Installing DeepSlice on macos M1 (arm64) #48
Comments
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Hey! Because I cannot install it on my macOS, I've been using the website provided to align my brain slices. However, it hasn't been working for some days. Please, the error message from the attached screenshot.
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Hey the website is back online :) Unfortunately I do not have an arm mac so I cant trouble shoot installation on that platform. |
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Thanks! I'll try to contribute implementing the package for m1 |
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have you tried this? #32 (comment) |
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Yes, I have tried a similar approach. Unfortunately it didn't work for me. If I try to use your example notebook the kernel crashes when I try to import DSModel, like #50 . Running it from my python console I get >>> from DeepSlice import DSModel |
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Hey, DeepSlice now supports tf2, this may fix your issue |
Hey! I'm trying to install this tool on macos arm64 architecture. I guess this package is not implemented for this kind of architecture.
I created a new environment with intelx86 miniconda, and used python 3.7 as you described (this version is not available for arm64 architecture). After creating the environment, I installed DeepSlice via pip.
Although I think I successfully installed it (
pip listDeepSlice 1.1.6), when I try to import DeepSlice:zsh: illegal hardware instruction python. I get same error when I try toimport tensorflow as tf.If I use jupyter notebook on visual studio code, and I try to
from DeepSlice improt DSModel, I getRunning cells with 'DeepSlice' requires the ipykernel package. Run the following command to install 'ipykernel' into the Python environment. Command: 'conda install -n DeepSlice ipykernel --update-deps --force-reinstall'Although I run the suggested command, I get this error continuously.
If I try to use the conda file provided in the repository, I get following errors:
`(base) annateruel@MacBook-MacBook-Pro-de-Anna conda_environments % conda env create -f DS-CPU.yml
Channels:
Platform: osx-64
Collecting package metadata (repodata.json): done
Solving environment: | warning libmamba Problem type not implemented SOLVER_RULE_STRICT_REPO_PRIORITY
warning libmamba Problem type not implemented SOLVER_RULE_STRICT_REPO_PRIORITY
warning libmamba Problem type not implemented SOLVER_RULE_STRICT_REPO_PRIORITY
warning libmamba Problem type not implemented SOLVER_RULE_STRICT_REPO_PRIORITY
warning libmamba Problem type not implemented SOLVER_RULE_STRICT_REPO_PRIORITY
warning libmamba Problem type not implemented SOLVER_RULE_STRICT_REPO_PRIORITY
warning libmamba Problem type not implemented SOLVER_RULE_STRICT_REPO_PRIORITY
warning libmamba Problem type not implemented SOLVER_RULE_STRICT_REPO_PRIORITY
/ warning libmamba Problem type not implemented SOLVER_RULE_STRICT_REPO_PRIORITY
warning libmamba Problem type not implemented SOLVER_RULE_STRICT_REPO_PRIORITY
warning libmamba Problem type not implemented SOLVER_RULE_STRICT_REPO_PRIORITY
warning libmamba Problem type not implemented SOLVER_RULE_STRICT_REPO_PRIORITY
warning libmamba Problem type not implemented SOLVER_RULE_STRICT_REPO_PRIORITY
warning libmamba Problem type not implemented SOLVER_RULE_STRICT_REPO_PRIORITY
