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BiAPoL / napari-crop

BSD 3-Clause "New" or "Revised" License
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Installation with mamba/conda not working #47

Open zoccoler opened 1 year ago

zoccoler commented 1 year ago

When installing with conda like this (on Windows 10 using Miniforge Prompt):

conda create -n napari-crop-env python=3.9
conda activate napari-crop-env
conda install -c conda-forge napari napari-crop

the environment never solves itself.

When creating with mamba:

mamba create -n napari-crop-env python=3.9
mamba activate napari-crop-env
mamba install napari-crop

The packages are installed, but when one calls napari from the prompt, this error shows up:

C:\Users\mazo260d\mambaforge\envs\napari-crop-env\lib\site-packages\scipy\__init__.py:155: UserWarning: A NumPy version >=1.18.5 and <1.25.0 is required for this version of SciPy (detected version 1.25.0
  warnings.warn(f"A NumPy version >={np_minversion} and <{np_maxversion}"
Traceback (most recent call last):
  File "C:\Users\mazo260d\mambaforge\envs\napari-crop-env\Scripts\napari-script.py", line 5, in <module>
    from napari.__main__ import main
  File "C:\Users\mazo260d\mambaforge\envs\napari-crop-env\lib\site-packages\napari\__main__.py", line 16, in <module>
    from .utils.translations import trans
  File "C:\Users\mazo260d\mambaforge\envs\napari-crop-env\lib\site-packages\napari\utils\__init__.py", line 2, in <module>
    from .colormaps import Colormap
  File "C:\Users\mazo260d\mambaforge\envs\napari-crop-env\lib\site-packages\napari\utils\colormaps\__init__.py", line 2, in <module>
    from .colormap import Colormap
  File "C:\Users\mazo260d\mambaforge\envs\napari-crop-env\lib\site-packages\napari\utils\colormaps\colormap.py", line 9, in <module>
    from ..events import EventedModel
  File "C:\Users\mazo260d\mambaforge\envs\napari-crop-env\lib\site-packages\napari\utils\events\__init__.py", line 15, in <module>
    from .evented_model import EventedModel
  File "C:\Users\mazo260d\mambaforge\envs\napari-crop-env\lib\site-packages\napari\utils\events\evented_model.py", line 66, in <module>
    class EventedMetaclass(main.ModelMetaclass):
  File "C:\Users\mazo260d\mambaforge\envs\napari-crop-env\lib\site-packages\pydantic\_migration.py", line 289, in wrapper
    raise AttributeError(f'module {__name__!r} has no attribute {name!r}')
AttributeError: module 'pydantic._migration' has no attribute 'ModelMetaclass'

Here are the packages installed in the environment created with mamba:

