Nitesh Turaga

Another note, sometimes when users don't get the email from BiocCredentials, it is because their "institute" has firewalls. This is a problem we are unable to get around and is...

Hi @andr-kun it is possible to `saveregistry=TRUE` to avoid deleting your logs. ``` > BiocParallel::BatchtoolsParam function (workers = batchtoolsWorkers(cluster), cluster = batchtoolsCluster(), registryargs = batchtoolsRegistryargs(), saveregistry = FALSE, resources =...

Can you try using the `BiocParallel::BatchToolsParam()` interface and try it on your SLURM cluster?

@lwaldron This is happening because the bioc_docker images install packages install the R packages as `root` (https://github.com/Bioconductor/bioc_docker/blob/master/out/devel_base/Dockerfile#L30). It is an issue which might be carried forward. I'm working on a...

Hi @LiNk-NY , I think the update of the 3.11 is an artifact of the updated docker image which I pushed recently. I'm unable to reproduce it as well. Maybe...

> Ah, I am able to reproduce if I explicitly try to install in > > ```r > BiocManager::install("BiocVersion", lib = "/usr/local/lib/R/site-library") > Bioconductor version 3.11 (BiocManager 1.30.10), ?BiocManager::install for...

So, does that mean it's an issue in `BiocManager::install()` ?

Ok, then we need to redo the Dockerfile in devel_base2 and release_base2 images within bioc_docker then, and make sure that those libraries are owned by rstudio.

@lwaldron @LiNk-NY @mtmorgan Just an update on the original issue, i've posted the issue on the rocker repository and it seems to be stemming from there. https://github.com/rocker-org/rocker-versioned/issues/177

Hi @nsheff , I'll try to get a size comparison with a `devel` image with things installed on it to understand what would be needed to get closer to the...