warning libmamba Problem type not implemented SOLVER_RULE_STRICT_REPO_PRIORITY
warning libmamba Problem type not implemented SOLVER_RULE_STRICT_REPO_PRIORITY
warning libmamba Problem type not implemented SOLVER_RULE_STRICT_REPO_PRIORITY
warning libmamba Problem type not implemented SOLVER_RULE_STRICT_REPO_PRIORITY
warning libmamba Problem type not implemented SOLVER_RULE_STRICT_REPO_PRIORITY
warning libmamba Problem type not implemented SOLVER_RULE_STRICT_REPO_PRIORITY
warning libmamba Problem type not implemented SOLVER_RULE_STRICT_REPO_PRIORITY
warning libmamba Problem type not implemented SOLVER_RULE_STRICT_REPO_PRIORITY
warning libmamba Problem type not implemented SOLVER_RULE_STRICT_REPO_PRIORITY
warning libmamba Problem type not implemented SOLVER_RULE_STRICT_REPO_PRIORITY
failed
Channels:
Platform: osx-64
Collecting package metadata (repodata.json): done
Solving environment: \ warning libmamba Problem type not implemented SOLVER_RULE_STRICT_REPO_PRIORITY
warning libmamba Problem type not implemented SOLVER_RULE_STRICT_REPO_PRIORITY
warning libmamba Problem type not implemented SOLVER_RULE_STRICT_REPO_PRIORITY
warning libmamba Problem type not implemented SOLVER_RULE_STRICT_REPO_PRIORITY
warning libmamba Problem type not implemented SOLVER_RULE_STRICT_REPO_PRIORITY
warning libmamba Problem type not implemented SOLVER_RULE_STRICT_REPO_PRIORITY
warning libmamba Problem type not implemented SOLVER_RULE_STRICT_REPO_PRIORITY
warning libmamba Problem type not implemented SOLVER_RULE_STRICT_REPO_PRIORITY
/ warning libmamba Problem type not implemented SOLVER_RULE_STRICT_REPO_PRIORITY
warning libmamba Problem type not implemented SOLVER_RULE_STRICT_REPO_PRIORITY
warning libmamba Problem type not implemented SOLVER_RULE_STRICT_REPO_PRIORITY
warning libmamba Problem type not implemented SOLVER_RULE_STRICT_REPO_PRIORITY
warning libmamba Problem type not implemented SOLVER_RULE_STRICT_REPO_PRIORITY
warning libmamba Problem type not implemented SOLVER_RULE_STRICT_REPO_PRIORITY
warning libmamba Problem type not implemented SOLVER_RULE_STRICT_REPO_PRIORITY
warning libmamba Problem type not implemented SOLVER_RULE_STRICT_REPO_PRIORITY
warning libmamba Problem type not implemented SOLVER_RULE_STRICT_REPO_PRIORITY
warning libmamba Problem type not implemented SOLVER_RULE_STRICT_REPO_PRIORITY
warning libmamba Problem type not implemented SOLVER_RULE_STRICT_REPO_PRIORITY
warning libmamba Problem type not implemented SOLVER_RULE_STRICT_REPO_PRIORITY
warning libmamba Problem type not implemented SOLVER_RULE_STRICT_REPO_PRIORITY
warning libmamba Problem type not implemented SOLVER_RULE_STRICT_REPO_PRIORITY
warning libmamba Problem type not implemented SOLVER_RULE_STRICT_REPO_PRIORITY
warning libmamba Problem type not implemented SOLVER_RULE_STRICT_REPO_PRIORITY
failed
LibMambaUnsatisfiableError: Encountered problems while solving:
Could not solve for environment specs
The following packages are incompatible
├─ _openmp_mutex ==4.5 1_gnu does not exist (perhaps a typo or a missing channel);
├─ aiohttp ==3.8.1 py37h7f8727e_0 does not exist (perhaps a typo or a missing channel);
├─ anyio ==3.5.0 py37h06a4308_0 does not exist (perhaps a typo or a missing channel);
├─ argon2-cffi-bindings ==21.2.0 py37h7f8727e_0 does not exist (perhaps a typo or a missing channel);
├─ astor ==0.8.1 py37h06a4308_0 does not exist (perhaps a typo or a missing channel);
