pandas 1.2.x requirement?

fbergmann commented 3 years ago

I just tried installing petab in the colab environment, unfortunately that failed, since colab only seems to work with pandas up to 1.1.5. Any chance we could lower our requirement here?

Collecting petab
  Downloading petab-0.1.20-py3-none-any.whl (84 kB)
...
Collecting pandas>=1.2.0
  Downloading pandas-1.3.3-cp37-cp37m-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (11.3 MB)
     |████████████████████████████████| 11.3 MB 12.6 MB/s 
...
Installing collected packages: pandas, colorama, petab
  Attempting uninstall: pandas
    Found existing installation: pandas 1.1.5
    Uninstalling pandas-1.1.5:
      Successfully uninstalled pandas-1.1.5
ERROR: pip's dependency resolver does not currently take into account all the packages that are installed. This behaviour is the source of the following dependency conflicts.
google-colab 1.0.0 requires pandas~=1.1.0; python_version >= "3.0", but you have pandas 1.3.3 which is incompatible.
Successfully installed colorama-0.4.4 pandas-1.3.3 petab-0.1.20
WARNING: The following packages were previously imported in this runtime:
  [pandas]
You must restart the runtime in order to use newly installed versions.

fbergmann commented 3 years ago

This came in with commit: 1f6495f819079cb134e4a81d34dc7afb808b0eb9, so it seems to be required for now, i'll just try an older version

dweindl commented 3 years ago

I'd prefer collab supporting a more recent pandas version :)

Did you try using petab after that message above? I just gave it a quick try. Despite that message, pandas was upgraded and petab got installed and was working. However, I am not sure if this breaks anything else in collab...

fbergmann commented 3 years ago

Guess nothing can be done, petab is actually working after installation, its the colab convenience features like uploading / downloading that failed for me. But there are workarounds for that. so i guess this can be closed.

PEtab-dev / libpetab-python

pandas 1.2.x requirement? #75