Click me ``` # packages in environment at C:\Users\mazo260d\mambaforge\envs\napari-crop-env: # # Name Version Build Channel alabaster 0.7.13 pyhd8ed1ab_0 conda-forge annotated-types 0.5.0 pyhd8ed1ab_0 conda-forge aom 3.5.0 h63175ca_0 conda-forge app-model 0.1.4 pyhd8ed1ab_0 conda-forge appdirs 1.4.4 pyh9f0ad1d_0 conda-forge asciitree 0.3.3 py_2 conda-forge asttokens 2.2.1 pyhd8ed1ab_0 conda-forge attrs 23.1.0 pyh71513ae_1 conda-forge autopep8 2.0.2 pyhd8ed1ab_0 conda-forge aws-c-auth 0.6.28 habb20d3_5 conda-forge aws-c-cal 0.5.27 hc655790_0 conda-forge aws-c-common 0.8.20 hcfcfb64_0 conda-forge aws-c-compression 0.2.17 h0a579c1_0 conda-forge aws-c-event-stream 0.3.0 h92d84d2_6 conda-forge aws-c-http 0.7.8 haeac8d2_4 conda-forge aws-c-io 0.13.26 hf956cbd_0 conda-forge aws-c-mqtt 0.8.13 h73587ab_2 conda-forge aws-c-s3 0.3.4 h26b4012_5 conda-forge aws-c-sdkutils 0.1.10 h0a579c1_0 conda-forge aws-checksums 0.1.16 h0a579c1_0 conda-forge aws-crt-cpp 0.20.2 h0db1998_9 conda-forge aws-sdk-cpp 1.10.57 ha442f66_14 conda-forge babel 2.12.1 pyhd8ed1ab_1 conda-forge backcall 0.2.0 pyh9f0ad1d_0 conda-forge backports 1.0 pyhd8ed1ab_3 conda-forge backports.functools_lru_cache 1.6.5 pyhd8ed1ab_0 conda-forge blosc 1.21.4 hdccc3a2_0 conda-forge bokeh 3.2.0 pyhd8ed1ab_0 conda-forge brotli-python 1.0.9 py39h99910a6_9 conda-forge bzip2 1.0.8 h8ffe710_4 conda-forge c-ares 1.19.1 hcfcfb64_0 conda-forge c-blosc2 2.9.3 h183a6f4_0 conda-forge ca-certificates 2023.5.7 h56e8100_0 conda-forge cachey 0.2.1 pyh9f0ad1d_0 conda-forge certifi 2023.5.7 pyhd8ed1ab_0 conda-forge cfitsio 4.2.0 h9ebe7e4_0 conda-forge charls 2.4.2 h1537add_0 conda-forge charset-normalizer 3.1.0 pyhd8ed1ab_0 conda-forge click 8.1.3 win_pyhd8ed1ab_2 conda-forge cloudpickle 2.2.1 pyhd8ed1ab_0 conda-forge colorama 0.4.6 pyhd8ed1ab_0 conda-forge comm 0.1.3 pyhd8ed1ab_0 conda-forge contourpy 1.1.0 py39h1f6ef14_0 conda-forge cytoolz 0.12.0 py39ha55989b_1 conda-forge dask 2023.6.1 pyhd8ed1ab_0 conda-forge dask-core 2023.6.1 pyhd8ed1ab_0 conda-forge dav1d 1.2.1 hcfcfb64_0 conda-forge debugpy 1.6.7 py39h99910a6_0 conda-forge decorator 5.1.1 pyhd8ed1ab_0 conda-forge distributed 2023.6.1 pyhd8ed1ab_0 conda-forge docstring_parser 0.15 pyhd8ed1ab_0 conda-forge docutils 0.17.1 py39hcbf5309_3 conda-forge entrypoints 0.4 pyhd8ed1ab_0 conda-forge executing 1.2.0 pyhd8ed1ab_0 conda-forge fasteners 0.17.3 pyhd8ed1ab_0 conda-forge freetype 2.12.1 h546665d_1 conda-forge freetype-py 2.4.0 pyhd8ed1ab_0 conda-forge fsspec 2023.6.0 pyh1a96a4e_0 conda-forge gettext 0.21.1 h5728263_0 conda-forge giflib 5.2.1 h64bf75a_3 conda-forge glib 2.76.3 h12be248_0 conda-forge glib-tools 2.76.3 h12be248_0 conda-forge gst-plugins-base 1.22.4 h001b923_0 conda-forge gstreamer 1.22.4 hb4038d2_0 