Conda installation fails

Conda installation fails silently with no error.

Installation command:

conda install -c bioconda scanpy

Output:

Collecting package metadata (current_repodata.json): done
Solving environment: failed with initial frozen solve. Retrying with flexible solve.
Solving environment: failed with repodata from current_repodata.json, will retry with next repodata source.
Collecting package metadata (repodata.json): done
Solving environment: failed with initial frozen solve. Retrying with flexible solve.
Solving environment: / 
Found conflicts! Looking for incompatible packages.
This can take several minutes.  Press CTRL-C to abort.
failed                                                                                                                                                                                                                                                                                                                                                     

UnsatisfiableError: The following specifications were found to be incompatible with each other:

Output in format: Requested package -> Available versions

Increasing the verbosity did not help. Using older python version did not helpeither… It looks like the metadata are not correct but I am not able to validate this. I tried miniconda anaconda clean installs and I had no luck whatsoever.

Pip install works fine.

[michalk8]

@pati-ni I have the similar issue when installing CellRank as conda install -c bioconda cellrank. Problem is not all dependencies are on bioconda, some of them are on conda-forge - I’ve tested it and I have the same problem with scanpy. Installing it as conda install -c bioconda -c conda-forge scanpy works. But @ivirshup is right, seems like conda issue.

[pati-ni]

I can confirm this as a working workaround. Thank you @michalk8

@pati-ni I have the similar issue when installing CellRank as conda install -c bioconda cellrank. Problem is not all dependencies are on bioconda, some of them are on conda-forge - I’ve tested it and I have the same problem with scanpy. Installing it as conda install -c bioconda -c conda-forge scanpy works. But @ivirshup is right, seems like conda issue.