Connected component labeling returns error on macOS M1

psobolewskiPhD commented 2 years ago

Noticed this by accident with #48 The first Operation in the Label widget Connected component labeling results in long beachball and error on macOS 12.1, napari 0.14.0 and N-pycl-A 0.15.1 . The other Operations (including other two Connected component ones) work fine—with the exception of the duplicate voronoi-otsu noted in #48 Here's the error:

``` 2022-02-13 11:18:14.286 | ERROR | napari_pyclesperanto_assistant._gui._category_widget:gui_function:324 - An error has been caught in function 'gui_function', process 'MainProcess' (27274), thread 'MainThread' (4342056320): Traceback (most recent call last): File "/Users/piotrsobolewski/Dev/miniforge3/envs/napari-CL/bin/napari", line 10, in sys.exit(main()) │ │ └ │ └ └ File "/Users/piotrsobolewski/Dev/miniforge3/envs/napari-CL/lib/python3.9/site-packages/napari/__main__.py", line 449, in main _run() └ File "/Users/piotrsobolewski/Dev/miniforge3/envs/napari-CL/lib/python3.9/site-packages/napari/__main__.py", line 338, in _run run(gui_exceptions=True) └ File "/Users/piotrsobolewski/Dev/miniforge3/envs/napari-CL/lib/python3.9/site-packages/napari/_qt/qt_event_loop.py", line 402, in run app.exec_() │ └ └ File "/Users/piotrsobolewski/Dev/miniforge3/envs/napari-CL/lib/python3.9/site-packages/magicgui/backends/_qtpy/widgets.py", line 646, in _emit_data self._event_filter.valueChanged.emit(self._qwidget.itemData(index)) │ │ │ │ │ │ └ 0 │ │ │ │ │ └ │ │ │ │ └ │ │ │ └ │ │ └ │ └ └ File "/Users/piotrsobolewski/Dev/miniforge3/envs/napari-CL/lib/python3.9/site-packages/magicgui/widgets/_bases/value_widget.py", line 57, in _on_value_change self.changed.emit(value) │ │ │ └ 'Connected component labeling (clesperanto)' │ │ └ │ └ , name='op_... └ ComboBox(value='Connected component labeling (clesperanto)', annotation=, name='op_name') File "/Users/piotrsobolewski/Dev/miniforge3/envs/napari-CL/lib/python3.9/site-packages/magicgui/events.py", line 85, in _run_emit_loop cb(*args[:max_args]) │ │ └ 0 │ └ ('Connected component labeling (clesperanto)',) └ . at 0x1317a4dc0> File "/Users/piotrsobolewski/Dev/miniforge3/envs/napari-CL/lib/python3.9/site-packages/magicgui/widgets/_bases/container_widget.py", line 165, in widget.changed.connect(lambda: self.changed.emit(self)) │ │ │ └ , op_name: str = 'Conn... │ │ └ │ └ , op_name: str = 'Conn... File "/Users/piotrsobolewski/Dev/miniforge3/envs/napari-CL/lib/python3.9/site-packages/magicgui/events.py", line 85, in _run_emit_loop cb(*args[:max_args]) │ │ └ 0 │ └ (, op_name: str = 'Con... └ , op_name: str = 'Conn... File "/Users/piotrsobolewski/Dev/miniforge3/envs/napari-CL/lib/python3.9/site-packages/magicgui/widgets/_function_gui.py", line 303, in __call__ value = self._function(*bound.args, **bound.kwargs) │ │ │ │ │ └ │ │ │ │ └ , op_name='Connected component labeling (clesperanto)', x=2.0, ... │ │ │ └ │ │ └ , op_name='Connected component labeling (clesperanto)', x=2.0, ... │ └ .gui_function at 0x16c81c1f0> └ , op_name: str = 'Conn... > File "/Users/piotrsobolewski/Dev/miniforge3/envs/napari-CL/lib/python3.9/site-packages/napari_pyclesperanto_assistant/_gui/_category_widget.py", line 324, in gui_function result, used_args = call_op(op_name, inputs, t_position, viewer, **kwargs) │ │ │ │ │ └ {'x': 2.0, 'y': 2.0, 'z': 0.0, 'u': 0.0, 'v': 0.0, 'w': 0.0, 'a': False, 'b': False, 'c': False, 'k': '', 'l': '', 'm': ''} │ │ │ │ └ Viewer(axes=Axes(visible=False, labels=True, colored=True, dashed=False, arrows=True), camera=Camera(center=(0.0, 126.5, 127.... │ │ │ └ None │ │ └ [] │ └ 'Connected component labeling (clesperanto)' └ File "/Users/piotrsobolewski/Dev/miniforge3/envs/napari-CL/lib/python3.9/site-packages/napari_pyclesperanto_assistant/_gui/_category_widget.py", line 154, in call_op gpu_out = gpu_out.astype(int) │ └ └ cl.Array([[1, 1, 1, ..., 1, 1, 1], [1, 1, 1, ..., 1, 1, 1], [1, 1, 1, ..., 1, 1, 1], ..., [1, 1, ... File "/Users/piotrsobolewski/Dev/miniforge3/envs/napari-CL/lib/python3.9/site-packages/pyclesperanto_prototype/_tier0/_pycl.py", line 148, in astype return copy(self, copied) │ │ └ cl.Array([[0, 0, 0, ..., 0, 0, 0], │ │ [0, 0, 0, ..., 0, 0, 0], │ │ [0, 0, 0, ..., 0, 0, 0], │ │ ..., │ │ [0, 0, ... │ └ cl.Array([[1, 1, 1, ..., 1, 1, 1], │ [1, 1, 1, ..., 1, 1, 1], │ [1, 1, 1, ..., 1, 1, 1], │ ..., │ [1, 1, ... └ File "/Users/piotrsobolewski/Dev/miniforge3/envs/napari-CL/lib/python3.9/site-packages/pyclesperanto_prototype/_tier0/_plugin_function.py", line 71, in worker_function return function(*bound.args, **bound.kwargs) │ │ │ │ └ │ │ │ └ │ └ File "/Users/piotrsobolewski/Dev/miniforge3/envs/napari-CL/lib/python3.9/site-packages/pyclesperanto_prototype/_tier1/_copy.py", line 36, in copy execute(__file__, '../clij-opencl-kernels/kernels/copy_' + str(len(destination.shape)) + 'd_x.cl', 'copy_' + str(len(destination.shape)) + 'd', destination.shape, parameters) │ │ │ │ │ │ │ │ └ {'dst': cl.Array([[0, 0, 0, ..., 0, 0, 0], │ │ │ │ │ │ │ │ [0, 0, 0, ..., 0, 0, 0], │ │ │ │ │ │ │ │ [0, 0, 0, ..., 0, 0, 0], │ │ │ │ │ │ │ │ ..., │ │ │ │ │ │ │ │ ... │ │ │ │ │ │ │ └ (254, 256) │ │ │ │ │ │ └ cl.Array([[0, 0, 0, ..., 0, 0, 0], │ │ │ │ │ │ [0, 0, 0, ..., 0, 0, 0], │ │ │ │ │ │ [0, 0, 0, ..., 0, 0, 0], │ │ │ │ │ │ ..., │ │ │ │ │ │ [0, 0, ... │ │ │ │ │ └ (254, 256) │ │ │ │ └ cl.Array([[0, 0, 0, ..., 0, 0, 0], │ │ │ │ [0, 0, 0, ..., 0, 0, 0], │ │ │ │ [0, 0, 0, ..., 0, 0, 0], │ │ │ │ ..., │ │ │ │ [0, 0, ... │ │ │ └ (254, 256) │ │ └ cl.Array([[0, 0, 0, ..., 0, 0, 0], │ │ [0, 0, 0, ..., 0, 0, 0], │ │ [0, 0, 0, ..., 0, 0, 0], │ │ ..., │ │ [0, 0, ... │ └ '/Users/piotrsobolewski/Dev/miniforge3/envs/napari-CL/lib/python3.9/site-packages/pyclesperanto_prototype/_tier1/_copy.py' └ File "/Users/piotrsobolewski/Dev/miniforge3/envs/napari-CL/lib/python3.9/site-packages/pyclesperanto_prototype/_tier0/_execute.py", line 3, in execute return Backend.get_instance().get().execute(anchor, opencl_kernel_filename, kernel_name, global_size, parameters, prog, constants, image_size_independent_kernel_compilation, device) │ │ │ │ │ │ │ │ │ │ └ None │ │ │ │ │ │ │ │ │ └ None │ │ │ │ │ │ │ │ └ None │ │ │ │ │ │ │ └ None │ │ │ │ │ │ └ {'dst': cl.Array([[0, 0, 0, ..., 0, 0, 0], │ │ │ │ │ │ [0, 0, 0, ..., 0, 0, 0], │ │ │ │ │ │ [0, 0, 0, ..., 0, 0, 0], │ │ │ │ │ │ ..., │ │ │ │ │ │ ... │ │ │ │ │ └ (254, 256) │ │ │ │ └ 'copy_2d' │ │ │ └ '../clij-opencl-kernels/kernels/copy_2d_x.cl' │ │ └ '/Users/piotrsobolewski/Dev/miniforge3/envs/napari-CL/lib/python3.9/site-packages/pyclesperanto_prototype/_tier1/_copy.py' │ └ └ File "/Users/piotrsobolewski/Dev/miniforge3/envs/napari-CL/lib/python3.9/site-packages/pyclesperanto_prototype/_tier0/_opencl_backend.py", line 41, in execute return execute(anchor, opencl_kernel_filename, kernel_name, global_size, parameters, prog, constants, image_size_independent_kernel_compilation, device) │ │ │ │ │ │ │ │ │ └ None │ │ │ │ │ │ │ │ └ None │ │ │ │ │ │ │ └ None │ │ │ │ │ │ └ None │ │ │ │ │ └ {'dst': cl.Array([[0, 0, 0, ..., 0, 0, 0], │ │ │ │ │ [0, 0, 0, ..., 0, 0, 0], │ │ │ │ │ [0, 0, 0, ..., 0, 0, 0], │ │ │ │ │ ..., │ │ │ │ │ ... │ │ │ │ └ (254, 256) │ │ │ └ 'copy_2d' │ │ └ '../clij-opencl-kernels/kernels/copy_2d_x.cl' │ └ '/Users/piotrsobolewski/Dev/miniforge3/envs/napari-CL/lib/python3.9/site-packages/pyclesperanto_prototype/_tier1/_copy.py' └ File "/Users/piotrsobolewski/Dev/miniforge3/envs/napari-CL/lib/python3.9/site-packages/pyclesperanto_prototype/_tier0/_opencl_execute.py", line 311, in execute prog = device.program_from_source("\n".join(defines)) │ │ └ ['#define MAX_ARRAY_SIZE 1000', '#define GET_IMAGE_WIDTH(image_key) image_size_ ## image_key ## _width', '#define GET_IMAGE_H... │ └ └ File "/Users/piotrsobolewski/Dev/miniforge3/envs/napari-CL/lib/python3.9/site-packages/pyclesperanto_prototype/_tier0/_device.py", line 26, in program_from_source return OCLProgram(src_str=source, dev=self) │ │ └ │ └ '#define MAX_ARRAY_SIZE 1000\n#define GET_IMAGE_WIDTH(image_key) image_size_ ## image_key ## _width\n#define GET_IMAGE_HEIGHT... └ File "/Users/piotrsobolewski/Dev/miniforge3/envs/napari-CL/lib/python3.9/site-packages/pyclesperanto_prototype/_tier0/_program.py", line 28, in __init__ self.build(options=build_options) │ │ └ [] │ └ └ File "/Users/piotrsobolewski/Dev/miniforge3/envs/napari-CL/lib/python3.9/site-packages/pyopencl/__init__.py", line 536, in build self._prg, was_cached = self._build_and_catch_errors( │ │ │ └ │ │ └ │ └ None └ File "/Users/piotrsobolewski/Dev/miniforge3/envs/napari-CL/lib/python3.9/site-packages/pyopencl/__init__.py", line 584, in _build_and_catch_errors raise err └ RuntimeError() pyopencl._cl.RuntimeError: clBuildProgram failed: BUILD_PROGRAM_FAILURE - clBuildProgram failed: BUILD_PROGRAM_FAILURE - clBuildProgram failed: BUILD_PROGRAM_FAILURE Build on : Compiler encountered an internal error (options: -I /Users/piotrsobolewski/Dev/miniforge3/envs/napari-CL/lib/python3.9/site-packages/pyopencl/cl) (source saved as /var/folders/sy/y3_x27j14cxg3_vhycs6cr_h0000gn/T/tmppdsr9h65.cl) ```

haesleinhuepf commented 2 years ago

Hi @psobolewskiPhD ,

thanks for reporting! Unfortunately, I can't reproduce this issue on my M1 Mac. I guess it has something todo with other installed dependencies. Would you mind comparing your environment to mine? This is my conda list:

absl-py                   1.0.0                    pypi_0    pypi
alabaster                 0.7.12                     py_0    conda-forge
anyio                     3.5.0            py39h6e9494a_0    conda-forge
apoc                      0.6.2                     dev_0    <develop>
appdirs                   1.4.4              pyh9f0ad1d_0    conda-forge
appnope                   0.1.2            py39h6e9494a_2    conda-forge
argon2-cffi               21.3.0             pyhd8ed1ab_0    conda-forge
argon2-cffi-bindings      21.2.0           py39h89e85a6_1    conda-forge
asciitree                 0.3.3                      py_2    conda-forge
asttokens                 2.0.5              pyhd8ed1ab_0    conda-forge
astunparse                1.6.3                    pypi_0    pypi
attrs                     21.4.0             pyhd8ed1ab_0    conda-forge
autopep8                  1.6.0                    pypi_0    pypi
babel                     2.9.1              pyh44b312d_0    conda-forge
backcall                  0.2.0              pyh9f0ad1d_0    conda-forge
backports                 1.0                        py_2    conda-forge
backports.functools_lru_cache 1.6.4              pyhd8ed1ab_0    conda-forge
beautifulsoup4            4.10.0                   pypi_0    pypi
biapol-utilities          0.0.3                    pypi_0    pypi
black                     21.12b0            pyhd8ed1ab_0    conda-forge
bleach                    4.1.0              pyhd8ed1ab_0    conda-forge
blosc                     1.21.0               he49afe7_0    conda-forge
bokeh                     2.4.2            py39h6e9494a_0    conda-forge
brotli                    1.0.9                h0d85af4_6    conda-forge
brotli-bin                1.0.9                h0d85af4_6    conda-forge
brotlipy                  0.7.0           py39h89e85a6_1003    conda-forge
brunsli                   0.1                  h046ec9c_0    conda-forge
bzip2                     1.0.8                h0d85af4_4    conda-forge
c-ares                    1.18.1               h0d85af4_0    conda-forge
c-blosc2                  2.0.4                ha1a4663_1    conda-forge
ca-certificates           2021.10.8            h033912b_0    conda-forge
cachetools                5.0.0                    pypi_0    pypi
cachey                    0.2.1              pyh9f0ad1d_0    conda-forge
cellpose                  1.0.0                    pypi_0    pypi
certifi                   2021.10.8        py39h6e9494a_1    conda-forge
cffi                      1.14.6           py39hb71fe58_0    conda-forge
cfitsio                   4.0.0                hb20e66c_0    conda-forge
charls                    2.2.0                h046ec9c_0    conda-forge
charset-normalizer        2.0.10             pyhd8ed1ab_0    conda-forge
click                     7.1.2                    pypi_0    pypi
cloudpickle               2.0.0              pyhd8ed1ab_0    conda-forge
colorama                  0.4.4              pyh9f0ad1d_0    conda-forge
cryptography              36.0.1           py39h209aa08_0    conda-forge
csbdeep                   0.6.3                    pypi_0    pypi
cycler                    0.11.0             pyhd8ed1ab_0    conda-forge
cytoolz                   0.11.2           py39h89e85a6_1    conda-forge
dask                      2022.1.1           pyhd8ed1ab_0    conda-forge
dask-core                 2022.1.1           pyhd8ed1ab_0    conda-forge
dask-image                2021.12.0          pyhd8ed1ab_0    conda-forge
dataclasses               0.8                pyhc8e2a94_3    conda-forge
dbus                      1.13.6               ha13b53f_2    conda-forge
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distributed               2022.1.1         py39h6e9494a_0    conda-forge
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fasteners                 0.16               pyhd8ed1ab_0    conda-forge
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font-ttf-inconsolata      3.000                h77eed37_0    conda-forge
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font-ttf-ubuntu           0.83                 hab24e00_0    conda-forge
fontconfig                2.13.94              h10f422b_0    conda-forge
fonts-conda-ecosystem     1                             0    conda-forge
fonts-conda-forge         1                             0    conda-forge
fonttools                 4.29.0           py39h89e85a6_0    conda-forge
freetype                  2.10.4               h4cff582_1    conda-forge
freetype-py               2.2.0              pyh9f0ad1d_0    conda-forge
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future                    0.18.2                   pypi_0    pypi
gast                      0.5.3                    pypi_0    pypi
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giflib                    5.2.1                hbcb3906_2    conda-forge
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gitpython                 3.1.26                   pypi_0    pypi
glib                      2.68.4               he49afe7_0    conda-forge
glib-tools                2.68.4               he49afe7_0    conda-forge
google-auth               2.6.0                    pypi_0    pypi
google-auth-oauthlib      0.4.6                    pypi_0    pypi
google-pasta              0.2.0                    pypi_0    pypi
greenlet                  1.1.2                    pypi_0    pypi
grpcio                    1.43.0                   pypi_0    pypi
