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missing napari-czifle2 in conda recipe of devbio-napari #11
Description
This
conda create --name devbio-napari-env python=3.9 devbio-napari -c conda-forge conda activate devbio-napari-env
failed to install napari-czifile2
A manual install with
conda install -c conda-forge napari-czifile2 helped.
Reacted by Robert Haase
Activity
haesleinhuepf commentedon Jul 19, 2022
Hi Antonio @manerotoni,
the conda package should update over night with the dependency included. Thanks again for reaching out! Let me know if there are any further issues!
Best,
Robert
manerotoni commentedon Jul 25, 2022
Hi Robert,
I think the mamba recipe also misses the napari-czifile2 (I thought it is the same as conda?)
haesleinhuepf commentedon Jul 25, 2022
Hey Antonio @manerotoni ,
it's the same as conda, yes, and it lives here:
https://github.com/conda-forge/devbio-napari-feedstock/blob/main/recipe/meta.yaml#L55
If you still experience issues, would you mind sharing details? E.g. what did you install and how? What was the output of the program and how do you know installation doesn't work? The output of
conda listin your environment would be interesting too.Let me know!
Best,
Robert
manerotoni commentedon Jul 26, 2022
The two install are definitely very different. I have a Windows10 miniconda install. Just performed the test today 26.07.2022, 9.25 AM
conda create
conda create --name devbio-napari-env-conda python=3.9 devbio-napari -c conda-forgePackage list is
conda env export > dev-napari-env-conda.log384 packagesdevbio-napari-env-conda.log
mamba create
mamba create --name devbio-napari-env-mamba python=3.9 devbio-napari -c conda-forgePackage list is
conda env export > dev-napari-env-conda.log360 packagesdevbio-napari-env-mamba.log
The package installed and also the versions installed are quite different!
This is just a short list
Very confusing.
manerotoni commentedon Jul 26, 2022
mamba (0.24.0) and conda (4.13.0) do not give me any error. I am able to install missing packages using
mamba install ... -c conda-forgeIn the report of what is being installed packages are indeed missing:
Here part of the mamba install log
and here the corresponding part with conda
haesleinhuepf commentedon Jul 26, 2022
Indeed! Conda installs devbio-napari 0.5.9 and mamba installs devbio-napari 0.5.6 .
What happens if you explicitly install a specific devbio-napari version? Do conda and mamba do the same then?
Furthermore, did you install mamba in the base environment? And did you call both installations from the base?
manerotoni commentedon Jul 27, 2022
conda and mamba are in the base environment.
But why do they use a different distribution?
I would think that they should both use the latest.
I will try to install 0.5.9, then I expect to get the same result.
manerotoni commentedon Jul 27, 2022
From base environment (mamba installed with
conda install mamba)conda create --name devbio-napari-env-conda-0.5.9 python=3.9 devbio-napari=0.5.9 -c conda-forgedevbio-napari-env-conda-0.5.9.log
384 packages installed
mamba create --name devbio-napari-env-mamba-0.5.9 python=3.9 devbio-napari=0.5.9 -c conda-forgedevbio-napari-env-mamba-0.5.9.log
390 packages installed
We still have a delta of 6 packages, but now in the inverse direction, also some packages have a different versions.
I think these packages are unrelated to devbio-napari.
haesleinhuepf commentedon Jul 27, 2022
Hi @manerotoni ,
I suggest to talk to the conda and/or mamba developers about this. Furthermore, we are planning to release devbio-napari in the future with pinned dependencies. It should then become more robust against variations.
Best,
Robert
manerotoni commentedon Jul 27, 2022
Will you communicate with conda/mamba developers or should I do it?
It is a little scary that 2 tools that are meant to do the same install do something quite different. Mamba resolve dependencies differently and this explains why you are faster but may also get you two different results.