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pwoznicki / AutoRadiomics

The easiest tool for experimenting with radiomics features.
Apache License 2.0
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unsupported operand type for python 3.9 #29

Open jonasboh opened 1 year ago

jonasboh commented 1 year ago

I get the following error for several files by applying the example in the repo. TypeError: unsupported operand type(s) for |: 'type' and 'types.GenericAlias'

laqua-stack commented 1 year ago

Dear @jonasboh, thank you very much for reporting this issue!

Could you maybe give some more details on the used environment (e.g. output of conda list)? Could you maybe report also the traceback from the console?

Did you use the source code? Did you use the docker image?

Thanks in advance!

laqua-stack commented 1 year ago

This may be related to this issue: Issue #86399 Pipes as alias for Union in typings (PEP604) seem to be introduced first in Python 3.10.

jonasboh commented 1 year ago

Dear @laqua-stack,

thanks for the fast response. I used the source code and configured several files. Simple replacing of the operator | to or works. My list of installed packages in conda is quite long but I am happy to share :-).

Best, Jonas

Name Version Build Channel _anaconda_depends 2022.10 py39_2 _libgcc_mutex 0.1 main _openmp_mutex 5.1 1_gnu absl-py 1.4.0 pypi_0 pypi aiohttp 3.8.1 py39hb9d737c_1 conda-forge aiosignal 1.3.1 pyhd8ed1ab_0 conda-forge alabaster 0.7.12 pyhd3eb1b0_0 alembic 1.8.1 pypi_0 pypi altair 4.2.2 pypi_0 pypi anaconda custom py39_1 anyio 3.5.0 py39h06a4308_0 appdirs 1.4.4 pyhd3eb1b0_0 argon2-cffi 21.3.0 pyhd3eb1b0_0 argon2-cffi-bindings 21.2.0 py39h7f8727e_0 argparse 1.4.0 pypi_0 pypi arrow 1.2.3 py39h06a4308_1 astroid 2.14.2 py39h06a4308_0 astropy 5.1 py39h7deecbd_0 asttokens 2.2.1 pypi_0 pypi astunparse 1.6.3 pypi_0 pypi async-timeout 4.0.2 pyhd8ed1ab_0 conda-forge atomicwrites 1.4.0 py_0 attrs 22.1.0 py39h06a4308_0 automat 20.2.0 py_0 autopage 0.5.1 pypi_0 pypi autopep8 1.6.0 pyhd3eb1b0_1 autorad 0.2.6 pypi_0 pypi babel 2.11.0 py39h06a4308_0 backcall 0.2.0 pyhd3eb1b0_0 backports 1.1 pyhd3eb1b0_0 batchgenerators 0.24 pypi_0 pypi bcrypt 3.2.0 py39h5eee18b_1 beautifulsoup4 4.11.1 py39h06a4308_0 binaryornot 0.4.4 pyhd3eb1b0_1 bitarray 2.5.1 py39h5eee18b_0 bkcharts 0.2 py39h06a4308_1 black 22.6.0 py39h06a4308_0 blas 1.0 mkl bleach 4.1.0 pyhd3eb1b0_0 blinker 1.5 pypi_0 pypi blobfile 2.0.1 pypi_0 pypi blosc 1.21.3 h6a678d5_0 bokeh 2.4.3 py39h06a4308_0 boruta 0.3 pypi_0 pypi boto3 1.24.28 py39h06a4308_0 botocore 1.27.59 py39h06a4308_0 bottleneck 1.3.5 py39h7deecbd_0 bounded-pool-executor 0.0.3 pypi_0 pypi brotli 1.0.9 h5eee18b_7 brotli-bin 1.0.9 h5eee18b_7 brotlipy 0.7.0 py39h27cfd23_1003 brunsli 0.1 h2531618_0 bzip2 1.0.8 h7b6447c_0 c-ares 1.18.1 h7f8727e_0 ca-certificates 2022.12.7 ha878542_0 conda-forge cachetools 5.3.0 pyhd8ed1ab_0 conda-forge certifi 2022.12.7 pyhd8ed1ab_0 conda-forge cffi 1.15.1 py39h74dc2b5_0 cfitsio 3.470 hf0d0db6_6 chardet 4.0.0 py39h06a4308_1003 charls 2.2.0 h2531618_0 charset-normalizer 2.0.4 pyhd3eb1b0_0 click 8.0.4 py39h06a4308_0 cliff 4.0.0 pypi_0 pypi cloudpickle 2.0.0 pyhd3eb1b0_0 clyent 1.2.2 py39h06a4308_1 cmaes 0.9.1 pypi_0 pypi cmd2 2.4.2 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pypi pygments 2.14.0 pypi_0 pypi pyhamcrest 2.0.2 pyhd3eb1b0_2 pyjwt 2.6.0 pypi_0 pypi pykwalify 1.8.0 pypi_0 pypi pylint 2.16.2 py39h06a4308_0 pylint-venv 3.0.1 pypi_0 pypi pyls-spyder 0.4.0 pyhd3eb1b0_0 pympler 1.0.1 pypi_0 pypi pynetdicom 2.0.2 pypi_0 pypi pyodbc 4.0.34 py39h6a678d5_0 pyopenssl 23.0.0 py39h06a4308_0 pyparsing 3.0.9 py39h06a4308_0 pyperclip 1.8.2 pypi_0 pypi pyqt 5.15.7 py39h6a678d5_1 pyqt5 5.15.9 pypi_0 pypi pyqt5-qt5 5.15.2 pypi_0 pypi pyqt5-sip 12.11.0 py39h6a678d5_1 pyqtwebengine 5.15.6 pypi_0 pypi pyqtwebengine-qt5 5.15.2 pypi_0 pypi pyradiomics 3.0.1 pypi_0 pypi pyrsistent 0.18.0 py39heee7806_0 pysocks 1.7.1 py39h06a4308_0 pyspark 3.3.1 pypi_0 pypi pytables 3.7.0 py39hf19a122_1 pytest 7.1.2 py39h06a4308_0 python 3.9.15 haa1d7c7_0 python-dateutil 2.8.2 pyhd3eb1b0_0 python-fastjsonschema 2.16.2 py39h06a4308_0 python-lsp-black 1.2.1 py39h06a4308_0 python-lsp-jsonrpc 1.0.0 pyhd3eb1b0_0 python-lsp-server 1.7.1 pypi_0 pypi python-slugify 5.0.2 pyhd3eb1b0_0 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laqua-stack commented 1 year ago

@jonasboh Thank you very much for posting your environment. I tested it and could reproduce the issue with Py3.9. I am rather convinced, that it relates to the cited PEP604 issue, which is first introduced in Py3.10. I am glad it works for now.

@pwoznicki Should we maybe just update the documentation/requirements that only Python>=3.10 is supported? I could imagine that we used pipes as typing hints on different occasions as well?! Otherwise I would propose to replace the pipe with a typing.Union[...,...] construct to ensure compatibility with Py3.9 and earlier. Tbh also the rest is (obviously) not thoroughly tested with Py<3.10 in the current version. What do you think?