h5py                      3.6.0                    pypi_0    pypi
haesleinhuepf-pyqode-core 2.15.5                   pypi_0    pypi
haesleinhuepf-pyqode-python 2.15.2                   pypi_0    pypi
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hsluv                     5.0.2              pyh44b312d_0    conda-forge
icu                       69.1                 he49afe7_0    conda-forge
idna                      3.3                pyhd8ed1ab_0    conda-forge
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jedi                      0.18.1           py39h6e9494a_0    conda-forge
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joblib                    1.1.0                    pypi_0    pypi
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linkify-it-py             1.0.3                    pypi_0    pypi
llvm-openmp               12.0.1               hda6cdc1_1    conda-forge
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mysql-libs                8.0.28               h115446f_0    conda-forge
myst-nb                   0.13.1                   pypi_0    pypi
myst-parser               0.15.2                   pypi_0    pypi
napari                    0.4.14                   pypi_0    pypi
napari-accelerated-pixel-and-object-classification 0.6.2                     dev_0    <develop>
napari-console            0.0.4              pyhd8ed1ab_0    conda-forge
napari-plugin-engine      0.2.0              pyhd8ed1ab_2    conda-forge
napari-pyclesperanto-assistant 0.15.1                    dev_0    <develop>
napari-script-editor      0.2.7                    pypi_0    pypi
napari-segment-blobs-and-things-with-membranes 0.2.14                   pypi_0    pypi
napari-simpleitk-image-processing 0.2.1                     dev_0    <develop>
napari-skimage-regionprops 0.2.9                    pypi_0    pypi
napari-svg                0.1.5              pyhd8ed1ab_0    conda-forge
napari-time-slicer        0.4.2                    pypi_0    pypi
napari-tools-menu         0.1.10                   pypi_0    pypi
napari-workflows          0.1.2                     dev_0    <develop>
natsort                   8.1.0                    pypi_0    pypi
nbclassic                 0.3.5              pyhd8ed1ab_0    conda-forge
nbclient                  0.5.10             pyhd8ed1ab_1    conda-forge
nbconvert                 6.4.1            py39h6e9494a_0    conda-forge
nbdime                    3.1.1                    pypi_0    pypi
nbformat                  5.1.3              pyhd8ed1ab_0    conda-forge
ncurses                   6.3                  he49afe7_0    conda-forge
nest-asyncio              1.5.4              pyhd8ed1ab_0    conda-forge
networkx                  2.6.3              pyhd8ed1ab_1    conda-forge
notebook                  6.4.8              pyha770c72_0    conda-forge
npe2                      0.1.2              pyhd8ed1ab_0    conda-forge
nspr                      4.32                 hcd9eead_1    conda-forge
nss                       3.74                 h31e2bf1_0    conda-forge
numba                     0.55.1                   pypi_0    pypi
numcodecs                 0.9.1            py39h9fcab8e_2    conda-forge
numpy                     1.21.5           py39h516c64c_0    conda-forge
numpydoc                  1.2                pyhd8ed1ab_0    conda-forge
oauthlib                  3.2.0                    pypi_0    pypi
olefile                   0.46               pyh9f0ad1d_1    conda-forge
opencv-python-headless    4.5.5.62                 pypi_0    pypi
openjpeg                  2.4.0                h6e7aa92_1    conda-forge
openssl                   1.1.1l               h0d85af4_0    conda-forge
opt-einsum                3.3.0                    pypi_0    pypi
packaging                 21.3               pyhd8ed1ab_0    conda-forge
pandas                    1.4.0            py39h4d6be9b_0    conda-forge
pandoc                    2.17.0.1             h694c41f_1    conda-forge
pandocfilters             1.5.0              pyhd8ed1ab_0    conda-forge
parso                     0.8.3              pyhd8ed1ab_0    conda-forge
partd                     1.2.0              pyhd8ed1ab_0    conda-forge
pathspec                  0.9.0              pyhd8ed1ab_0    conda-forge
pcre                      8.45                 he49afe7_0    conda-forge
pexpect                   4.8.0              pyh9f0ad1d_2    conda-forge
pickleshare               0.7.5                   py_1003    conda-forge
pillow                    9.0.0                    pypi_0    pypi
pims                      0.5                pyh9f0ad1d_1    conda-forge
pint                      0.18               pyhd8ed1ab_0    conda-forge
pip                       21.3.1             pyhd8ed1ab_0    conda-forge
platformdirs              2.3.0              pyhd8ed1ab_0    conda-forge
pluggy                    1.0.0                    pypi_0    pypi
pooch                     1.6.0                    pypi_0    pypi
prometheus_client         0.13.1             pyhd8ed1ab_0    conda-forge
prompt-toolkit            3.0.26             pyha770c72_0    conda-forge
protobuf                  3.19.4                   pypi_0    pypi
psutil                    5.9.0            py39h89e85a6_0    conda-forge
psygnal                   0.2.0            py39hf018cea_1    conda-forge
ptyprocess                0.7.0              pyhd3deb0d_0    conda-forge
pure_eval                 0.2.2              pyhd8ed1ab_0    conda-forge
py                        1.11.0                   pypi_0    pypi
pyasn1                    0.4.8                    pypi_0    pypi
pyasn1-modules            0.2.8                    pypi_0    pypi
pybtex                    0.24.0                   pypi_0    pypi
pybtex-docutils           1.0.1                    pypi_0    pypi
pyclesperanto-prototype   0.15.0                    dev_0    <develop>
pycodestyle               2.8.0                    pypi_0    pypi
pycparser                 2.21               pyhd8ed1ab_0    conda-forge
pydantic                  1.9.0            py39h89e85a6_0    conda-forge
pydata-sphinx-theme       0.7.2                    pypi_0    pypi
pyflakes                  2.4.0                    pypi_0    pypi
pygments                  2.11.2             pyhd8ed1ab_0    conda-forge
pyopencl                  2021.2.6                 pypi_0    pypi
pyopengl                  3.1.5                      py_0    conda-forge
pyopenssl                 21.0.0             pyhd8ed1ab_0    conda-forge
pyparsing                 3.0.7              pyhd8ed1ab_0    conda-forge
pyperclip                 1.8.2                    pypi_0    pypi
pyqt                      5.12.3           py39h6e9494a_8    conda-forge
pyqt-impl                 5.12.3           py39he44290a_8    conda-forge
pyqt5                     5.15.6                   pypi_0    pypi
pyqt5-qt5                 5.15.2                   pypi_0    pypi
pyqt5-sip                 12.9.0                   pypi_0    pypi
pyqtchart                 5.12             py39he44290a_8    conda-forge
pyqtwebengine             5.12.1           py39he44290a_8    conda-forge
pyrsistent                0.18.1           py39h89e85a6_0    conda-forge
pysocks                   1.7.1            py39h6e9494a_4    conda-forge
pytest                    6.2.5                    pypi_0    pypi
