57c6feccb4b594
 2. getitem-a90b1329abe5c89d9750e440ffd497ad
 3. getitem-74d10f3e832693dd7fd89549fa7725a5

        result = [[[('getitem-74d10f3e832693dd7fd89549fa7725a5', 0, 0)]]]
        cache = None
        global get_id = undefined
        global _thread_get_id = 
        global pack_exception = 
        kwargs = {}
     80         pool.submit,
     81         pool._max_workers,

c:\gbw_myprograms\anaconda3\envs\napari-env2\lib\site-packages\dask\local.py in get_async(submit=>, num_workers=16, dsk={('getitem-74d10f3e832693dd7fd89549fa7725a5', 0, 0): (, ('getitem-a90b1329abe5c89d9750e440ffd497ad', 0, 0, 0), (0, slice(None, None, None), slice(None, None, None))), ('getitem-a90b1329abe5c89d9750e440ffd497ad', 0, 0, 0): (, ('getitem-46da6b34d2c45791bf57c6feccb4b594', 0, 0, 0, 0), (0, slice(None, None, None), slice(None, None, None), slice(None, None, None))), ('getitem-46da6b34d2c45791bf57c6feccb4b594', 0, 0, 0, 0): (, ('array-c9ee8e0f4c10c6c23a4318f58ff94a46', 0, 0, 0, 0, 0), (0, slice(None, None, None), slice(None, None, None), slice(None, None, None), slice(None, None, None))), ('array-c9ee8e0f4c10c6c23a4318f58ff94a46', 0, 0, 0, 0, 0): (, 'array-original-c9ee8e0f4c10c6c23a4318f58ff94a46', (slice(0, 1, None), slice(0, 1, None), slice(0, 21, None), slice(0, 128, None), slice(0, 128, None))), 'array-original-c9ee8e0f4c10c6c23a4318f58ff94a46': }, result=[[[('getitem-74d10f3e832693dd7fd89549fa7725a5', 0, 0)]]], cache=None, get_id=, rerun_exceptions_locally=False, pack_exception=, raise_exception=, callbacks=set(), dumps=, loads=, chunksize=1, **kwargs={})
    505                             _execute_task(task, data)  # Re-execute locally
    506                         else:
--> 507                             raise_exception(exc, tb)
        raise_exception = 
        exc = IndexError('too many indices for array: array is 3-dimensional, but 5 were indexed')
        tb = 
    508                     res, worker_id = loads(res_info)
    509                     state["cache"][key] = res

c:\gbw_myprograms\anaconda3\envs\napari-env2\lib\site-packages\dask\local.py in reraise(exc=IndexError('too many indices for array: array is 3-dimensional, but 5 were indexed'), tb=)
    313     if exc.__traceback__ is not tb:
    314         raise exc.with_traceback(tb)
--> 315     raise exc
        exc = IndexError('too many indices for array: array is 3-dimensional, but 5 were indexed')
    316 
    317 

c:\gbw_myprograms\anaconda3\envs\napari-env2\lib\site-packages\dask\local.py in execute_task(key=('getitem-46da6b34d2c45791bf57c6feccb4b594', 0, 0, 0, 0), task_info=((, ('array-c9ee8e0f4c10c6c23a4318f58ff94a46', 0, 0, 0, 0, 0), (0, slice(None, None, None), slice(None, None, None), slice(None, None, None), slice(None, None, None))), {('array-c9ee8e0f4c10c6c23a4318f58ff94a46', 0, 0, 0, 0, 0):  (21, 128, 128) uint16}), dumps=, loads=, get_id=, pack_exception=)
    218     try:
    219         task, data = loads(task_info)
--> 220         result = _execute_task(task, data)
        result = (IndexError('too many indices for array: array is 3-dimensional, but 5 were indexed'), )
        global _execute_task = 
        task = (, ('array-c9ee8e0f4c10c6c23a4318f58ff94a46', 0, 0, 0, 0, 0), (0, slice(None, None, None), slice(None, None, None), slice(None, None, None), slice(None, None, None)))
        data = {('array-c9ee8e0f4c10c6c23a4318f58ff94a46', 0, 0, 0, 0, 0):  (21, 128, 128) uint16}
    221         id = get_id()
    222         result = dumps((result, id))

c:\gbw_myprograms\anaconda3\envs\napari-env2\lib\site-packages\dask\core.py in _execute_task(arg=(, ('array-c9ee8e0f4c10c6c23a4318f58ff94a46', 0, 0, 0, 0, 0), (0, slice(None, None, None), slice(None, None, None), slice(None, None, 