conda-forge heapdict 1.0.1 py_0 conda-forge hsluv 5.0.2 pyh44b312d_0 conda-forge icu 72.1 h63175ca_0 conda-forge idna 3.4 pyhd8ed1ab_0 conda-forge imagecodecs 2023.1.23 py39hd475b99_2 conda-forge imageio 2.31.1 pyh24c5eb1_0 conda-forge imagesize 1.4.1 pyhd8ed1ab_0 conda-forge importlib-metadata 6.7.0 pyha770c72_0 conda-forge importlib_metadata 6.7.0 hd8ed1ab_0 conda-forge importlib_resources 5.12.0 pyhd8ed1ab_0 conda-forge in-n-out 0.1.7 pyhd8ed1ab_0 conda-forge intel-openmp 2023.1.0 h57928b3_46319 conda-forge ipykernel 6.23.3 pyh6817e22_0 conda-forge ipython 8.14.0 pyh08f2357_0 conda-forge ipython_genutils 0.2.0 py_1 conda-forge jedi 0.18.2 pyhd8ed1ab_0 conda-forge jinja2 3.1.2 pyhd8ed1ab_1 conda-forge jsonschema 4.17.3 pyhd8ed1ab_0 conda-forge jupyter_client 8.3.0 pyhd8ed1ab_0 conda-forge jupyter_core 5.3.1 py39hcbf5309_0 conda-forge jxrlib 1.1 h8ffe710_2 conda-forge kiwisolver 1.4.4 py39h1f6ef14_1 conda-forge krb5 1.20.1 heb0366b_0 conda-forge lazy_loader 0.2 pyhd8ed1ab_0 conda-forge lcms2 2.15 h3e3b177_1 conda-forge lerc 4.0.0 h63175ca_0 conda-forge libabseil 20230125.3 cxx17_h63175ca_0 conda-forge libaec 1.0.6 h63175ca_1 conda-forge libarrow 12.0.1 hbf49b3f_2_cpu conda-forge libavif 0.11.1 ha7b97ba_2 conda-forge libblas 3.9.0 17_win64_mkl conda-forge libbrotlicommon 1.0.9 hcfcfb64_9 conda-forge libbrotlidec 1.0.9 hcfcfb64_9 conda-forge libbrotlienc 1.0.9 hcfcfb64_9 conda-forge libcblas 3.9.0 17_win64_mkl conda-forge libclang 15.0.7 default_h77d9078_2 conda-forge libclang13 15.0.7 default_h77d9078_2 conda-forge libcrc32c 1.1.2 h0e60522_0 conda-forge libcurl 8.1.2 h68f0423_0 conda-forge libdeflate 1.18 hcfcfb64_0 conda-forge libevent 2.1.12 h3671451_1 conda-forge libffi 3.4.2 h8ffe710_5 conda-forge libglib 2.76.3 he8f3873_0 conda-forge libgoogle-cloud 2.12.0 hbc1b25b_1 conda-forge libgrpc 1.56.0 hea2d5f7_2 conda-forge libhwloc 2.9.1 nocuda_h15da153_6 conda-forge libiconv 1.17 h8ffe710_0 conda-forge libjpeg-turbo 2.1.5.1 hcfcfb64_0 conda-forge liblapack 3.9.0 17_win64_mkl conda-forge libogg 1.3.4 h8ffe710_1 conda-forge libpng 1.6.39 h19919ed_0 conda-forge libprotobuf 4.23.3 h1975477_0 conda-forge libsodium 1.0.18 h8d14728_1 conda-forge libsqlite 3.42.0 hcfcfb64_0 conda-forge libssh2 1.11.0 h7dfc565_0 conda-forge libthrift 0.18.1 h06f6336_2 conda-forge libtiff 4.5.1 h6c8260b_0 conda-forge libutf8proc 2.8.0 h82a8f57_0 conda-forge libvorbis 1.3.7 h0e60522_0 conda-forge libwebp-base 1.3.1 hcfcfb64_0 conda-forge libxcb 1.15 hcd874cb_0 conda-forge libxml2 2.11.4 hc3477c8_0 conda-forge libzlib 1.2.13 hcfcfb64_5 conda-forge libzopfli 1.0.3 h0e60522_0 conda-forge locket 1.0.0 pyhd8ed1ab_0 conda-forge lz4 4.3.2 py39hf617134_0 conda-forge lz4-c 1.9.4 hcfcfb64_0 conda-forge m2w64-gcc-libgfortran 5.3.0 6 