PyDESeq2 icon indicating copy to clipboard operation
PyDESeq2 copied to clipboard

[BUG] Synthetic example dataset doesn't work

Open DamirTomic opened this issue 2 years ago • 0 comments

Describe the bug When installing this package via pip in a venv and using the example dataset, method load_example_data in pydeseq2\utils.py fails because it cannot read the file "test_counts.csv" because there isn't one. I Had to copy it manually from the repo.

There is no dataset folder in C:...\venv\lib\site-packages\datasets\synthetic\test_counts.csv

To Reproduce pip install pydesq2 run this example: https://pydeseq2.readthedocs.io/en/latest/auto_examples/plot_minimal_pydeseq2_pipeline.html

Expected behavior File should be present and the code should open and parse the file.

Desktop (please complete the following information):

  • win10x64
  • python 3.9

DamirTomic avatar Feb 26 '23 16:02 DamirTomic