python                    3.9.0           h4f09611_5_cpython    conda-forge
python-dateutil           2.8.2              pyhd8ed1ab_0    conda-forge
python_abi                3.9                      2_cp39    conda-forge
pytomlpp                  1.0.10           py39hf018cea_0    conda-forge
pytools                   2021.2.9                 pypi_0    pypi
pytz                      2021.3             pyhd8ed1ab_0    conda-forge
pywavelets                1.2.0            py39hc89836e_1    conda-forge
pyyaml                    6.0              py39h89e85a6_3    conda-forge
pyzmq                     22.3.0           py39h7fec2f1_1    conda-forge
qt                        5.12.9               h2a607e2_5    conda-forge
qtconsole                 5.2.2              pyhd8ed1ab_1    conda-forge
qtconsole-base            5.2.2              pyhd8ed1ab_1    conda-forge
qtpy                      2.0.0              pyhd8ed1ab_0    conda-forge
readline                  8.1                  h05e3726_0    conda-forge
redlionfish               0.6                      pypi_0    pypi
requests                  2.27.1             pyhd8ed1ab_0    conda-forge
requests-oauthlib         1.3.1                    pypi_0    pypi
rsa                       4.8                      pypi_0    pypi
scikit-image              0.19.1           py39h4d6be9b_0    conda-forge
scikit-learn              1.0.2                    pypi_0    pypi
scipy                     1.7.3            py39h056f1c0_0    conda-forge
seaborn                   0.11.2                   pypi_0    pypi
send2trash                1.8.0              pyhd8ed1ab_0    conda-forge
setuptools                59.8.0           py39h6e9494a_0    conda-forge
shellingham               1.4.0              pyh44b312d_0    conda-forge
simpleitk                 2.1.1                    pypi_0    pypi
six                       1.16.0             pyh6c4a22f_0    conda-forge
slicerator                1.0.0                      py_0    conda-forge
smmap                     5.0.0                    pypi_0    pypi
snappy                    1.1.8                hb1e8313_3    conda-forge
sniffio                   1.2.0            py39h6e9494a_2    conda-forge
snowballstemmer           2.2.0              pyhd8ed1ab_0    conda-forge
sortedcontainers          2.4.0              pyhd8ed1ab_0    conda-forge
soupsieve                 2.3.1                    pypi_0    pypi
sphinx                    4.4.0              pyh6c4a22f_1    conda-forge
sphinx-book-theme         0.1.10                   pypi_0    pypi
sphinx-comments           0.0.3                    pypi_0    pypi
sphinx-copybutton         0.4.0                    pypi_0    pypi
sphinx-external-toc       0.2.3                    pypi_0    pypi
sphinx-jupyterbook-latex  0.4.6                    pypi_0    pypi
sphinx-multitoc-numbering 0.1.3                    pypi_0    pypi
sphinx-panels             0.6.0                    pypi_0    pypi
sphinx-thebe              0.0.10                   pypi_0    pypi
sphinx-togglebutton       0.2.3                    pypi_0    pypi
sphinxcontrib-applehelp   1.0.2                      py_0    conda-forge
sphinxcontrib-bibtex      2.2.1                    pypi_0    pypi
sphinxcontrib-devhelp     1.0.2                      py_0    conda-forge
sphinxcontrib-htmlhelp    2.0.0              pyhd8ed1ab_0    conda-forge
sphinxcontrib-jsmath      1.0.1                      py_0    conda-forge
sphinxcontrib-qthelp      1.0.3                      py_0    conda-forge
sphinxcontrib-serializinghtml 1.1.5              pyhd8ed1ab_1    conda-forge
sqlalchemy                1.4.31                   pypi_0    pypi
sqlite                    3.37.0               h23a322b_0    conda-forge
stack_data                0.1.4              pyhd8ed1ab_0    conda-forge
stardist                  0.7.3                    pypi_0    pypi
superqt                   0.2.5.post1        pyhd8ed1ab_0    conda-forge
tblib                     1.7.0              pyhd8ed1ab_0    conda-forge
tensorboard               2.8.0                    pypi_0    pypi
tensorboard-data-server   0.6.1                    pypi_0    pypi
tensorboard-plugin-wit    1.8.1                    pypi_0    pypi
tensorflow                2.8.0                    pypi_0    pypi
tensorflow-io-gcs-filesystem 0.24.0                   pypi_0    pypi
termcolor                 1.1.0                    pypi_0    pypi
terminado                 0.13.1           py39h6e9494a_0    conda-forge
testpath                  0.5.0              pyhd8ed1ab_0    conda-forge
tf-estimator-nightly      2.8.0.dev2021122109          pypi_0    pypi
threadpoolctl             3.0.0                    pypi_0    pypi
tifffile                  2021.11.2          pyhd8ed1ab_0    conda-forge
tk                        8.6.11               h5dbffcc_1    conda-forge
toml                      0.10.2                   pypi_0    pypi
tomli                     1.2.2              pyhd8ed1ab_0    conda-forge
toolz                     0.11.2             pyhd8ed1ab_0    conda-forge
torch                     1.10.2                   pypi_0    pypi
tornado                   6.1              py39h89e85a6_2    conda-forge
tqdm                      4.62.3             pyhd8ed1ab_0    conda-forge
traitlets                 5.1.1              pyhd8ed1ab_0    conda-forge
transforms3d              0.3.1                    pypi_0    pypi
typed-ast                 1.5.2            py39h89e85a6_0    conda-forge
typer                     0.4.0              pyhd8ed1ab_0    conda-forge
typing-extensions         4.0.1                hd8ed1ab_0    conda-forge
typing_extensions         4.0.1              pyha770c72_0    conda-forge
tzdata                    2021e                he74cb21_0    conda-forge
uc-micro-py               1.0.1                    pypi_0    pypi
unicodedata2              14.0.0           py39h89e85a6_0    conda-forge
urllib3                   1.26.8             pyhd8ed1ab_1    conda-forge
vispy                     0.9.4            py39h7c35a4d_0    conda-forge
wcwidth                   0.2.5              pyh9f0ad1d_2    conda-forge
webencodings              0.5.1                      py_1    conda-forge
websocket-client          1.2.3              pyhd8ed1ab_0    conda-forge
werkzeug                  2.0.3                    pypi_0    pypi
wheel                     0.37.1             pyhd8ed1ab_0    conda-forge
widgetsnbextension        3.5.2                    pypi_0    pypi
wrapt                     1.13.3           py39h89e85a6_1    conda-forge
xz                        5.2.5                haf1e3a3_1    conda-forge
yaml                      0.2.5                h0d85af4_2    conda-forge
zarr                      2.10.3             pyhd8ed1ab_0    conda-forge
zeromq                    4.3.4                he49afe7_1    conda-forge
zfp                       0.5.5                h4a89273_8    conda-forge
zict                      2.0.0                      py_0    conda-forge
zipp                      3.7.0              pyhd8ed1ab_0    conda-forge
zlib                      1.2.11            h9173be1_1013    conda-forge
zstd                      1.5.2                h582d3a0_0    conda-forge

Thanks!

psobolewskiPhD commented 2 years ago

Here's my conda env, all quite fresh. Only related thing that's different is my pyopencl is newer? pyopencl 2021.2.13 pypi_0 pypi