conda-forge m2w64-gcc-libs 5.3.0 7 conda-forge m2w64-gcc-libs-core 5.3.0 7 conda-forge m2w64-gmp 6.1.0 2 conda-forge m2w64-libwinpthread-git 5.0.0.4634.697f757 2 conda-forge magicgui 0.7.2 pyhd8ed1ab_0 conda-forge markdown-it-py 3.0.0 pyhd8ed1ab_0 conda-forge markupsafe 2.1.3 py39ha55989b_0 conda-forge matplotlib-inline 0.1.6 pyhd8ed1ab_0 conda-forge mdurl 0.1.0 pyhd8ed1ab_0 conda-forge mkl 2022.1.0 h6a75c08_874 conda-forge msgpack-python 1.0.5 py39h1f6ef14_0 conda-forge msys2-conda-epoch 20160418 1 conda-forge mypy_extensions 1.0.0 pyha770c72_0 conda-forge napari 0.4.17 pyh275ddea_0_pyqt conda-forge napari-console 0.0.8 pyhd8ed1ab_0 conda-forge napari-crop 0.1.9 pyhd8ed1ab_0 conda-forge napari-plugin-engine 0.2.0 pyhd8ed1ab_2 conda-forge napari-svg 0.1.10 pyhd8ed1ab_0 conda-forge napari-tools-menu 0.1.19 pyhd8ed1ab_0 conda-forge napari-workflows 0.2.9 pyhd8ed1ab_0 conda-forge nest-asyncio 1.5.6 pyhd8ed1ab_0 conda-forge networkx 3.1 pyhd8ed1ab_0 conda-forge npe2 0.6.2 pyhd8ed1ab_0 conda-forge numcodecs 0.11.0 py39h99910a6_1 conda-forge numpy 1.25.0 py39h816b6a6_0 conda-forge numpydoc 1.5.0 pyhd8ed1ab_0 conda-forge openjpeg 2.5.0 ha2aaf27_2 conda-forge openssl 3.1.1 hcfcfb64_1 conda-forge orc 1.9.0 hf2b8f0d_1 conda-forge packaging 23.1 pyhd8ed1ab_0 conda-forge pandas 2.0.3 py39h1679cfb_0 conda-forge parso 0.8.3 pyhd8ed1ab_0 conda-forge partd 1.4.0 pyhd8ed1ab_0 conda-forge pcre2 10.40 h17e33f8_0 conda-forge pickleshare 0.7.5 py_1003 conda-forge pillow 10.0.0 py39ha9166d5_0 conda-forge pint 0.22 pyhd8ed1ab_1 conda-forge pip 23.1.2 pyhd8ed1ab_0 conda-forge pkgutil-resolve-name 1.3.10 pyhd8ed1ab_0 conda-forge platformdirs 3.8.0 pyhd8ed1ab_0 conda-forge ply 3.11 py_1 conda-forge pooch 1.7.0 pyha770c72_3 conda-forge prompt-toolkit 3.0.38 pyha770c72_0 conda-forge prompt_toolkit 3.0.38 hd8ed1ab_0 conda-forge psutil 5.9.5 py39ha55989b_0 conda-forge psygnal 0.9.0 pyhd8ed1ab_0 conda-forge pthread-stubs 0.4 hcd874cb_1001 conda-forge pthreads-win32 2.9.1 hfa6e2cd_3 conda-forge pure_eval 0.2.2 pyhd8ed1ab_0 conda-forge pyarrow 12.0.1 py39hca4e8af_2_cpu conda-forge pycodestyle 2.10.0 pyhd8ed1ab_0 conda-forge pydantic 2.0 py39ha55989b_0 conda-forge pydantic-core 2.0.1 py39hf21820d_0 conda-forge pygments 2.15.1 pyhd8ed1ab_0 conda-forge pyopengl 3.1.6 pyhd8ed1ab_1 conda-forge pyproject_hooks 1.0.0 pyhd8ed1ab_0 conda-forge pyqt 5.15.7 py39hb77abff_3 conda-forge pyqt5-sip 12.11.0 py39h99910a6_3 conda-forge pyrsistent 0.19.3 py39ha55989b_0 conda-forge pysocks 1.7.1 pyh0701188_6 conda-forge python 3.9.16 h4de0772_0_cpython conda-forge python-build 0.10.0 pyhd8ed1ab_1 conda-forge python-dateutil 2.8.2 pyhd8ed1ab_0 conda-forge python-tzdata 2023.3 pyhd8ed1ab_0 conda-forge python_abi 3.9 3_cp39 conda-forge pytomlpp 1.0.13 