pip install adeft
Collecting adeft
Using cached adeft-0.11.1.tar.gz (124 kB)
Preparing metadata (setup.py) ... done
Requirement already satisfied: nltk in /Users/cthoyt/.virtualenvs/indra/lib/python3.11/site-packages (from adeft) (3.7)
Requirement already satisfied: scikit-learn>=0.20.0 in /Users/cthoyt/.virtualenvs/indra/lib/python3.11/site-packages (from adeft) (1.1.3)
Requirement already satisfied: boto3 in /Users/cthoyt/.virtualenvs/indra/lib/python3.11/site-packages (from adeft) (1.25.3)
Requirement already satisfied: flask in /Users/cthoyt/.virtualenvs/indra/lib/python3.11/site-packages (from adeft) (2.2.2)
Requirement already satisfied: appdirs in /Users/cthoyt/.virtualenvs/indra/lib/python3.11/site-packages (from adeft) (1.4.4)
Requirement already satisfied: numpy>=1.17.3 in /Users/cthoyt/.virtualenvs/indra/lib/python3.11/site-packages (from scikit-learn>=0.20.0->adeft) (1.23.4)
Requirement already satisfied: scipy>=1.3.2 in /Users/cthoyt/.virtualenvs/indra/lib/python3.11/site-packages (from scikit-learn>=0.20.0->adeft) (1.9.3)
Requirement already satisfied: joblib>=1.0.0 in /Users/cthoyt/.virtualenvs/indra/lib/python3.11/site-packages (from scikit-learn>=0.20.0->adeft) (1.2.0)
Requirement already satisfied: threadpoolctl>=2.0.0 in /Users/cthoyt/.virtualenvs/indra/lib/python3.11/site-packages (from scikit-learn>=0.20.0->adeft) (3.1.0)
Requirement already satisfied: botocore<1.29.0,>=1.28.3 in /Users/cthoyt/.virtualenvs/indra/lib/python3.11/site-packages (from boto3->adeft) (1.28.3)
Requirement already satisfied: jmespath<2.0.0,>=0.7.1 in /Users/cthoyt/.virtualenvs/indra/lib/python3.11/site-packages (from boto3->adeft) (1.0.1)
Requirement already satisfied: s3transfer<0.7.0,>=0.6.0 in /Users/cthoyt/.virtualenvs/indra/lib/python3.11/site-packages (from boto3->adeft) (0.6.0)
Requirement already satisfied: Werkzeug>=2.2.2 in /Users/cthoyt/.virtualenvs/indra/lib/python3.11/site-packages (from flask->adeft) (2.2.2)
Requirement already satisfied: Jinja2>=3.0 in /Users/cthoyt/.virtualenvs/indra/lib/python3.11/site-packages (from flask->adeft) (3.1.2)
Requirement already satisfied: itsdangerous>=2.0 in /Users/cthoyt/.virtualenvs/indra/lib/python3.11/site-packages (from flask->adeft) (2.1.2)
Requirement already satisfied: click>=8.0 in /Users/cthoyt/.virtualenvs/indra/lib/python3.11/site-packages (from flask->adeft) (8.1.3)
Requirement already satisfied: regex>=2021.8.3 in /Users/cthoyt/.virtualenvs/indra/lib/python3.11/site-packages (from nltk->adeft) (2022.9.13)
Requirement already satisfied: tqdm in /Users/cthoyt/.virtualenvs/indra/lib/python3.11/site-packages (from nltk->adeft) (4.64.1)
Requirement already satisfied: python-dateutil<3.0.0,>=2.1 in /Users/cthoyt/.virtualenvs/indra/lib/python3.11/site-packages (from botocore<1.29.0,>=1.28.3->boto3->adeft) (2.8.2)
Requirement already satisfied: urllib3<1.27,>=1.25.4 in /Users/cthoyt/.virtualenvs/indra/lib/python3.11/site-packages (from botocore<1.29.0,>=1.28.3->boto3->adeft) (1.26.12)
Requirement already satisfied: MarkupSafe>=2.0 in /Users/cthoyt/.virtualenvs/indra/lib/python3.11/site-packages (from Jinja2>=3.0->flask->adeft) (2.1.1)
Requirement already satisfied: six>=1.5 in /Users/cthoyt/.virtualenvs/indra/lib/python3.11/site-packages (from python-dateutil<3.0.0,>=2.1->botocore<1.29.0,>=1.28.3->boto3->adeft) (1.16.0)
Building wheels for collected packages: adeft
Building wheel for adeft (setup.py) ... error
error: subprocess-exited-with-error
× python setup.py bdist_wheel did not run successfully.