``` # Name Version Build Channel adwaita-icon-theme 41.0 ha770c72_1 conda-forge aicsimageio 4.5.2 pyhd8ed1ab_0 conda-forge aicspylibczi 3.0.4 pypi_0 pypi aiohttp 3.8.1 pypi_0 pypi aiosignal 1.2.0 pypi_0 pypi alabaster 0.7.12 py_0 conda-forge appdirs 1.4.4 pyh9f0ad1d_0 conda-forge appnope 0.1.2 py39h2804cbe_2 conda-forge argon2-cffi 21.3.0 pypi_0 pypi argon2-cffi-bindings 21.2.0 pypi_0 pypi asciitree 0.3.3 py_2 conda-forge asttokens 2.0.5 pyhd8ed1ab_0 conda-forge async-timeout 4.0.2 pypi_0 pypi atk-1.0 2.36.0 heb41896_4 conda-forge attrs 21.4.0 pyhd8ed1ab_0 conda-forge autopep8 1.6.0 pypi_0 pypi babel 2.9.1 pyh44b312d_0 conda-forge backcall 0.2.0 pyh9f0ad1d_0 conda-forge backports 1.0 py_2 conda-forge backports.functools_lru_cache 1.6.4 pyhd8ed1ab_0 conda-forge black 22.1.0 pyhd8ed1ab_0 conda-forge blas 2.113 accelerate conda-forge blas-devel 3.9.0 13_osxarm64_accelerate conda-forge bleach 4.1.0 pypi_0 pypi blosc 1.21.0 h9f76cd9_0 conda-forge bokeh 2.4.2 py39h2804cbe_0 conda-forge brotli 1.0.9 h3422bc3_6 conda-forge brotli-bin 1.0.9 h3422bc3_6 conda-forge brotlipy 0.7.0 py39h5161555_1003 conda-forge brunsli 0.1 h9f76cd9_0 conda-forge bzip2 1.0.8 h3422bc3_4 conda-forge c-ares 1.18.1 h3422bc3_0 conda-forge c-blosc2 2.0.4 h0095615_1 conda-forge ca-certificates 2021.10.8 h4653dfc_0 conda-forge cachey 0.2.1 pyh9f0ad1d_0 conda-forge cairo 1.16.0 he69dfd1_1008 conda-forge certifi 2021.10.8 py39h2804cbe_1 conda-forge cffi 1.15.0 py39h52b1de0_0 conda-forge cfitsio 4.0.0 h99351b2_0 conda-forge charls 2.2.0 h9f76cd9_0 conda-forge charset-normalizer 2.0.11 pyhd8ed1ab_0 conda-forge click 8.0.3 py39h2804cbe_1 conda-forge cloudpickle 2.0.0 pyhd8ed1ab_0 conda-forge colorama 0.4.4 pyh9f0ad1d_0 conda-forge cryptography 36.0.1 py39hfb8cd70_0 conda-forge cycler 0.11.0 pyhd8ed1ab_0 conda-forge cytoolz 0.11.2 py39h5161555_1 conda-forge dask 2022.1.1 pyhd8ed1ab_0 conda-forge dask-core 2022.1.1 pyhd8ed1ab_0 conda-forge dask-image 2021.12.0 pyhd8ed1ab_0 conda-forge dataclasses 0.8 pyhc8e2a94_3 conda-forge debugpy 1.5.1 py39hfb83b0d_0 conda-forge decorator 5.1.1 pyhd8ed1ab_0 conda-forge defusedxml 0.7.1 pypi_0 pypi distributed 2022.1.1 py39h2804cbe_0 conda-forge dnspython 2.2.0 pypi_0 pypi docstring_parser 0.13 pyhd8ed1ab_0 conda-forge docutils 0.17.1 py39h2804cbe_1 conda-forge elementpath 2.0.5 pyhd8ed1ab_0 conda-forge email-validator 1.1.3 pypi_0 pypi entrypoints 0.4 pyhd8ed1ab_0 conda-forge epoxy 1.5.9 h3422bc3_0 conda-forge executing 0.8.2 pyhd8ed1ab_0 conda-forge fasteners 0.17.3 pyhd8ed1ab_0 conda-forge ffmpeg 4.3.2 ha8417bf_1 conda-forge flake8 4.0.1 pyhd8ed1ab_1 conda-forge font-ttf-dejavu-sans-mono 2.37 hab24e00_0 conda-forge font-ttf-inconsolata 3.000 h77eed37_0 conda-forge font-ttf-source-code-pro 2.038 h77eed37_0 conda-forge font-ttf-ubuntu 0.83 hab24e00_0 conda-forge fontconfig 2.13.96 heb65262_0 conda-forge fonts-conda-ecosystem 1 0 conda-forge fonts-conda-forge 1 0 conda-forge fonttools 4.29.1 py39h5161555_0 conda-forge freetype 2.10.4 h17b34a0_1 conda-forge freetype-py 2.2.0 pyh9f0ad1d_0 conda-forge fribidi 1.0.10 h27ca646_0 conda-forge frozenlist 1.3.0 pypi_0 pypi fsspec 2022.1.0 pyhd8ed1ab_0 conda-forge gdk-pixbuf 2.42.6 hff60771_0 conda-forge gettext 0.19.8.1 h049c9fb_1008 conda-forge giflib 5.2.1 h27ca646_2 conda-forge glib-tools 2.70.2 hccf11d3_2 conda-forge gmp 6.2.1 h9f76cd9_0 conda-forge gnutls 3.6.13 h706517b_1 conda-forge graphite2 1.3.13 h9f76cd9_1001 conda-forge gtk3 3.24.31 h2dc7dc9_2 conda-forge harfbuzz 3.1.1 h13b3495_0 conda-forge heapdict 1.0.1 py_0 conda-forge hicolor-icon-theme 0.17 hce30654_2 conda-forge hsluv 5.0.2 pyh44b312d_0 conda-forge icu 68.2 hbdafb3b_0 conda-forge idna 3.3 pyhd8ed1ab_0 conda-forge imagecodecs 2021.11.20 py39hcb02aed_1 conda-forge imageio 2.10.5 pypi_0 pypi imageio-ffmpeg 0.4.5 pyhd8ed1ab_0 conda-forge imagesize 1.3.0 pyhd8ed1ab_0 conda-forge importlib-metadata 4.2.0 py39h2804cbe_0 conda-forge importlib_metadata 4.2.0 hd8ed1ab_0 conda-forge importlib_resources 5.4.0 pyhd8ed1ab_0 conda-forge intervaltree 3.0.2 py_0 conda-forge ipykernel 6.9.0 py39h32adebf_0 conda-forge ipython 8.0.1 py39h2804cbe_0 conda-forge ipython_genutils 0.2.0 py_1 conda-forge ipywidgets 7.6.5 pypi_0 pypi isort 5.10.1 pyhd8ed1ab_0 conda-forge jbig 2.1 