Colab cannot import piml: initialization of _internal failed
faradawn opened this issue · 3 comments
faradawn commented
Hi,
I tried "Example_CaliforniaHousing.ipynb" for a long time but still couldn't get the initial importing of PiML working.
Tried on 2023-03-18 using Google Colab py39 runtime without a hardware accelerator.
Running the first cell !pip install piml, I got most all dependencies installed, but an error was thrown:
ERROR: pip's dependency resolver does not currently take into account all the packages that are installed. This behaviour is the source of the following dependency conflicts.
I ignored the error, restarted the runtime, and moved to the next cell from piml import Experiment. I got an error (trimmed to the end):
File /usr/local/lib/python3.9/dist-packages/numba/np/ufunc/decorators.py:3
1 import inspect
----> 3 from numba.np.ufunc import _internal
4 from numba.np.ufunc.parallel import ParallelUFuncBuilder, ParallelGUFuncBuilder
6 from numba.core.registry import TargetRegistry
SystemError: initialization of _internal failed without raising an exception
Is there a way to resolve this? Thanks!
Extra:
Full error of the first cell:
!pip install piml
Looking in indexes: https://pypi.org/simple, https://us-python.pkg.dev/colab-wheels/public/simple/
Collecting piml
Downloading PiML-0.4.3-cp39-none-manylinux_2_5_x86_64.whl (9.8 MB)
━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 9.8/9.8 MB 40.6 MB/s eta 0:00:00
Collecting natsort>=8.2.0
Downloading natsort-8.3.1-py3-none-any.whl (38 kB)
Collecting shap>=0.39.0
Downloading shap-0.41.0-cp39-cp39-manylinux_2_12_x86_64.manylinux2010_x86_64.whl (572 kB)
━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 572.4/572.4 KB 19.8 MB/s eta 0:00:00
Collecting pygam>=0.8.0
Downloading pygam-0.9.0-py3-none-any.whl (522 kB)
━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 522.2/522.2 KB 25.7 MB/s eta 0:00:00
Requirement already satisfied: torch>=1.11.0 in /usr/local/lib/python3.9/dist-packages (from piml) (1.13.1+cu116)
Requirement already satisfied: numpy>=1.21.4 in /usr/local/lib/python3.9/dist-packages (from piml) (1.22.4)
Requirement already satisfied: pandas>=1.3.5 in /usr/local/lib/python3.9/dist-packages (from piml) (1.4.4)
Requirement already satisfied: scikit-learn>=0.24.2 in /usr/local/lib/python3.9/dist-packages (from piml) (1.2.2)
Requirement already satisfied: statsmodels>=0.12.2 in /usr/local/lib/python3.9/dist-packages (from piml) (0.13.5)
Requirement already satisfied: matplotlib>=3.1.2 in /usr/local/lib/python3.9/dist-packages (from piml) (3.7.1)
Requirement already satisfied: lightgbm>=3.1.1 in /usr/local/lib/python3.9/dist-packages (from piml) (3.3.5)
Requirement already satisfied: scipy>=1.5.3 in /usr/local/lib/python3.9/dist-packages (from piml) (1.10.1)
Collecting dcor>=0.5.3
Downloading dcor-0.6-py3-none-any.whl (55 kB)
━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 55.5/55.5 KB 1.2 MB/s eta 0:00:00
Requirement already satisfied: xlrd>=1.2.0 in /usr/local/lib/python3.9/dist-packages (from piml) (2.0.1)
Requirement already satisfied: xgboost>=1.4.2 in /usr/local/lib/python3.9/dist-packages (from piml) (1.7.4)
