Update Problems

Hello all,

I have updated my conda and the individual envs.
conda update conda
conda update --all -n envname

But when checking the versions (conda list -n envname) of individual packages, I noticed that they were not updated. Because according to the developers there are already newer versions.

In addition, one tool no longer works at all since the update and I get the following output:

(polish) stw@jki-pre5820:~$ medaka --help
Traceback (most recent call last):
  File "/home/stw/miniconda3/envs/polish/bin/medaka", line 7, in <module>
    from medaka.medaka import main
  File "/home/stw/miniconda3/envs/polish/lib/python3.8/site-packages/medaka/medaka.py", line 8, in <module>
    import medaka.datastore
  File "/home/stw/miniconda3/envs/polish/lib/python3.8/site-packages/medaka/datastore.py", line 19, in <module>
    import h5py
  File "/home/stw/miniconda3/envs/polish/lib/python3.8/site-packages/h5py/__init__.py", line 46, in <module>
    from ._conv import register_converters as _register_converters
  File "h5py/_conv.pyx", line 1, in init h5py._conv
  File "h5py/h5t.pyx", line 293, in init h5py.h5t
  File "/home/stw/miniconda3/envs/polish/lib/python3.8/site-packages/numpy/__init__.py", line 320, in __getattr__
    raise AttributeError("module {!r} has no attribute "
AttributeError: module 'numpy' has no attribute 'typeDict'

Can anyone help me?
Many thanks in advance
Viola :slight_smile:

Anaconda supplies stable versions of packages with it’s distribution, which are not necessarily the latest available version of a package. If you want to get the latest version of a package, you can install a package from conda-forge(make sure to create a new conda environment):

conda create -n mycforgepkgs 
conda activate mycforgepkgs
conda install pandas -c conda-forge