None), slice(None, None, None))), cache={('array-c9ee8e0f4c10c6c23a4318f58ff94a46', 0, 0, 0, 0, 0):  (21, 128, 128) uint16}, dsk=None)
    117         # temporaries by their reference count and can execute certain
    118         # operations in-place.
--> 119         return func(*(_execute_task(a, cache) for a in args))
        func = 
        global _execute_task = 
        global a = undefined
        cache = {('array-c9ee8e0f4c10c6c23a4318f58ff94a46', 0, 0, 0, 0, 0):  (21, 128, 128) uint16}
        args = (('array-c9ee8e0f4c10c6c23a4318f58ff94a46', 0, 0, 0, 0, 0), (0, slice(None, None, None), slice(None, None, None), slice(None, None, None), slice(None, None, None)))
    120     elif not ishashable(arg):
    121         return arg

c:\gbw_myprograms\anaconda3\envs\napari-env2\lib\site-packages\dask\array\chunk.py in getitem(obj= (21, 128, 128) uint16, index=(0, slice(None, None, None), slice(None, None, None), slice(None, None, None), slice(None, None, None)))
    420 
    421     """
--> 422     result = obj[index]
        result = undefined
        obj =  (21, 128, 128) uint16
        index = (0, slice(None, None, None), slice(None, None, None), slice(None, None, None), slice(None, None, None))
    423     try:
    424         if not result.flags.owndata and obj.size >= 2 * result.size:

IndexError: too many indices for array: array is 3-dimensional, but 5 were indexed

Best, Benjamin

Tested with napari 0.4.12 and napari-imaris-loader 0.0.5.

Loading any ims files from Imaris demo datasets throw the following error and can't be opened in napari: IndexError: too many indices for array: array is 3-dimensional, but 5 were indexed

Dear developper,

I am very interested by your imaris loader, nevertheless, I did'nt sucess to install it. I have installed the imaris loader on my napari env (windows), On my napari env, I then launch napari.

When I try to open an ims file with the open function of napari, it doesn't work, any idea of the problem ?

11:00:40 ERROR PluginError: Error in plugin 'builtins', hook 'napari_get_reader' Cause was: ValueError('Could not load "" \nReason: "cannot find loader for this HDF5 file"\nPlease see documentation at: http://pillow.readthedocs.io/en/latest/installation.html#external-libraries') in file: C:\Users\mathi\anaconda3\envs\napari-env\lib\site-packages\imageio\plugins\pillow.py at line: 680 author: napari team email: [email protected] package: napari url: https://napari.org/ version: 0.4.0

Hi team,

My name is Draga and I am a CZI contractor working on napari.

As part of our work on the new napari plugin engine, we’ve been running some automated tests to see whether plugins will be easily converted to the new plugin engine. While running these tests, we noticed that your plugin fails to be imported after installation in a fresh environment due to a missing requirement. You can see details in this github action run.

This PR therefore adds napari to your install requirements so that users can install your plugin more confidently.

Note that this may not be a complete list - to check whether your plugin can be easily installed on other machines, we recommend using GitHub workflows to test your plugin in a fresh environment - the napari plugin cookiecutter provides an example of such a workflow.

If you believe this PR has been opened in error, please feel free to close it and let us know where we went wrong!

I also just tested the ims file that are provided with Imaris. All of these files work for me with the exceptions of "R18Demo.ims" and "SwimmingAlgae.ims" which are throwing an error that I have not seen before during load.

TypeError: Received sequence for argument 'name', did you mean to specify a 'channel_axis'?

Identified by @chili-chiu:

"The image scale seems to be off though. For example PlantCell.ims should have (x,y,z) = (0.25, 0.25, 1.5) um, but once opened in napari the scale shows (z,y,x) = (5.92, 1, 1) ."

07:40:15 ERROR PluginError: Error in plugin 'napari-imaris-loader', hook 'napari_get_reader' Cause was: IndexError('tuple index out of range') in file: /home/iana/bio/napari-imaris-loader/napari_imaris_loader/reader.py at line: 148 author: Alan M Watson email: [email protected] package: napari-imaris-loader url: https://github.com/AlanMWatson/napari-imaris-loader version: 0.1.2.dev0+g4e3df16.d20211109