├─ blinker ==1.4 py37h06a4308_0 does not exist (perhaps a typo or a missing channel);
├─ blosc ==1.21.0 h8c45485_0 does not exist (perhaps a typo or a missing channel);
├─ bottleneck ==1.3.4 py37hce1f21e_0 does not exist (perhaps a typo or a missing channel);
├─ brotli ==1.0.9 he6710b0_2 does not exist (perhaps a typo or a missing channel);
├─ brotlipy ==0.7.0 py37h27cfd23_1003 does not exist (perhaps a typo or a missing channel);
├─ brunsli ==0.1 h2531618_0 does not exist (perhaps a typo or a missing channel);
├─ bzip2 ==1.0.8 h7b6447c_0 does not exist (perhaps a typo or a missing channel);
├─ c-ares ==1.18.1 h7f8727e_0 does not exist (perhaps a typo or a missing channel);
├─ ca-certificates ==2022.4.26 h06a4308_0 does not exist (perhaps a typo or a missing channel);
├─ certifi ==2022.5.18.1 py37h06a4308_0 does not exist (perhaps a typo or a missing channel);
├─ cffi ==1.15.0 py37hd667e15_1 does not exist (perhaps a typo or a missing channel);
├─ cfitsio ==3.470 hf0d0db6_6 does not exist (perhaps a typo or a missing channel);
├─ charls ==2.2.0 h2531618_0 does not exist (perhaps a typo or a missing channel);
├─ cryptography ==36.0.0 py37h9ce1e76_0 does not exist (perhaps a typo or a missing channel);
├─ curl ==7.80.0 h7f8727e_0 does not exist (perhaps a typo or a missing channel);
├─ cytoolz ==0.11.0 py37h7b6447c_0 does not exist (perhaps a typo or a missing channel);
├─ debugpy ==1.5.1 py37h295c915_0 does not exist (perhaps a typo or a missing channel);
├─ expat ==2.4.4 h295c915_0 does not exist (perhaps a typo or a missing channel);
├─ flask ==1.1.2 pyhd3eb1b0_0 is installable and it requires
│ └─ jinja2 >=2.10.1,<3.0 , which can be installed;
├─ freetype ==2.11.0 h70c0345_0 does not exist (perhaps a typo or a missing channel);
├─ frozenlist ==1.2.0 py37h7f8727e_0 does not exist (perhaps a typo or a missing channel);
├─ gettext ==0.21.0 hf68c758_0 does not exist (perhaps a typo or a missing channel);
├─ giflib ==5.2.1 h7b6447c_0 does not exist (perhaps a typo or a missing channel);
├─ git ==2.34.1 pl5262hc120c5b_0 does not exist (perhaps a typo or a missing channel);
├─ grpcio ==1.42.0 py37hce63b2e_0 does not exist (perhaps a typo or a missing channel);
├─ h5py ==2.10.0 py37hd6299e0_1 does not exist (perhaps a typo or a missing channel);
├─ hdf5 ==1.10.6 hb1b8bf9_0 does not exist (perhaps a typo or a missing channel);
├─ icu ==58.2 he6710b0_3 does not exist (perhaps a typo or a missing channel);
├─ imagecodecs ==2021.8.26 py37h4cda21f_0 does not exist (perhaps a typo or a missing channel);
├─ importlib-metadata ==4.8.2 py37h06a4308_0 does not exist (perhaps a typo or a missing channel);
├─ intel-openmp ==2021.4.0 h06a4308_3561 does not exist (perhaps a typo or a missing channel);
├─ ipykernel ==6.4.1 py37h06a4308_1 does not exist (perhaps a typo or a missing channel);
├─ ipython ==7.31.1 py37h06a4308_0 does not exist (perhaps a typo or a missing channel);
├─ jinja2 ==3.0.2 pyhd3eb1b0_0 is not installable because it conflicts with any installable versions previously reported;
├─ jpeg ==9d h7f8727e_0 does not exist (perhaps a typo or a missing channel);
├─ jupyter_core ==4.9.1 py37h06a4308_0 does not exist (perhaps a typo or a missing channel);
├─ jxrlib ==1.1 h7b6447c_2 does not exist (perhaps a typo or a missing channel);
├─ kiwisolver ==1.3.2 py37h295c915_0 does not exist (perhaps a typo or a missing channel);
├─ krb5 ==1.19.2 hac12032_0 does not exist (perhaps a typo or a missing channel);