Collecting ipython>=7.12.0
Downloading ipython-8.11.0-py3-none-any.whl (793 kB)
━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 793.3/793.3 KB 29.6 MB/s eta 0:00:00
Requirement already satisfied: joblib>=1.1.0 in /usr/local/lib/python3.9/dist-packages (from piml) (1.1.1)
Requirement already satisfied: psutil>=5.9.0 in /usr/local/lib/python3.9/dist-packages (from piml) (5.9.4)
Collecting lime>=0.2.0.1
Downloading lime-0.2.0.1.tar.gz (275 kB)
━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 275.7/275.7 KB 14.6 MB/s eta 0:00:00
Preparing metadata (setup.py) ... done
Requirement already satisfied: seaborn>=0.11.2 in /usr/local/lib/python3.9/dist-packages (from piml) (0.12.2)
Collecting momentchi2
Downloading momentchi2-0.1.8-py3-none-any.whl (11 kB)
Collecting dill>=0.3.6
Downloading dill-0.3.6-py3-none-any.whl (110 kB)
━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 110.5/110.5 KB 6.2 MB/s eta 0:00:00
Requirement already satisfied: packaging>=20.5 in /usr/local/lib/python3.9/dist-packages (from piml) (23.0)
Requirement already satisfied: ipywidgets>=7.7.0 in /usr/local/lib/python3.9/dist-packages (from piml) (7.7.1)
Requirement already satisfied: numba>=0.51 in /usr/local/lib/python3.9/dist-packages (from dcor>=0.5.3->piml) (0.56.4)
Collecting stack-data
Downloading stack_data-0.6.2-py3-none-any.whl (24 kB)
Requirement already satisfied: pickleshare in /usr/local/lib/python3.9/dist-packages (from ipython>=7.12.0->piml) (0.7.5)
Requirement already satisfied: pexpect>4.3 in /usr/local/lib/python3.9/dist-packages (from ipython>=7.12.0->piml) (4.8.0)
Requirement already satisfied: pygments>=2.4.0 in /usr/local/lib/python3.9/dist-packages (from ipython>=7.12.0->piml) (2.6.1)
Collecting matplotlib-inline
Downloading matplotlib_inline-0.1.6-py3-none-any.whl (9.4 kB)
Collecting prompt-toolkit!=3.0.37,<3.1.0,>=3.0.30
Downloading prompt_toolkit-3.0.38-py3-none-any.whl (385 kB)
━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 385.8/385.8 KB 20.2 MB/s eta 0:00:00
Requirement already satisfied: backcall in /usr/local/lib/python3.9/dist-packages (from ipython>=7.12.0->piml) (0.2.0)
Requirement already satisfied: decorator in /usr/local/lib/python3.9/dist-packages (from ipython>=7.12.0->piml) (4.4.2)
Requirement already satisfied: traitlets>=5 in /usr/local/lib/python3.9/dist-packages (from ipython>=7.12.0->piml) (5.7.1)
Collecting jedi>=0.16
Downloading jedi-0.18.2-py2.py3-none-any.whl (1.6 MB)
━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 1.6/1.6 MB 53.3 MB/s eta 0:00:00
Requirement already satisfied: ipython-genutils~=0.2.0 in /usr/local/lib/python3.9/dist-packages (from ipywidgets>=7.7.0->piml) (0.2.0)
Requirement already satisfied: jupyterlab-widgets>=1.0.0 in /usr/local/lib/python3.9/dist-packages (from ipywidgets>=7.7.0->piml) (3.0.5)
Requirement already satisfied: widgetsnbextension~=3.6.0 in /usr/local/lib/python3.9/dist-packages (from ipywidgets>=7.7.0->piml) (3.6.2)
Requirement already satisfied: ipykernel>=4.5.1 in /usr/local/lib/python3.9/dist-packages (from ipywidgets>=7.7.0->piml) (5.3.4)
Requirement already satisfied: wheel in /usr/local/lib/python3.9/dist-packages (from lightgbm>=3.1.1->piml) (0.40.0)
