numpy 1.24 no attribute int

[jowodo]

model-angelo version: 0.2.3

When executing the help command I get the following error. This only happens with numpy 1.24. When downgrading to numpy 1.19 another error appears. I could circumvent this error by appending a restriction of numpy to the requirements file:

echo -e "\nnumpy<1.24" >> requirements.txt

While this resolved the issue for me, I think this is rather a quick dirty fix than a sustainable solution of the problem. Error:

$ model_angelo build --help
Traceback (most recent call last):
  File "/home/apps/conda/miniconda3/envs/modelangelo-0.2.3/bin/model_angelo", line 33, in <module>
    sys.exit(load_entry_point('model-angelo==0.2.3', 'console_scripts', 'model_angelo')())
  File "/home/apps/conda/miniconda3/envs/modelangelo-0.2.3/lib/python3.9/site-packages/model_angelo-0.2.3-py3.9.egg/model_angelo/__main__.py", line 23, in main
    import model_angelo.apps.build
  File "/home/apps/conda/miniconda3/envs/modelangelo-0.2.3/lib/python3.9/site-packages/model_angelo-0.2.3-py3.9.egg/model_angelo/apps/build.py", line 19, in <module>
    from model_angelo.c_alpha.inference import infer as c_alpha_infer
  File "/home/apps/conda/miniconda3/envs/modelangelo-0.2.3/lib/python3.9/site-packages/model_angelo-0.2.3-py3.9.egg/model_angelo/c_alpha/inference.py", line 14, in <module>
    from model_angelo.data.dataset_preprocess import decompress_data
  File "/home/apps/conda/miniconda3/envs/modelangelo-0.2.3/lib/python3.9/site-packages/model_angelo-0.2.3-py3.9.egg/model_angelo/data/dataset_preprocess.py", line 14, in <module>
    from model_angelo.utils.fasta_utils import read_fasta
  File "/home/apps/conda/miniconda3/envs/modelangelo-0.2.3/lib/python3.9/site-packages/model_angelo-0.2.3-py3.9.egg/model_angelo/utils/fasta_utils.py", line 10, in <module>
    from model_angelo.utils.residue_constants import index_to_restype_1
  File "/home/apps/conda/miniconda3/envs/modelangelo-0.2.3/lib/python3.9/site-packages/model_angelo-0.2.3-py3.9.egg/model_angelo/utils/residue_constants.py", line 1094, in <module>
    restype_atom37_to_rigid_group = np.zeros([21, 37], dtype=np.int)
  File "/home/apps/conda/miniconda3/envs/modelangelo-0.2.3/lib/python3.9/site-packages/numpy/__init__.py", line 305, in __getattr__
    raise AttributeError(__former_attrs__[attr])
AttributeError: module 'numpy' has no attribute 'int'.
`np.int` was a deprecated alias for the builtin `int`. To avoid this error in existing code, use `int` by itself. Doing this will not modify any behavior and is safe. When replacing `np.int`, you may wish to use e.g. `np.int64` or `np.int32` to specify the precision. If you wish to review your current use, check the release note link for additional information.
The aliases was originally deprecated in NumPy 1.20; for more details and guidance see the original release note at:
    https://numpy.org/devdocs/release/1.20.0-notes.html#deprecations

[jamaliki]

Hi, Yes, you are correct. I fixed this now. Best, Kiarash.

[jowodo]

Thanks for the quick fix. I tested it and it works now!