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Bioconductor / GenomeInfoDb

Utilities for manipulating chromosome names, including modifying them to follow a particular naming style
https://bioconductor.org/packages/GenomeInfoDb
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Packaging issue with conda/bioconda #93

Closed gdevenyi closed 1 year ago

gdevenyi commented 1 year ago

The bioconda package of this is breaking things, discussion here: https://github.com/bioconda/bioconda-recipes/issues/41870

hpages commented 1 year ago

I believe this has been resolved by now. See https://github.com/Bioconductor/GenomeInfoDbData/issues/6.

Best

hpages commented 1 year ago

Hope it's ok to close. @gdevenyi Feel free to re-open if you're still having issue with this.

gdevenyi commented 1 year ago

It wasn't the last time I tried (see https://github.com/bioconda/bioconda-recipes/issues/41870) updated posts.

I just fixed it myself in the end by creating a new environment from scratch which skipped whatever broken update step or such was happening.

hpages commented 1 year ago

Sounds good. In any case it didn't seem like an issue with GenomeInfoDb itself. More like an issue with conda/bioconda's packaging of the GenomeInfoDbData package.

gdevenyi commented 1 year ago

conda/bioconda's packaging of the GenomeInfoDbData package.

Agree, just wasn't sure if the team here was involved in that.

hpages commented 1 year ago

No we're not. The only installation method endorsed and supported by Bioconductor is via BiocManager::install(): https://bioconductor.org/install/ People using anything else are on their own.