Requirement already satisfied: tqdm in /usr/local/lib/python3.9/dist-packages (from lime>=0.2.0.1->piml) (4.65.0)
Requirement already satisfied: scikit-image>=0.12 in /usr/local/lib/python3.9/dist-packages (from lime>=0.2.0.1->piml) (0.19.3)
Requirement already satisfied: kiwisolver>=1.0.1 in /usr/local/lib/python3.9/dist-packages (from matplotlib>=3.1.2->piml) (1.4.4)
Requirement already satisfied: contourpy>=1.0.1 in /usr/local/lib/python3.9/dist-packages (from matplotlib>=3.1.2->piml) (1.0.7)
Requirement already satisfied: cycler>=0.10 in /usr/local/lib/python3.9/dist-packages (from matplotlib>=3.1.2->piml) (0.11.0)
Requirement already satisfied: pyparsing>=2.3.1 in /usr/local/lib/python3.9/dist-packages (from matplotlib>=3.1.2->piml) (3.0.9)
Requirement already satisfied: pillow>=6.2.0 in /usr/local/lib/python3.9/dist-packages (from matplotlib>=3.1.2->piml) (8.4.0)
Requirement already satisfied: python-dateutil>=2.7 in /usr/local/lib/python3.9/dist-packages (from matplotlib>=3.1.2->piml) (2.8.2)
Requirement already satisfied: fonttools>=4.22.0 in /usr/local/lib/python3.9/dist-packages (from matplotlib>=3.1.2->piml) (4.39.0)
Requirement already satisfied: importlib-resources>=3.2.0 in /usr/local/lib/python3.9/dist-packages (from matplotlib>=3.1.2->piml) (5.12.0)
Requirement already satisfied: pytz>=2020.1 in /usr/local/lib/python3.9/dist-packages (from pandas>=1.3.5->piml) (2022.7.1)
Collecting progressbar2<5.0.0,>=4.2.0
Downloading progressbar2-4.2.0-py2.py3-none-any.whl (27 kB)
Collecting numpy>=1.21.4
Downloading numpy-1.24.2-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (17.3 MB)
━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 17.3/17.3 MB 38.2 MB/s eta 0:00:00
Requirement already satisfied: threadpoolctl>=2.0.0 in /usr/local/lib/python3.9/dist-packages (from scikit-learn>=0.24.2->piml) (3.1.0)
Collecting slicer==0.0.7
Downloading slicer-0.0.7-py3-none-any.whl (14 kB)
Requirement already satisfied: cloudpickle in /usr/local/lib/python3.9/dist-packages (from shap>=0.39.0->piml) (2.2.1)
Requirement already satisfied: patsy>=0.5.2 in /usr/local/lib/python3.9/dist-packages (from statsmodels>=0.12.2->piml) (0.5.3)
Requirement already satisfied: typing-extensions in /usr/local/lib/python3.9/dist-packages (from torch>=1.11.0->piml) (4.5.0)
Requirement already satisfied: zipp>=3.1.0 in /usr/local/lib/python3.9/dist-packages (from importlib-resources>=3.2.0->matplotlib>=3.1.2->piml) (3.15.0)
Requirement already satisfied: tornado>=4.2 in /usr/local/lib/python3.9/dist-packages (from ipykernel>=4.5.1->ipywidgets>=7.7.0->piml) (6.2)
Requirement already satisfied: jupyter-client in /usr/local/lib/python3.9/dist-packages (from ipykernel>=4.5.1->ipywidgets>=7.7.0->piml) (6.1.12)
Requirement already satisfied: parso<0.9.0,>=0.8.0 in /usr/local/lib/python3.9/dist-packages (from jedi>=0.16->ipython>=7.12.0->piml) (0.8.3)
Requirement already satisfied: llvmlite<0.40,>=0.39.0dev0 in /usr/local/lib/python3.9/dist-packages (from numba>=0.51->dcor>=0.5.3->piml) (0.39.1)
Collecting numba>=0.51
Downloading numba-0.56.3-cp39-cp39-manylinux2014_x86_64.manylinux_2_17_x86_64.whl (3.5 MB)