py39h1f6ef14_0 conda-forge pytz 2023.3 pyhd8ed1ab_0 conda-forge pywavelets 1.4.1 py39hc266a54_0 conda-forge pywin32 304 py39h99910a6_2 conda-forge pyyaml 6.0 py39ha55989b_5 conda-forge pyzmq 25.1.0 py39hea35a22_0 conda-forge qt-main 5.15.8 h2c8576c_14 conda-forge qtconsole-base 5.4.3 pyha770c72_0 conda-forge qtpy 2.3.1 pyhd8ed1ab_0 conda-forge re2 2023.03.02 hd4eee63_0 conda-forge requests 2.31.0 pyhd8ed1ab_0 conda-forge rich 13.4.2 pyhd8ed1ab_0 conda-forge scikit-image 0.20.0 py39h1679cfb_1 conda-forge scipy 1.9.1 py39h316f440_0 conda-forge setuptools 68.0.0 pyhd8ed1ab_0 conda-forge shellingham 1.5.1 pyhd8ed1ab_0 conda-forge sip 6.7.9 py39h99910a6_0 conda-forge six 1.16.0 pyh6c4a22f_0 conda-forge snappy 1.1.10 hfb803bf_0 conda-forge snowballstemmer 2.2.0 pyhd8ed1ab_0 conda-forge sortedcontainers 2.4.0 pyhd8ed1ab_0 conda-forge sphinx 4.5.0 pyh6c4a22f_0 conda-forge sphinxcontrib-applehelp 1.0.4 pyhd8ed1ab_0 conda-forge sphinxcontrib-devhelp 1.0.2 py_0 conda-forge sphinxcontrib-htmlhelp 2.0.1 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_2 conda-forge stack_data 0.6.2 pyhd8ed1ab_0 conda-forge superqt 0.4.1 pyhd8ed1ab_0 conda-forge tbb 2021.9.0 h91493d7_0 conda-forge tblib 1.7.0 pyhd8ed1ab_0 conda-forge tifffile 2023.4.12 pyhd8ed1ab_0 conda-forge tk 8.6.12 h8ffe710_0 conda-forge toml 0.10.2 pyhd8ed1ab_0 conda-forge tomli 2.0.1 pyhd8ed1ab_0 conda-forge toolz 0.12.0 pyhd8ed1ab_0 conda-forge tornado 6.3.2 py39ha55989b_0 conda-forge tqdm 4.65.0 pyhd8ed1ab_1 conda-forge traitlets 5.9.0 pyhd8ed1ab_0 conda-forge typer 0.9.0 pyhd8ed1ab_0 conda-forge typing-extensions 4.7.1 hd8ed1ab_0 conda-forge typing_extensions 4.7.1 pyha770c72_0 conda-forge tzdata 2023c h71feb2d_0 conda-forge ucrt 10.0.22621.0 h57928b3_0 conda-forge urllib3 2.0.3 pyhd8ed1ab_1 conda-forge vc 14.3 h64f974e_17 conda-forge vc14_runtime 14.36.32532 hfdfe4a8_17 conda-forge vispy 0.11.0 py39hc266a54_1 conda-forge vs2015_runtime 14.36.32532 h05e6639_17 conda-forge wcwidth 0.2.6 pyhd8ed1ab_0 conda-forge wheel 0.40.0 pyhd8ed1ab_0 conda-forge win_inet_pton 1.1.0 pyhd8ed1ab_6 conda-forge wrapt 1.15.0 py39ha55989b_0 conda-forge xorg-libxau 1.0.11 hcd874cb_0 conda-forge xorg-libxdmcp 1.1.3 hcd874cb_0 conda-forge xyzservices 2023.5.0 pyhd8ed1ab_1 conda-forge xz 5.2.6 h8d14728_0 conda-forge yaml 0.2.5 h8ffe710_2 conda-forge zarr 2.15.0 pyhd8ed1ab_0 conda-forge zeromq 4.3.4 h0e60522_1 conda-forge zfp 1.0.0 h63175ca_3 conda-forge zict 3.0.0 pyhd8ed1ab_0 conda-forge zipp 3.15.0 pyhd8ed1ab_0 conda-forge zlib-ng 2.0.7 hcfcfb64_0 conda-forge zstd 1.5.2 h12be248_6 conda-forge ```
zoccoler commented 1 year ago

Following a discussion on napari zulip chat, downgrading to pydantic<2 is the current workaround solution. mamba install pydantic=1.10.10 -c conda-forge