ModuleNotFoundError: No module named 'pysam'

[Vic-s]

• vcfpy version: 0.13.4
• Python version: 3.10.4
• Operating System: Linux (Ubuntu 22.04)

Description

Try to install and use vcfpy. Install successful, use failed.

I think requirements are not processed correctly when using pip

What I Did

$ pip install vcfpy
Collecting vcfpy
  Downloading vcfpy-0.13.4.tar.gz (1.0 MB)
     ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 1.0/1.0 MB 7.8 MB/s eta 0:00:00
  Preparing metadata (setup.py) ... done
Building wheels for collected packages: vcfpy
  Building wheel for vcfpy (setup.py) ... done
  Created wheel for vcfpy: filename=vcfpy-0.13.4-py2.py3-none-any.whl size=34590 sha256=409354257971197c313d3e7f84b9c8f1e23bda33d78121f4b3efd1662d40488e
  Stored in directory: /home/victor/.cache/pip/wheels/fb/f8/c3/4f2a584f46d0a628bd41c17311e38496eea7b3f8c5ef4309d2
Successfully built vcfpy
Installing collected packages: vcfpy
Successfully installed vcfpy-0.13.4

But when using vcfpy

$ python
Python 3.10.4 (main, Jun 29 2022, 12:14:53) [GCC 11.2.0] on linux
Type "help", "copyright", "credits" or "license" for more information.
>>> import vcfpy
Traceback (most recent call last):
  File "<stdin>", line 1, in <module>
  File "/home/victor/Documents/python/algemeen/venv/lib/python3.10/site-packages/vcfpy/__init__.py", line 46, in <module>
    from .reader import Reader
  File "/home/victor/Documents/python/algemeen/venv/lib/python3.10/site-packages/vcfpy/reader.py", line 8, in <module>
    import pysam
ModuleNotFoundError: No module named 'pysam'

$ pip list | grep pysam does indeed show pysam is not installed.

Checking dependency $ python -m pip check does not show pysam is missing

In ' base/requirement.txt' pysam is mentioned I think pip is not using it.

Workaround: manually install pysam $ pip install pysam

Paste the command(s) you ran and the output.
If there was a crash, please include the traceback here.