━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 3.5/3.5 MB 66.3 MB/s eta 0:00:00
Downloading numba-0.56.2-cp39-cp39-manylinux2014_x86_64.manylinux_2_17_x86_64.whl (3.5 MB)
━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 3.5/3.5 MB 83.7 MB/s eta 0:00:00
Downloading numba-0.56.0-cp39-cp39-manylinux2014_x86_64.manylinux_2_17_x86_64.whl (3.5 MB)
━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 3.5/3.5 MB 82.7 MB/s eta 0:00:00
Downloading numba-0.55.2-cp39-cp39-manylinux2014_x86_64.manylinux_2_17_x86_64.whl (3.3 MB)
━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 3.3/3.3 MB 79.0 MB/s eta 0:00:00
Collecting llvmlite<0.39,>=0.38.0rc1
Downloading llvmlite-0.38.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (34.5 MB)
━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 34.5/34.5 MB 15.6 MB/s eta 0:00:00
Collecting numba>=0.51
Downloading numba-0.55.1-1-cp39-cp39-manylinux2014_x86_64.manylinux_2_17_x86_64.whl (3.3 MB)
━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 3.3/3.3 MB 82.6 MB/s eta 0:00:00
Downloading numba-0.55.0-cp39-cp39-manylinux2014_x86_64.manylinux_2_17_x86_64.whl (3.3 MB)
━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 3.3/3.3 MB 75.4 MB/s eta 0:00:00
Downloading numba-0.54.1-cp39-cp39-manylinux2014_x86_64.manylinux_2_17_x86_64.whl (3.3 MB)
━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 3.3/3.3 MB 84.7 MB/s eta 0:00:00
Collecting llvmlite<0.38,>=0.37.0rc1
Downloading llvmlite-0.37.0-cp39-cp39-manylinux2014_x86_64.whl (26.3 MB)
━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 26.3/26.3 MB 52.4 MB/s eta 0:00:00
Collecting numba>=0.51
Downloading numba-0.54.0-cp39-cp39-manylinux2014_x86_64.manylinux_2_17_x86_64.whl (3.4 MB)
━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 3.4/3.4 MB 76.4 MB/s eta 0:00:00
Downloading numba-0.53.1-cp39-cp39-manylinux2014_x86_64.whl (3.4 MB)
━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 3.4/3.4 MB 77.7 MB/s eta 0:00:00
Requirement already satisfied: setuptools in /usr/local/lib/python3.9/dist-packages (from numba>=0.51->dcor>=0.5.3->piml) (63.4.3)
Collecting llvmlite<0.37,>=0.36.0rc1
Downloading llvmlite-0.36.0-cp39-cp39-manylinux2010_x86_64.whl (25.3 MB)
━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 25.3/25.3 MB 48.9 MB/s eta 0:00:00
Requirement already satisfied: six in /usr/local/lib/python3.9/dist-packages (from patsy>=0.5.2->statsmodels>=0.12.2->piml) (1.15.0)
Requirement already satisfied: ptyprocess>=0.5 in /usr/local/lib/python3.9/dist-packages (from pexpect>4.3->ipython>=7.12.0->piml) (0.7.0)
Requirement already satisfied: python-utils>=3.0.0 in /usr/local/lib/python3.9/dist-packages (from progressbar2<5.0.0,>=4.2.0->pygam>=0.8.0->piml) (3.5.2)
Requirement already satisfied: wcwidth in /usr/local/lib/python3.9/dist-packages (from prompt-toolkit!=3.0.37,<3.1.0,>=3.0.30->ipython>=7.12.0->piml) (0.2.6)
Requirement already satisfied: imageio>=2.4.1 in /usr/local/lib/python3.9/dist-packages (from scikit-image>=0.12->lime>=0.2.0.1->piml) (2.9.0)
Requirement already satisfied: PyWavelets>=1.1.1 in /usr/local/lib/python3.9/dist-packages (from scikit-image>=0.12->lime>=0.2.0.1->piml) (1.4.1)