h3422bc3_2003 conda-forge jedi 0.18.1 py39h2804cbe_0 conda-forge jinja2 3.0.3 pyhd8ed1ab_0 conda-forge jpeg 9e h3422bc3_0 conda-forge jsonschema 4.4.0 pyhd8ed1ab_0 conda-forge jupyter 1.0.0 pypi_0 pypi jupyter-console 6.4.0 pypi_0 pypi jupyter_client 7.1.2 pyhd8ed1ab_0 conda-forge jupyter_core 4.9.1 py39h2804cbe_1 conda-forge jupyterlab-pygments 0.1.2 pypi_0 pypi jupyterlab-widgets 1.0.2 pypi_0 pypi jupytext 1.13.7 pypi_0 pypi jxrlib 1.1 h27ca646_2 conda-forge kiwisolver 1.3.2 py39h4d2d688_1 conda-forge krb5 1.19.2 hd92b7a7_3 conda-forge lame 3.100 h27ca646_1001 conda-forge lcms2 2.12 had6a04f_0 conda-forge lerc 3.0 hbdafb3b_0 conda-forge libaec 1.0.6 hbdafb3b_0 conda-forge libblas 3.9.0 13_osxarm64_accelerate conda-forge libbrotlicommon 1.0.9 h3422bc3_6 conda-forge libbrotlidec 1.0.9 h3422bc3_6 conda-forge libbrotlienc 1.0.9 h3422bc3_6 conda-forge libcblas 3.9.0 13_osxarm64_accelerate conda-forge libcurl 7.81.0 h8fe1914_0 conda-forge libcxx 12.0.1 h168391b_1 conda-forge libdeflate 1.8 h3422bc3_0 conda-forge libedit 3.1.20191231 hc8eb9b7_2 conda-forge libev 4.33 h642e427_1 conda-forge libffi 3.4.2 h3422bc3_5 conda-forge libgfortran 5.0.0.dev0 11_0_1_hf114ba7_23 conda-forge libgfortran5 11.0.1.dev0 hf114ba7_23 conda-forge libglib 2.70.2 h67e64d8_2 conda-forge libiconv 1.16 h642e427_0 conda-forge libjpeg-turbo 2.1.1 h3422bc3_0 conda-forge liblapack 3.9.0 13_osxarm64_accelerate conda-forge liblapacke 3.9.0 13_osxarm64_accelerate conda-forge libnghttp2 1.46.0 he4cd7f6_0 conda-forge libopenblas 0.3.18 openmp_h5dd58f0_0 conda-forge libpng 1.6.37 hf7e6567_2 conda-forge libpq 13.5 h8bb6238_1 conda-forge librsvg 2.52.5 h957afdb_1 conda-forge libsodium 1.0.18 h27ca646_1 conda-forge libssh2 1.10.0 hb80f160_2 conda-forge libtiff 4.3.0 h74060c4_2 conda-forge libwebp 1.2.2 h0d20362_0 conda-forge libwebp-base 1.2.2 h3422bc3_1 conda-forge libxcb 1.13 h9b22ae9_1004 conda-forge libxml2 2.9.12 h538f51a_0 conda-forge libxslt 1.1.33 hd2240da_2 conda-forge libzlib 1.2.11 hee7b306_1013 conda-forge libzopfli 1.0.3 h9f76cd9_0 conda-forge llvm-openmp 12.0.1 hf3c4609_1 conda-forge locket 0.2.0 py_2 conda-forge loguru 0.6.0 pypi_0 pypi lxml 4.7.1 py39h3757d6e_0 conda-forge lz4-c 1.9.3 hbdafb3b_1 conda-forge magicgui 0.3.4 pyhd8ed1ab_0 conda-forge markdown-it-py 1.1.0 pypi_0 pypi markupsafe 2.0.1 py39h5161555_1 conda-forge matplotlib-base 3.5.1 py39h5aa4fe7_0 conda-forge matplotlib-inline 0.1.3 pyhd8ed1ab_0 conda-forge mccabe 0.6.1 py_1 conda-forge mdit-py-plugins 0.3.0 pypi_0 pypi mistune 0.8.4 pypi_0 pypi mrc 0.2.0 pypi_0 pypi msgpack-python 1.0.3 py39h4d2d688_0 conda-forge multidict 6.0.2 pypi_0 pypi munkres 1.1.4 pyh9f0ad1d_0 conda-forge mypy_extensions 0.4.3 py39h2804cbe_4 conda-forge mysql-common 8.0.28 hce30654_0 conda-forge mysql-libs 8.0.28 h577abee_0 conda-forge napari 0.4.14 pyhd8ed1ab_0 conda-forge napari-aicsimageio 0.4.1 pypi_0 pypi napari-console 0.0.4 pyhd8ed1ab_0 conda-forge napari-plugin-engine 0.2.0 pyhd8ed1ab_2 conda-forge napari-pyclesperanto-assistant 0.15.1 pypi_0 pypi napari-skimage-regionprops 0.2.9 pypi_0 pypi napari-svg 0.1.5 pyhd8ed1ab_0 conda-forge napari-time-slicer 0.4.3 pypi_0 pypi napari-tools-menu 0.1.10 pypi_0 pypi napari-workflows 0.1.5 pypi_0 pypi nbclient 0.5.10 pypi_0 pypi nbconvert 6.4.2 pypi_0 pypi nbformat 5.1.3 pypi_0 pypi ncurses 6.3 hc470f4d_0 conda-forge nd2 0.1.4 pypi_0 pypi nest-asyncio 1.5.4 pyhd8ed1ab_0 conda-forge nettle 3.6 hc6a1b29_0 conda-forge networkx 2.6.3 pyhd8ed1ab_1 conda-forge notebook 6.4.8 pypi_0 pypi npe2 0.1.2 pyhd8ed1ab_0 conda-forge nspr 4.32 hbdafb3b_1 conda-forge nss 3.74 h353d031_0 conda-forge numcodecs 0.9.1 py39hfb83b0d_2 conda-forge numpy 1.22.2 py39h61a45d2_0 conda-forge numpydoc 1.2 pyhd8ed1ab_0 conda-forge ome-types 0.2.9 pyhd8ed1ab_0 conda-forge openblas 0.3.18 openmp_h3b88efd_0 conda-forge openh264 2.1.1 habe5f53_0 conda-forge openjpeg 2.4.0 h062765e_1 conda-forge openssl 1.1.1l h3422bc3_0 conda-forge packaging 21.3 pyhd8ed1ab_0 conda-forge pandas 1.4.0 py39h7f752ed_0 conda-forge pandocfilters 1.5.0 pypi_0 pypi pango 1.48.10 h26a1e14_2 conda-forge parso 0.8.3 pyhd8ed1ab_0 conda-forge partd 1.2.0 pyhd8ed1ab_0 conda-forge pathspec 0.9.0 pyhd8ed1ab_0 conda-forge pcre 8.45 hbdafb3b_0 conda-forge pexpect 4.8.0 