release_proteomics and devel_proteomics docker fail - Deprecate docker? - Githubissues

Bioconductor / bioc_docker

[DEPRECATED] Docker containers for Bioconductor

https://github.com/bioconductor/bioconductor_docker

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release_proteomics and devel_proteomics docker fail - Deprecate docker? #90

Open lshep opened 5 years ago

lshep commented 5 years ago

The release proteomics fails to build as does the devel_proteomics. From the tags it doesn't look like we have had a working image since Bioc 3.8. If the docker image is not updated to build successful we will be removing it as a listed available docker image after the next release.

sneumann commented 5 years ago

Indeed, this refers to these ones: https://github.com/Bioconductor/bioc_docker#maintained-by-laurent-gatto-lg390camacuk built at https://hub.docker.com/r/bioconductor/release_proteomics2/builds/ and typical build failures are https://cloud.docker.com/u/bioconductor/repository/registry-1.docker.io/bioconductor/release_proteomics2/builds/c6648224-4f0f-4012-92eb-b149d72937f4 Some errors to fix are:

[ ] Warning: dependency ‘pathological’ is not available
[ ] installation of package ‘rstan’ had non-zero exit status
[ ] Error: Failed to install: mlm4omics
[ ] Error: Failed to install: readat

@lgatto ?