Requirement already satisfied: tifffile>=2019.7.26 in /usr/local/lib/python3.9/dist-packages (from scikit-image>=0.12->lime>=0.2.0.1->piml) (2023.3.15)
Requirement already satisfied: networkx>=2.2 in /usr/local/lib/python3.9/dist-packages (from scikit-image>=0.12->lime>=0.2.0.1->piml) (3.0)
Requirement already satisfied: notebook>=4.4.1 in /usr/local/lib/python3.9/dist-packages (from widgetsnbextension~=3.6.0->ipywidgets>=7.7.0->piml) (6.3.0)
Collecting asttokens>=2.1.0
Downloading asttokens-2.2.1-py2.py3-none-any.whl (26 kB)
Collecting pure-eval
Downloading pure_eval-0.2.2-py3-none-any.whl (11 kB)
Collecting executing>=1.2.0
Downloading executing-1.2.0-py2.py3-none-any.whl (24 kB)
Requirement already satisfied: terminado>=0.8.3 in /usr/local/lib/python3.9/dist-packages (from notebook>=4.4.1->widgetsnbextension~=3.6.0->ipywidgets>=7.7.0->piml) (0.17.1)
Requirement already satisfied: argon2-cffi in /usr/local/lib/python3.9/dist-packages (from notebook>=4.4.1->widgetsnbextension~=3.6.0->ipywidgets>=7.7.0->piml) (21.3.0)
Requirement already satisfied: jupyter-core>=4.6.1 in /usr/local/lib/python3.9/dist-packages (from notebook>=4.4.1->widgetsnbextension~=3.6.0->ipywidgets>=7.7.0->piml) (5.2.0)
Requirement already satisfied: nbconvert in /usr/local/lib/python3.9/dist-packages (from notebook>=4.4.1->widgetsnbextension~=3.6.0->ipywidgets>=7.7.0->piml) (6.5.4)
Requirement already satisfied: jinja2 in /usr/local/lib/python3.9/dist-packages (from notebook>=4.4.1->widgetsnbextension~=3.6.0->ipywidgets>=7.7.0->piml) (3.1.2)
Requirement already satisfied: pyzmq>=17 in /usr/local/lib/python3.9/dist-packages (from notebook>=4.4.1->widgetsnbextension~=3.6.0->ipywidgets>=7.7.0->piml) (23.2.1)
Requirement already satisfied: Send2Trash>=1.5.0 in /usr/local/lib/python3.9/dist-packages (from notebook>=4.4.1->widgetsnbextension~=3.6.0->ipywidgets>=7.7.0->piml) (1.8.0)
Requirement already satisfied: prometheus-client in /usr/local/lib/python3.9/dist-packages (from notebook>=4.4.1->widgetsnbextension~=3.6.0->ipywidgets>=7.7.0->piml) (0.16.0)
Requirement already satisfied: nbformat in /usr/local/lib/python3.9/dist-packages (from notebook>=4.4.1->widgetsnbextension~=3.6.0->ipywidgets>=7.7.0->piml) (5.7.3)
Requirement already satisfied: platformdirs>=2.5 in /usr/local/lib/python3.9/dist-packages (from jupyter-core>=4.6.1->notebook>=4.4.1->widgetsnbextension~=3.6.0->ipywidgets>=7.7.0->piml) (3.1.1)
Requirement already satisfied: argon2-cffi-bindings in /usr/local/lib/python3.9/dist-packages (from argon2-cffi->notebook>=4.4.1->widgetsnbextension~=3.6.0->ipywidgets>=7.7.0->piml) (21.2.0)
Requirement already satisfied: MarkupSafe>=2.0 in /usr/local/lib/python3.9/dist-packages (from jinja2->notebook>=4.4.1->widgetsnbextension~=3.6.0->ipywidgets>=7.7.0->piml) (2.1.2)
Requirement already satisfied: pandocfilters>=1.4.1 in /usr/local/lib/python3.9/dist-packages (from nbconvert->notebook>=4.4.1->widgetsnbextension~=3.6.0->ipywidgets>=7.7.0->piml) (1.5.0)
Requirement already satisfied: entrypoints>=0.2.2 in /usr/local/lib/python3.9/dist-packages (from nbconvert->notebook>=4.4.1->widgetsnbextension~=3.6.0->ipywidgets>=7.7.0->piml) (0.4)