pyh9f0ad1d_2 conda-forge pickleshare 0.7.5 py_1003 conda-forge pillow 8.4.0 pypi_0 pypi pims 0.5 pyh9f0ad1d_1 conda-forge pint 0.18 pyhd8ed1ab_0 conda-forge pip 22.0.3 pyhd8ed1ab_0 conda-forge pixman 0.40.0 h27ca646_0 conda-forge platformdirs 2.4.1 pyhd8ed1ab_1 conda-forge pooch 1.6.0 pyhd8ed1ab_0 conda-forge prometheus-client 0.13.1 pypi_0 pypi prompt-toolkit 3.0.26 pyha770c72_0 conda-forge psutil 5.9.0 py39h5161555_0 conda-forge psygnal 0.2.0 py39h4d2d688_1 conda-forge pthread-stubs 0.4 h27ca646_1001 conda-forge ptyprocess 0.7.0 pyhd3deb0d_0 conda-forge pure_eval 0.2.2 pyhd8ed1ab_0 conda-forge pyclesperanto-prototype 0.15.0 pypi_0 pypi pycodestyle 2.8.0 pyhd8ed1ab_0 conda-forge pycparser 2.21 pyhd8ed1ab_0 conda-forge pydantic 1.9.0 py39h5161555_0 conda-forge pyflakes 2.4.0 pyhd8ed1ab_0 conda-forge pygments 2.11.2 pyhd8ed1ab_0 conda-forge pyopencl 2021.2.13 pypi_0 pypi pyopengl 3.1.5 py_0 conda-forge pyopenssl 22.0.0 pyhd8ed1ab_0 conda-forge pyparsing 3.0.7 pyhd8ed1ab_0 conda-forge pyperclip 1.8.2 pypi_0 pypi pyqt 5.15.4 py39h70deae4_1 andfoy pyqt5-sip 12.9.0 py39h70deae4_1 andfoy pyrsistent 0.18.1 py39h5161555_0 conda-forge pysocks 1.7.1 py39h2804cbe_4 conda-forge python 3.9.10 hd16f9c5_2_cpython conda-forge python-dateutil 2.8.2 pyhd8ed1ab_0 conda-forge python_abi 3.9 2_cp39 conda-forge pytomlpp 1.0.10 py39h4d2d688_0 conda-forge pytools 2021.2.9 pypi_0 pypi pytz 2021.3 pyhd8ed1ab_0 conda-forge pyvkfft 2022.1 pypi_0 pypi pywavelets 1.2.0 py39h20ef057_1 conda-forge pyyaml 6.0 py39h5161555_3 conda-forge pyzmq 22.3.0 py39h02c6a76_1 conda-forge qt 5.15.2 h70deae4_6 andfoy qtconsole 5.2.2 pyhd8ed1ab_1 conda-forge qtconsole-base 5.2.2 pyhd8ed1ab_1 conda-forge qtpy 2.0.1 pyhd8ed1ab_0 conda-forge readlif 0.6.5 pypi_0 pypi readline 8.1 hedafd6a_0 conda-forge requests 2.27.1 pyhd8ed1ab_0 conda-forge scikit-image 0.19.1 py39h7f752ed_0 conda-forge scipy 1.8.0 py39h5060c3b_1 conda-forge send2trash 1.8.0 pypi_0 pypi setuptools 59.8.0 py39h2804cbe_0 conda-forge shellingham 1.4.0 pyh44b312d_0 conda-forge sip 6.1.0 py39h8a0c2ca_2 andfoy six 1.16.0 pyh6c4a22f_0 conda-forge slicerator 1.0.0 py_0 conda-forge snappy 1.1.8 hc88da5d_3 conda-forge snowballstemmer 2.2.0 pyhd8ed1ab_0 conda-forge sortedcontainers 2.4.0 pyhd8ed1ab_0 conda-forge sphinx 4.3.2 pyh6c4a22f_0 conda-forge sphinxcontrib-applehelp 1.0.2 py_0 conda-forge sphinxcontrib-devhelp 1.0.2 py_0 conda-forge sphinxcontrib-htmlhelp 2.0.0 pyhd8ed1ab_0 conda-forge sphinxcontrib-jsmath 1.0.1 py_0 conda-forge sphinxcontrib-qthelp 1.0.3 py_0 conda-forge sphinxcontrib-serializinghtml 1.1.5 pyhd8ed1ab_1 conda-forge sqlite 3.37.0 h72a2b83_0 conda-forge stack_data 0.1.4 pyhd8ed1ab_0 conda-forge superqt 0.2.5.post1 pyhd8ed1ab_0 conda-forge tblib 1.7.0 pyhd8ed1ab_0 conda-forge terminado 0.13.1 pypi_0 pypi testpath 0.5.0 pypi_0 pypi tifffile 2022.2.2 pyhd8ed1ab_0 conda-forge tk 8.6.11 he1e0b03_1 conda-forge toml 0.10.2 pyhd8ed1ab_0 conda-forge tomli 2.0.1 pyhd8ed1ab_0 conda-forge toolz 0.11.2 pyhd8ed1ab_0 conda-forge tornado 6.1 py39h5161555_2 conda-forge tqdm 4.62.3 pyhd8ed1ab_0 conda-forge traitlets 5.1.1 pyhd8ed1ab_0 conda-forge transforms3d 0.3.1 pypi_0 pypi typed-ast 1.5.2 py39h5161555_0 conda-forge typer 0.4.0 pyhd8ed1ab_0 conda-forge typing-extensions 4.0.1 hd8ed1ab_0 conda-forge typing_extensions 4.0.1 pyha770c72_0 conda-forge tzdata 2021e he74cb21_0 conda-forge unicodedata2 14.0.0 py39h5161555_0 conda-forge urllib3 1.26.8 pyhd8ed1ab_1 conda-forge vispy 0.9.6 py39h5861bad_0 conda-forge wcwidth 0.2.5 pyh9f0ad1d_2 conda-forge webencodings 0.5.1 pypi_0 pypi wheel 0.37.1 pyhd8ed1ab_0 conda-forge widgetsnbextension 3.5.2 pypi_0 pypi wrapt 1.13.3 py39h5161555_1 conda-forge wurlitzer 3.0.2 pypi_0 pypi x264 1!161.3030 h3422bc3_1 conda-forge xarray 0.21.1 pyhd8ed1ab_0 conda-forge xmlschema 1.4.1 pyhd8ed1ab_0 conda-forge xorg-libxau 1.0.9 h27ca646_0 conda-forge xorg-libxdmcp 1.1.3 h27ca646_0 conda-forge xz 5.2.5 h642e427_1 conda-forge yaml 0.2.5 h3422bc3_2 conda-forge yarl 1.7.2 pypi_0 pypi zarr 2.11.0 pyhd8ed1ab_0 conda-forge zeromq 4.3.4 hbdafb3b_1 conda-forge zfp 0.5.5 hcfdfaf5_8 conda-forge zict 2.0.0 py_0 conda-forge zipp 3.7.0 pyhd8ed1ab_1 conda-forge zlib 1.2.11 hee7b306_1013 conda-forge zstd 1.5.2 h861e0a7_0 conda-forge ```