├─ lcms2 ==2.12 h3be6417_0 does not exist (perhaps a typo or a missing channel);
├─ ld_impl_linux-64 ==2.35.1 h7274673_9 does not exist (perhaps a typo or a missing channel);
├─ lerc ==3.0 h295c915_0 does not exist (perhaps a typo or a missing channel);
├─ libaec ==1.0.4 he6710b0_1 does not exist (perhaps a typo or a missing channel);
├─ libcurl ==7.80.0 h0b77cf5_0 does not exist (perhaps a typo or a missing channel);
├─ libdeflate ==1.8 h7f8727e_5 does not exist (perhaps a typo or a missing channel);
├─ libedit ==3.1.20210910 h7f8727e_0 does not exist (perhaps a typo or a missing channel);
├─ libev ==4.33 h7f8727e_1 does not exist (perhaps a typo or a missing channel);
├─ libffi ==3.3 he6710b0_2 does not exist (perhaps a typo or a missing channel);
├─ libgcc-ng ==9.3.0 h5101ec6_17 does not exist (perhaps a typo or a missing channel);
├─ libgfortran-ng ==7.5.0 ha8ba4b0_17 does not exist (perhaps a typo or a missing channel);
├─ libgfortran4 ==7.5.0 ha8ba4b0_17 does not exist (perhaps a typo or a missing channel);
├─ libgomp ==9.3.0 h5101ec6_17 does not exist (perhaps a typo or a missing channel);
├─ libnghttp2 ==1.46.0 hce63b2e_0 does not exist (perhaps a typo or a missing channel);
├─ libpng ==1.6.37 hbc83047_0 does not exist (perhaps a typo or a missing channel);
├─ libprotobuf ==3.19.1 h4ff587b_0 does not exist (perhaps a typo or a missing channel);
├─ libsodium ==1.0.18 h7b6447c_0 does not exist (perhaps a typo or a missing channel);
├─ libssh2 ==1.9.0 h1ba5d50_1 does not exist (perhaps a typo or a missing channel);
├─ libstdcxx-ng ==9.3.0 hd4cf53a_17 does not exist (perhaps a typo or a missing channel);
├─ libtiff ==4.1.0 h2733197_1 does not exist (perhaps a typo or a missing channel);
├─ libwebp ==1.2.0 h89dd481_0 does not exist (perhaps a typo or a missing channel);
├─ libxml2 ==2.9.12 h03d6c58_0 does not exist (perhaps a typo or a missing channel);
├─ libxslt ==1.1.34 hc22bd24_0 does not exist (perhaps a typo or a missing channel);
├─ libzopfli ==1.0.3 he6710b0_0 does not exist (perhaps a typo or a missing channel);
├─ locket ==0.2.1 py37h06a4308_1 does not exist (perhaps a typo or a missing channel);
├─ lxml ==4.8.0 py37h1f438cf_0 does not exist (perhaps a typo or a missing channel);
├─ lz4-c ==1.9.3 h295c915_1 does not exist (perhaps a typo or a missing channel);
├─ markdown ==3.3.4 py37h06a4308_0 does not exist (perhaps a typo or a missing channel);
├─ markupsafe ==2.0.1 py37h27cfd23_0 does not exist (perhaps a typo or a missing channel);
├─ matplotlib-base ==3.5.1 py37ha18d171_0 does not exist (perhaps a typo or a missing channel);
├─ mistune ==0.8.4 py37h14c3975_1001 does not exist (perhaps a typo or a missing channel);
├─ mkl-service ==2.4.0 py37h7f8727e_0 does not exist (perhaps a typo or a missing channel);
├─ mkl ==2021.4.0 h06a4308_640 does not exist (perhaps a typo or a missing channel);
├─ mkl_fft ==1.3.1 py37hd3c417c_0 does not exist (perhaps a typo or a missing channel);
├─ mkl_random ==1.2.2 py37h51133e4_0 does not exist (perhaps a typo or a missing channel);
├─ multidict ==5.2.0 py37h7f8727e_2 does not exist (perhaps a typo or a missing channel);
├─ nbconvert ==6.3.0 py37h06a4308_0 does not exist (perhaps a typo or a missing channel);
├─ ncurses ==6.3 h7f8727e_2 does not exist (perhaps a typo or a missing channel);
├─ notebook ==6.4.8 py37h06a4308_0 does not exist (perhaps a typo or a missing channel);