Requirement already satisfied: bleach in /usr/local/lib/python3.9/dist-packages (from nbconvert->notebook>=4.4.1->widgetsnbextension~=3.6.0->ipywidgets>=7.7.0->piml) (6.0.0)
Requirement already satisfied: defusedxml in /usr/local/lib/python3.9/dist-packages (from nbconvert->notebook>=4.4.1->widgetsnbextension~=3.6.0->ipywidgets>=7.7.0->piml) (0.7.1)
Requirement already satisfied: jupyterlab-pygments in /usr/local/lib/python3.9/dist-packages (from nbconvert->notebook>=4.4.1->widgetsnbextension~=3.6.0->ipywidgets>=7.7.0->piml) (0.2.2)
Requirement already satisfied: mistune<2,>=0.8.1 in /usr/local/lib/python3.9/dist-packages (from nbconvert->notebook>=4.4.1->widgetsnbextension~=3.6.0->ipywidgets>=7.7.0->piml) (0.8.4)
Requirement already satisfied: beautifulsoup4 in /usr/local/lib/python3.9/dist-packages (from nbconvert->notebook>=4.4.1->widgetsnbextension~=3.6.0->ipywidgets>=7.7.0->piml) (4.11.2)
Requirement already satisfied: lxml in /usr/local/lib/python3.9/dist-packages (from nbconvert->notebook>=4.4.1->widgetsnbextension~=3.6.0->ipywidgets>=7.7.0->piml) (4.9.2)
Requirement already satisfied: tinycss2 in /usr/local/lib/python3.9/dist-packages (from nbconvert->notebook>=4.4.1->widgetsnbextension~=3.6.0->ipywidgets>=7.7.0->piml) (1.2.1)
Requirement already satisfied: nbclient>=0.5.0 in /usr/local/lib/python3.9/dist-packages (from nbconvert->notebook>=4.4.1->widgetsnbextension~=3.6.0->ipywidgets>=7.7.0->piml) (0.7.2)
Requirement already satisfied: jsonschema>=2.6 in /usr/local/lib/python3.9/dist-packages (from nbformat->notebook>=4.4.1->widgetsnbextension~=3.6.0->ipywidgets>=7.7.0->piml) (4.3.3)
Requirement already satisfied: fastjsonschema in /usr/local/lib/python3.9/dist-packages (from nbformat->notebook>=4.4.1->widgetsnbextension~=3.6.0->ipywidgets>=7.7.0->piml) (2.16.3)
Requirement already satisfied: attrs>=17.4.0 in /usr/local/lib/python3.9/dist-packages (from jsonschema>=2.6->nbformat->notebook>=4.4.1->widgetsnbextension~=3.6.0->ipywidgets>=7.7.0->piml) (22.2.0)
Requirement already satisfied: pyrsistent!=0.17.0,!=0.17.1,!=0.17.2,>=0.14.0 in /usr/local/lib/python3.9/dist-packages (from jsonschema>=2.6->nbformat->notebook>=4.4.1->widgetsnbextension~=3.6.0->ipywidgets>=7.7.0->piml) (0.19.3)
Requirement already satisfied: cffi>=1.0.1 in /usr/local/lib/python3.9/dist-packages (from argon2-cffi-bindings->argon2-cffi->notebook>=4.4.1->widgetsnbextension~=3.6.0->ipywidgets>=7.7.0->piml) (1.15.1)
Requirement already satisfied: soupsieve>1.2 in /usr/local/lib/python3.9/dist-packages (from beautifulsoup4->nbconvert->notebook>=4.4.1->widgetsnbextension~=3.6.0->ipywidgets>=7.7.0->piml) (2.4)
Requirement already satisfied: webencodings in /usr/local/lib/python3.9/dist-packages (from bleach->nbconvert->notebook>=4.4.1->widgetsnbextension~=3.6.0->ipywidgets>=7.7.0->piml) (0.5.1)
Requirement already satisfied: pycparser in /usr/local/lib/python3.9/dist-packages (from cffi>=1.0.1->argon2-cffi-bindings->argon2-cffi->notebook>=4.4.1->widgetsnbextension~=3.6.0->ipywidgets>=7.7.0->piml) (2.21)
Building wheels for collected packages: lime
Building wheel for lime (setup.py) ... done
