Install PacBio lima via conda fails
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Entering edit mode
8 weeks ago

I'm trying to install lima from PacBio to demultiplex some sequencing data. I've tried in micromamba environments with python 2.7 and 3.10.13, but get the same error message.

Commands I've tried:

conda install -c bioconda lima
conda install bioconda::lima
conda install bioconda/label/cf201901::lima

Here's what I get:

    $ conda install -c bioconda lima
pkgs/main/osx-64                                              No change
bioconda/noarch                                               No change
pkgs/main/noarch                                              No change
bioconda/osx-64                                               No change
pkgs/r/osx-64                                                 No change
pkgs/r/noarch                                                 No change
conda-forge/noarch                                  16.8MB @   1.1MB/s 15.5s
conda-forge/osx-64                                  34.0MB @   1.5MB/s 22.5s

Pinned packages:
  - python 2.7.*

error    libmamba Could not solve for environment specs
    The following package could not be installed
     lima does not exist (perhaps a typo or a missing channel).
critical libmamba Could not solve for environment specs
(py2) 

Does anyone have any ideas how to resolve? I'm on a MacBook if that makes any difference.

conda • 467 views
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Try create a separate environment

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Tried that, including with different python versions as above, and get the same result

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Entering edit mode
8 weeks ago

It looks like you have pinned py2.7. You'll have to get rid of this setting. I think this is your problem.

Pinned packages:
  - python 2.7.*

Another option is to use the conda-forge channel.

mamba install -y -c conda-forge -c bioconda lima
mamba install -y -c conda-forge -c bioconda -c default lima
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