BTW, im curious about your pyqt5 and tensorflow 2.8 from pypi--is your M1 env an x86 rosetta one? That would be a pretty big difference from my arm64 env.

haesleinhuepf commented 2 years ago

-is your M1 env an x86 rosetta one?

How can I find that out?

psobolewskiPhD commented 2 years ago

You can use lipo -info on your python binary.

╰─ which python                                                   (napari-CL) ─╯
/Users/piotrsobolewski/Dev/miniforge3/envs/napari-CL/bin/python
╭─ ~ ···································································· ✔ ─╮
╰─ lipo -info /Users/piotrsobolewski/Dev/miniforge3/envs/napari-CL/bin/python

Non-fat file: /Users/piotrsobolewski/Dev/miniforge3/envs/napari-CL/bin/python is architecture: arm64

Is your conda from conda-forge or anaconda? the latter is x86 only I believe. The former has arm64 (and is endorsed by Apple).

conda info:

 active environment : napari-CL
    active env location : /Users/piotrsobolewski/Dev/miniforge3/envs/napari-CL
            shell level : 2
       user config file : /Users/piotrsobolewski/.condarc
 populated config files : /Users/piotrsobolewski/Dev/miniforge3/.condarc
                          /Users/piotrsobolewski/.condarc
          conda version : 4.11.0
    conda-build version : not installed
         python version : 3.10.2.final.0
       virtual packages : __osx=12.1=0
                          __unix=0=0
                          __archspec=1=arm64
       base environment : /Users/piotrsobolewski/Dev/miniforge3  (writable)
      conda av data dir : /Users/piotrsobolewski/Dev/miniforge3/etc/conda
  conda av metadata url : None
           channel URLs : https://conda.anaconda.org/conda-forge/osx-arm64
                          https://conda.anaconda.org/conda-forge/noarch
          package cache : /Users/piotrsobolewski/Dev/miniforge3/pkgs
                          /Users/piotrsobolewski/.conda/pkgs
       envs directories : /Users/piotrsobolewski/Dev/miniforge3/envs
                          /Users/piotrsobolewski/.conda/envs
               platform : osx-arm64
             user-agent : conda/4.11.0 requests/2.27.1 CPython/3.10.2 Darwin/21.2.0 OSX/12.1
                UID:GID : 501:20
             netrc file : None
           offline mode : False

haesleinhuepf commented 2 years ago

You can use lipo -info on your python binary.

Non-fat file: /Users/haase/opt/anaconda3/envs/bio_39/bin/python is architecture: x86_64

I'm not sure how to proceed from here. My experience with rosetta and arm is limited.

psobolewskiPhD commented 2 years ago

So that confirms you're using x86 python env from anaconda, so if you're on an M1 mac it's running in emulation via so-called Rosetta2. This would suggest the issue I'm experiencing in my native arm64 env may be related to architecture differences between x86 and arm64.

clEsperanto / napari_pyclesperanto_assistant

Connected component labeling returns error on macOS M1 #49