Created wheel for lime: filename=lime-0.2.0.1-py3-none-any.whl size=283859 sha256=977759970aaaf5e3c539ceb4ea229ba921e34294642260690da4c7fac6e0c3ca
Stored in directory: /root/.cache/pip/wheels/ed/d7/c9/5a0130d06d6310bc6cbe55220e6e72dcb8c4eff9a478717066
Successfully built lime
Installing collected packages: pure-eval, executing, slicer, prompt-toolkit, progressbar2, numpy, natsort, matplotlib-inline, llvmlite, jedi, dill, asttokens, stack-data, numba, pygam, momentchi2, ipython, dcor, shap, lime, piml
Attempting uninstall: prompt-toolkit
Found existing installation: prompt-toolkit 2.0.10
Uninstalling prompt-toolkit-2.0.10:
Successfully uninstalled prompt-toolkit-2.0.10
Attempting uninstall: progressbar2
Found existing installation: progressbar2 3.38.0
Uninstalling progressbar2-3.38.0:
Successfully uninstalled progressbar2-3.38.0
Attempting uninstall: numpy
Found existing installation: numpy 1.22.4
Uninstalling numpy-1.22.4:
Successfully uninstalled numpy-1.22.4
Attempting uninstall: natsort
Found existing installation: natsort 5.5.0
Uninstalling natsort-5.5.0:
Successfully uninstalled natsort-5.5.0
Attempting uninstall: llvmlite
Found existing installation: llvmlite 0.39.1
Uninstalling llvmlite-0.39.1:
Successfully uninstalled llvmlite-0.39.1
Attempting uninstall: numba
Found existing installation: numba 0.56.4
Uninstalling numba-0.56.4:
Successfully uninstalled numba-0.56.4
Attempting uninstall: ipython
Found existing installation: ipython 7.9.0
Uninstalling ipython-7.9.0:
Successfully uninstalled ipython-7.9.0
ERROR: pip's dependency resolver does not currently take into account all the packages that are installed. This behaviour is the source of the following dependency conflicts.
google-colab 1.0.0 requires ipython~=7.9.0, but you have ipython 8.11.0 which is incompatible.
Successfully installed asttokens-2.2.1 dcor-0.6 dill-0.3.6 executing-1.2.0 ipython-8.11.0 jedi-0.18.2 lime-0.2.0.1 llvmlite-0.36.0 matplotlib-inline-0.1.6 momentchi2-0.1.8 natsort-8.3.1 numba-0.53.1 numpy-1.24.2 piml-0.4.3 progressbar2-4.2.0 prompt-toolkit-3.0.38 pure-eval-0.2.2 pygam-0.9.0 shap-0.41.0 slicer-0.0.7 stack-data-0.6.2
Full error of the seond cell:
from piml import Experiment
exp = Experiment()
---------------------------------------------------------------------------
SystemError Traceback (most recent call last)
Cell In[2], line 1
----> 1 from piml import Experiment
File /usr/local/lib/python3.9/dist-packages/piml/__init__.py:1
----> 1 from .api import Experiment
2 from .diagnoser.utils import twosample_test
4 __all__ = ['Experiment']
File piml/api.py:16, in init piml.api()
File piml/dashboard/data_panel.py:12, in init piml.dashboard.data_panel()
File piml/workflow/data_api.py:8, in init piml.workflow.data_api()
File piml/data/base.py:14, in init piml.data.base()
File piml/data/data_selector.py:11, in init piml.data.data_selector()
File /usr/local/lib/python3.9/dist-packages/dcor/__init__.py:13
10 import os as _os
11 import pathlib as _pathlib
---> 13 from . import distances, homogeneity, independence
14 from ._dcor import (
15 DistanceCovarianceMethod as DistanceCovarianceMethod,
16 Stats as Stats,
(...)