│ exit code: 1
╰─> [50 lines of output]
running bdist_wheel
running build
running build_py
creating build
creating build/lib.macosx-12-x86_64-3.11
creating build/lib.macosx-12-x86_64-3.11/adeft
copying adeft/util.py -> build/lib.macosx-12-x86_64-3.11/adeft
copying adeft/discover.py -> build/lib.macosx-12-x86_64-3.11/adeft
copying adeft/__init__.py -> build/lib.macosx-12-x86_64-3.11/adeft
copying adeft/disambiguate.py -> build/lib.macosx-12-x86_64-3.11/adeft
copying adeft/recognize.py -> build/lib.macosx-12-x86_64-3.11/adeft
copying adeft/locations.py -> build/lib.macosx-12-x86_64-3.11/adeft
creating build/lib.macosx-12-x86_64-3.11/adeft/modeling
copying adeft/modeling/classify.py -> build/lib.macosx-12-x86_64-3.11/adeft/modeling
copying adeft/modeling/__init__.py -> build/lib.macosx-12-x86_64-3.11/adeft/modeling
copying adeft/modeling/label.py -> build/lib.macosx-12-x86_64-3.11/adeft/modeling
creating build/lib.macosx-12-x86_64-3.11/adeft/score
copying adeft/score/__init__.py -> build/lib.macosx-12-x86_64-3.11/adeft/score
copying adeft/score/score.py -> build/lib.macosx-12-x86_64-3.11/adeft/score
creating build/lib.macosx-12-x86_64-3.11/adeft/download
copying adeft/download/download.py -> build/lib.macosx-12-x86_64-3.11/adeft/download
copying adeft/download/__init__.py -> build/lib.macosx-12-x86_64-3.11/adeft/download
copying adeft/download/__main__.py -> build/lib.macosx-12-x86_64-3.11/adeft/download
creating build/lib.macosx-12-x86_64-3.11/adeft/gui
copying adeft/gui/__init__.py -> build/lib.macosx-12-x86_64-3.11/adeft/gui
creating build/lib.macosx-12-x86_64-3.11/adeft/nlp
copying adeft/nlp/__init__.py -> build/lib.macosx-12-x86_64-3.11/adeft/nlp
copying adeft/nlp/nlp.py -> build/lib.macosx-12-x86_64-3.11/adeft/nlp
creating build/lib.macosx-12-x86_64-3.11/adeft/gui/ground
copying adeft/gui/ground/__init__.py -> build/lib.macosx-12-x86_64-3.11/adeft/gui/ground
copying adeft/gui/ground/ground.py -> build/lib.macosx-12-x86_64-3.11/adeft/gui/ground
running egg_info
writing manifest file 'adeft.egg-info/SOURCES.txt'
copying adeft/score/_score.c -> build/lib.macosx-12-x86_64-3.11/adeft/score
copying adeft/nlp/stopwords.json -> build/lib.macosx-12-x86_64-3.11/adeft/nlp
creating build/lib.macosx-12-x86_64-3.11/adeft/gui/ground/static
copying adeft/gui/ground/static/ground.css -> build/lib.macosx-12-x86_64-3.11/adeft/gui/ground/static
copying adeft/gui/ground/static/scripts.js -> build/lib.macosx-12-x86_64-3.11/adeft/gui/ground/static
creating build/lib.macosx-12-x86_64-3.11/adeft/gui/ground/templates
copying adeft/gui/ground/templates/input.jinja2 -> build/lib.macosx-12-x86_64-3.11/adeft/gui/ground/templates
running build_ext
creating build/temp.macosx-12-x86_64-3.11
creating build/temp.macosx-12-x86_64-3.11/adeft
creating build/temp.macosx-12-x86_64-3.11/adeft/score
clang -Wsign-compare -Wunreachable-code -fno-common -dynamic -DNDEBUG -g -fwrapv -O3 -Wall -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX12.sdk -I/Users/cthoyt/.virtualenvs/indra/include -I/usr/local/opt/python@3.11/Frameworks/Python.framework/Versions/3.11/include/python3.11 -c adeft/score/_score.c -o build/temp.macosx-12-x86_64-3.11/adeft/score/_score.o
adeft/score/_score.c:209:12: fatal error: 'longintrepr.h' file not found
#include "longintrepr.h"
^~~~~~~~~~~~~~~
1 error generated.
error: command '/usr/bin/clang' failed with exit code 1
[end of output]
note: This error originates from a subprocess, and is likely not a problem with pip.
ERROR: Failed building wheel for adeft
Running setup.py clean for adeft
Failed to build adeft
Installing collected packages: adeft
Running setup.py install for adeft ... error
error: subprocess-exited-with-error
× Running setup.py install for adeft did not run successfully.