├─ numexpr ==2.8.1 py37h6abb31d_0 does not exist (perhaps a typo or a missing channel);
├─ openjpeg ==2.4.0 h3ad879b_0 does not exist (perhaps a typo or a missing channel);
├─ openssl ==1.1.1o h7f8727e_0 does not exist (perhaps a typo or a missing channel);
├─ pcre2 ==10.37 he7ceb23_1 does not exist (perhaps a typo or a missing channel);
├─ perl ==5.26.2 h14c3975_0 does not exist (perhaps a typo or a missing channel);
├─ pillow ==8.4.0 py37h5aabda8_0 does not exist (perhaps a typo or a missing channel);
├─ pip ==21.2.2 py37h06a4308_0 does not exist (perhaps a typo or a missing channel);
├─ protobuf ==3.19.1 py37h295c915_0 does not exist (perhaps a typo or a missing channel);
├─ pyrsistent ==0.18.0 py37heee7806_0 does not exist (perhaps a typo or a missing channel);
├─ pysocks ==1.7.1 py37_1 does not exist (perhaps a typo or a missing channel);
├─ python ==3.7.11 h12debd9_0 does not exist (perhaps a typo or a missing channel);
├─ pywavelets ==1.1.1 py37h7b6447c_2 does not exist (perhaps a typo or a missing channel);
├─ pyyaml ==6.0 py37h7f8727e_1 does not exist (perhaps a typo or a missing channel);
├─ pyzmq ==22.3.0 py37h295c915_2 does not exist (perhaps a typo or a missing channel);
├─ readline ==8.1.2 h7f8727e_1 does not exist (perhaps a typo or a missing channel);
├─ scikit-image ==0.17.2 py37hdf5156a_0 does not exist (perhaps a typo or a missing channel);
├─ scikit-learn ==0.23.2 py37h0573a6f_0 does not exist (perhaps a typo or a missing channel);
├─ scipy ==1.7.3 py37hc147768_0 does not exist (perhaps a typo or a missing channel);
├─ setuptools ==58.0.4 py37h06a4308_0 does not exist (perhaps a typo or a missing channel);
├─ snappy ==1.1.8 he6710b0_0 does not exist (perhaps a typo or a missing channel);
├─ sniffio ==1.2.0 py37h06a4308_1 does not exist (perhaps a typo or a missing channel);
├─ sqlite ==3.37.2 hc218d9a_0 does not exist (perhaps a typo or a missing channel);
├─ tensorflow-base ==2.2.0 mkl_py37hd506778_0 does not exist (perhaps a typo or a missing channel);
├─ tensorflow ==2.2.0 mkl_py37h6e9ce2d_0 does not exist (perhaps a typo or a missing channel);
├─ termcolor ==1.1.0 py37h06a4308_1 does not exist (perhaps a typo or a missing channel);
├─ terminado ==0.13.1 py37h06a4308_0 does not exist (perhaps a typo or a missing channel);
├─ tk ==8.6.11 h1ccaba5_0 does not exist (perhaps a typo or a missing channel);
├─ tornado ==6.1 py37h27cfd23_0 does not exist (perhaps a typo or a missing channel);
├─ websocket-client ==0.58.0 py37h06a4308_4 does not exist (perhaps a typo or a missing channel);
├─ wrapt ==1.13.3 py37h7f8727e_2 does not exist (perhaps a typo or a missing channel);
├─ xz ==5.2.5 h7b6447c_0 does not exist (perhaps a typo or a missing channel);
├─ yaml ==0.2.5 h7b6447c_0 does not exist (perhaps a typo or a missing channel);
├─ yarl ==1.6.3 py37h27cfd23_0 does not exist (perhaps a typo or a missing channel);
├─ zeromq ==4.3.4 h2531618_0 does not exist (perhaps a typo or a missing channel);
├─ zfp ==0.5.5 h295c915_6 does not exist (perhaps a typo or a missing channel);
├─ zlib ==1.2.11 h7f8727e_4 does not exist (perhaps a typo or a missing channel);
└─ zstd ==1.4.9 haebb681_0 does not exist (perhaps a typo or a missing channel).`
I don't know if there's any other Macos M1 user that has faced the same issues and could help. I would appreciate any help because I like this tool and I'm interested in using it.
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