27 u_distance_stats_sqr as u_distance_stats_sqr,
28 )
29 from ._dcor_internals import (
30 double_centered as double_centered,
31 mean_product as mean_product,
(...)
35 u_projection as u_projection,
36 )
File /usr/local/lib/python3.9/dist-packages/dcor/independence.py:14
11 import numpy as np
12 import scipy.stats
---> 14 from ._dcor import u_distance_correlation_sqr
15 from ._dcor_internals import (
16 _check_same_n_elements,
17 _distance_matrix_generic,
(...)
22 u_product,
23 )
24 from ._hypothesis import HypothesisTest, _permutation_test_with_sym_matrix
File /usr/local/lib/python3.9/dist-packages/dcor/_dcor.py:35
32 from dcor._dcor_internals import _af_inv_scaled
34 from ._dcor_internals import _dcov_from_terms, _dcov_terms_naive
---> 35 from ._fast_dcov_avl import _distance_covariance_sqr_terms_avl
36 from ._fast_dcov_mergesort import _distance_covariance_sqr_terms_mergesort
37 from ._utils import ArrayType, CompileMode, _sqrt, get_namespace
File /usr/local/lib/python3.9/dist-packages/dcor/_fast_dcov_avl.py:18
7 import warnings
8 from typing import (
9 TYPE_CHECKING,
10 Any,
(...)
15 overload,
16 )
---> 18 import numba
19 import numpy as np
20 from numba import boolean, float64, int64
File /usr/local/lib/python3.9/dist-packages/numba/__init__.py:43
39 from numba.core.decorators import (cfunc, generated_jit, jit, njit, stencil,
40 jit_module)
42 # Re-export vectorize decorators and the thread layer querying function
---> 43 from numba.np.ufunc import (vectorize, guvectorize, threading_layer,
44 get_num_threads, set_num_threads)
46 # Re-export Numpy helpers
47 from numba.np.numpy_support import carray, farray, from_dtype
File /usr/local/lib/python3.9/dist-packages/numba/np/ufunc/__init__.py:3
1 # -*- coding: utf-8 -*-
----> 3 from numba.np.ufunc.decorators import Vectorize, GUVectorize, vectorize, guvectorize
4 from numba.np.ufunc._internal import PyUFunc_None, PyUFunc_Zero, PyUFunc_One
5 from numba.np.ufunc import _internal, array_exprs
File /usr/local/lib/python3.9/dist-packages/numba/np/ufunc/decorators.py:3
1 import inspect
----> 3 from numba.np.ufunc import _internal
4 from numba.np.ufunc.parallel import ParallelUFuncBuilder, ParallelGUFuncBuilder
6 from numba.core.registry import TargetRegistry
SystemError: initialization of _internal failed without raising an exception
faradawn commented
Resolved by using numpy 1.23.1 instead of 1.24.2!
Specifically, I added the following two lines after !pip install piml
!pip uninstall numpy -y
!pip install numpy==1.23.1
Thanks.
PS: love the great work of PiML in making neural nets interpretable in an easy way!
faradawn commented
Can solve the issue by
!pip uninstall numpy -y
!pip install numpy==1.23.1