│ exit code: 1
╰─> [52 lines of output]
running install
/Users/cthoyt/.virtualenvs/indra/lib/python3.11/site-packages/setuptools/command/install.py:34: SetuptoolsDeprecationWarning: setup.py install is deprecated. Use build and pip and other standards-based tools.
warnings.warn(
running build
running build_py
creating build
creating build/lib.macosx-12-x86_64-3.11
creating build/lib.macosx-12-x86_64-3.11/adeft
copying adeft/util.py -> build/lib.macosx-12-x86_64-3.11/adeft
copying adeft/discover.py -> build/lib.macosx-12-x86_64-3.11/adeft
copying adeft/__init__.py -> build/lib.macosx-12-x86_64-3.11/adeft
copying adeft/disambiguate.py -> build/lib.macosx-12-x86_64-3.11/adeft
copying adeft/recognize.py -> build/lib.macosx-12-x86_64-3.11/adeft
copying adeft/locations.py -> build/lib.macosx-12-x86_64-3.11/adeft
creating build/lib.macosx-12-x86_64-3.11/adeft/modeling
copying adeft/modeling/classify.py -> build/lib.macosx-12-x86_64-3.11/adeft/modeling
copying adeft/modeling/__init__.py -> build/lib.macosx-12-x86_64-3.11/adeft/modeling
copying adeft/modeling/label.py -> build/lib.macosx-12-x86_64-3.11/adeft/modeling
creating build/lib.macosx-12-x86_64-3.11/adeft/score
copying adeft/score/__init__.py -> build/lib.macosx-12-x86_64-3.11/adeft/score
copying adeft/score/score.py -> build/lib.macosx-12-x86_64-3.11/adeft/score
creating build/lib.macosx-12-x86_64-3.11/adeft/download
copying adeft/download/download.py -> build/lib.macosx-12-x86_64-3.11/adeft/download
copying adeft/download/__init__.py -> build/lib.macosx-12-x86_64-3.11/adeft/download
copying adeft/download/__main__.py -> build/lib.macosx-12-x86_64-3.11/adeft/download
creating build/lib.macosx-12-x86_64-3.11/adeft/gui
copying adeft/gui/__init__.py -> build/lib.macosx-12-x86_64-3.11/adeft/gui
creating build/lib.macosx-12-x86_64-3.11/adeft/nlp
copying adeft/nlp/__init__.py -> build/lib.macosx-12-x86_64-3.11/adeft/nlp
copying adeft/nlp/nlp.py -> build/lib.macosx-12-x86_64-3.11/adeft/nlp
creating build/lib.macosx-12-x86_64-3.11/adeft/gui/ground
copying adeft/gui/ground/__init__.py -> build/lib.macosx-12-x86_64-3.11/adeft/gui/ground
copying adeft/gui/ground/ground.py -> build/lib.macosx-12-x86_64-3.11/adeft/gui/ground
running egg_info
writing manifest file 'adeft.egg-info/SOURCES.txt'
copying adeft/score/_score.c -> build/lib.macosx-12-x86_64-3.11/adeft/score
copying adeft/nlp/stopwords.json -> build/lib.macosx-12-x86_64-3.11/adeft/nlp
creating build/lib.macosx-12-x86_64-3.11/adeft/gui/ground/static
copying adeft/gui/ground/static/ground.css -> build/lib.macosx-12-x86_64-3.11/adeft/gui/ground/static
copying adeft/gui/ground/static/scripts.js -> build/lib.macosx-12-x86_64-3.11/adeft/gui/ground/static
creating build/lib.macosx-12-x86_64-3.11/adeft/gui/ground/templates
copying adeft/gui/ground/templates/input.jinja2 -> build/lib.macosx-12-x86_64-3.11/adeft/gui/ground/templates
running build_ext
creating build/temp.macosx-12-x86_64-3.11
creating build/temp.macosx-12-x86_64-3.11/adeft
creating build/temp.macosx-12-x86_64-3.11/adeft/score
clang -Wsign-compare -Wunreachable-code -fno-common -dynamic -DNDEBUG -g -fwrapv -O3 -Wall -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX12.sdk -I/Users/cthoyt/.virtualenvs/indra/include -I/usr/local/opt/python@3.11/Frameworks/Python.framework/Versions/3.11/include/python3.11 -c adeft/score/_score.c -o build/temp.macosx-12-x86_64-3.11/adeft/score/_score.o
adeft/score/_score.c:209:12: fatal error: 'longintrepr.h' file not found
#include "longintrepr.h"
^~~~~~~~~~~~~~~
1 error generated.
error: command '/usr/bin/clang' failed with exit code 1
[end of output]
note: This error originates from a subprocess, and is likely not a problem with pip.
error: legacy-install-failure
× Encountered error while trying to install package.
╰─> adeft
note: This is an issue with the package mentioned above, not pip.
hint: See above for output from the failure.
After running
pip install adefton python 3.11, I'm running into the following error message:Details
This is a problem because they removed
longintrepr.hin python/cpython#28968. It appears that the_score.cfile https://github.com/indralab/adeft/blob/e0d882ada0ce81444d5b0a33cfbff33974f5d5c0/adeft/score/_score.c#L1was generated using an old version of cython (we're on
0.29.32now) so I think the fix is to regenerate it.