Potential naming issue with import of importlib-metadata package

[tilofrei]

Hi Tim, when loading your package in python I ran into an error:

>>> import sinto
Traceback (most recent call last):
File "<stdin>", line 1, in <module>
File "/data/user/conda/envs/sinto/lib/python3.7/site-packages/sinto/__init__.py", line 1, in <module>
import importlib.metadata
ModuleNotFoundError: No module named 'importlib.metadata'

Then I noticed in my installation the package is called envs/sinto/lib/python3.7/site-packages/importlib_metadata (with an underscore instead of a dot). So changing import.metadata to import_metadata in conda/pkgs/sinto-0.8.1-pyhfa5458b_0/site-packages/sinto/__init__.py resolves the error. Maybe this is a version specific naming?

Thanks! Tilo

My conda environment:

• _libgcc_mutex=0.1=conda_forge
• _openmp_mutex=4.5=2_gnu
• bzip2=1.0.8=h7f98852_4
• c-ares=1.18.1=h7f98852_0
• ca-certificates=2022.6.15=ha878542_0
• curl=7.83.1=h2283fc2_0
• keyutils=1.6.1=h166bdaf_0
• krb5=1.19.3=h08a2579_0
• ld_impl_linux-64=2.36.1=hea4e1c9_2
• libblas=3.9.0=15_linux64_openblas
• libcblas=3.9.0=15_linux64_openblas
• libcurl=7.83.1=h2283fc2_0
• libdeflate=1.6=h516909a_0
• libedit=3.1.20191231=he28a2e2_2
• libev=4.33=h516909a_1
• libffi=3.4.2=h7f98852_5
• libgcc-ng=12.1.0=h8d9b700_16
• libgfortran-ng=12.1.0=h69a702a_16
• libgfortran5=12.1.0=hdcd56e2_16
• libgomp=12.1.0=h8d9b700_16
• liblapack=3.9.0=15_linux64_openblas
• libnghttp2=1.47.0=he49606f_0
• libnsl=2.0.0=h7f98852_0
• libopenblas=0.3.20=pthreads_h78a6416_1
• libssh2=1.10.0=ha35d2d1_2
• libstdcxx-ng=12.1.0=ha89aaad_16
• libzlib=1.2.12=h166bdaf_2
• ncurses=6.3=h27087fc_1
• numpy=1.21.6=py37h976b520_0
• openssl=3.0.5=h166bdaf_1
• pip=22.2.2=pyhd8ed1ab_0
• pysam=0.16.0=py37ha9a96c6_0
• python=3.7.12=hf930737_100_cpython
• python_abi=3.7=2_cp37m
• readline=8.1.2=h0f457ee_0
• scipy=1.7.3=py37hf2a6cf1_0
• setuptools=63.4.1=py37h89c1867_0
• sinto=0.8.1=pyhfa5458b_0
• sqlite=3.39.2=h4ff8645_0
• tk=8.6.12=h27826a3_0
• wheel=0.37.1=pyhd8ed1ab_0
• xz=5.2.5=h516909a_1
• zlib=1.2.12=h166bdaf_2
• pip:
  • importlib-metadata==4.12.0
  • typing-extensions==4.3.0
  • zipp==3.8.1

[timoast]

importlib_metadata is a different package, importlib.metadata is included in python >=3.8. The issue here is I didn’t set the minimum python version requirement, it should be 3.8. I will add that to setup.cfg, in the meantime installing python >=3.8 should solve this issue.

[tilofrei]

Oh, thanks! That worked for me.

[bellenger-l]

Hello !

I encounter the same issue when I use conda to install sinto. Even if it installs the version 0.9.0 by default, I had to specify the python version to overcome this error (and another error appears later so I also specified to install cython which seems to be required by pysam).

In order to have a functional conda environment, I had to run the following command :

conda create -n sinto_env python=3.8 sinto cython

Thanks for this tool, I can't wait to test it. Best Lea