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bioconda / bioconda-recipes

Conda recipes for the bioconda channel.
https://bioconda.github.io
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aarch64 svtools dependencies #47350

Open cghAshes opened 2 months ago

cghAshes commented 2 months ago

I executed conda build svtools in linux-aarch64 env. I need to solve two dependencies problem. 

conda_build.exceptions.DependencyNeedsBuildingError: Unsatisfiable dependencies for platform linux-aarch64: {'google-compute-engine', 'pandas-0.19.2'}

google-compute-engine

I triggered conda-forge google-compute-engine auto migration, it failed on linux-ppc64le but ok on linux-aarch64. LINK I found that conda-forge auto migration just provide google-compute-engine above py38, but the svtools recipe require python < 3.

Can it work properly when the conda-forge provide google-compute-engine version above python 3? (Also, should I go to solve the problem why it fail on linux_ppc64le which hard for me?)

pandas-0.19.2

(base) [root@KylinV10SP1 svtools]# conda search pandas
Loading channels: done
# Name  Version Build Channel
pandas  0.24.2  py27h59fbc97_0  conda-forge
pandas  0.24.2  py36h59fbc97_0  conda-forge
pandas  0.24.2  py36h59fbc97 1  conda-forge

The lowest version pandas is 0.24.2 in conda-forge, which not satisfy svtools recipe(0.19.2). Should I write a recipe for pandas 0.19.2 and submit a PR to conda-forge?

Any suggestion would be appreciated! Many thanks!

martin-g commented 2 months ago

I triggered conda-forge google-compute-engine auto migration, it failed on linux-ppc64le but ok on linux-aarch64.

TravisCI is very unreliable :-/ You have two options:

For both you will need help from someone who has permissions to push to that repository.

martin-g commented 2 months ago

The lowest version pandas is 0.24.2 in conda-forge, which not satisfy svtools recipe(0.19.2). Should I write a recipe for pandas 0.19.2 and submit a PR to conda-forge?

There are many versions - https://anaconda.org/conda-forge/pandas/files You could try to remove 0.19.2 at https://github.com/bioconda/bioconda-recipes/blob/master/recipes/svtools/meta.yaml#L25 and see whether using a newer version will still work. I think the first version with support for linux-aarch64 is 0.24.2 - https://anaconda.org/conda-forge/pandas/files?page=34

martin-g commented 2 months ago

but the svtools recipe require python < 3.

This is a problem! You could try to migrate the package with 2to3.py