[Bioc-devel] BSgenome.* packages on taishan
Thanks for raising this issue. I'll reach out to the new maintainer of taishan on the #arm-linux channel. You're welcome to follow the conversation there. Andres Wokaty (they/them) Waldron Lab at CUNY SPH Bioconductor Core Team
From: Bioc-devel <bioc-devel-bounces at r-project.org> on behalf of Robert Castelo via Bioc-devel <bioc-devel at r-project.org>
Sent: Friday, October 3, 2025 8:04 AM
To: bioc-devel at r-project.org <bioc-devel at r-project.org>
Cc: Ulrich Bodenhofer <ulrich.bodenhofer at gmail.com>
Subject: Re: [Bioc-devel] BSgenome.* packages on taishan
Sent: Friday, October 3, 2025 8:04 AM
To: bioc-devel at r-project.org <bioc-devel at r-project.org>
Cc: Ulrich Bodenhofer <ulrich.bodenhofer at gmail.com>
Subject: Re: [Bioc-devel] BSgenome.* packages on taishan
* This email originates from a sender outside of CUNY. Verify the sender before replying or clicking on links and attachments. * Hi, same experience here with VariantFiltering and BSgenome.Hsapiens.1000genomes.hs37d5: https://urldefense.com/v3/__https://bioconductor.org/checkResults/3.22/bioc-LATEST/VariantFiltering/taishan-buildsrc.html__;!!LRXxDv2l!QNR9irjvQPL4vPz3h0F7F3nUT8b0GlY4vE3UBEH_5vpSdHIz2wg8jvN6OriFKFAeQNtcjcJHDZRGGZIBMcLmxnP0a6wUhNRokQ$ robert. On 3/10/25 09:56, Ulrich Bodenhofer wrote: > Dear colleagues, > > Since the release of Bioconductor 3.22 is coming closer (less than > four weeks from now), I wanted to ask the following question: My > package ?podkat? has been failing on ?taishan? for quite some time > already. The reason is that the 'BSgenome.Mmusculus.UCSC.mm10.masked? > package is not available on this server. The same is true for many (if > not all) BSgenome-derived packages. That is also why some other > packages fail, too. Can I expect that this will be fixed before the > release or should I simply ignore this error? (I am reluctant to > remove the ?Suggests? dependency in my package, since I would have to > remove a valuable piece of documentation from the package vignette) > Remarks and suggestions are cordially welcome! > > Thanks and best regards, > Ulrich Bodenhofer > > _______________________________________________ > Bioc-devel at r-project.org mailing list > https://urldefense.com/v3/__https://stat.ethz.ch/mailman/listinfo/bioc-devel__;!!LRXxDv2l!QNR9irjvQPL4vPz3h0F7F3nUT8b0GlY4vE3UBEH_5vpSdHIz2wg8jvN6OriFKFAeQNtcjcJHDZRGGZIBMcLmxnP0a6xiVKJTKg$ -- Robert Castelo, PhD Associate Professor Dept. of Medicine and Life Sciences Universitat Pompeu Fabra (UPF) Barcelona Biomedical Research Park (PRBB) Dr Aiguader 88 E-08003 Barcelona, Spain telf: +34.933.160.514 _______________________________________________ Bioc-devel at r-project.org mailing list https://urldefense.com/v3/__https://stat.ethz.ch/mailman/listinfo/bioc-devel__;!!LRXxDv2l!QNR9irjvQPL4vPz3h0F7F3nUT8b0GlY4vE3UBEH_5vpSdHIz2wg8jvN6OriFKFAeQNtcjcJHDZRGGZIBMcLmxnP0a6xiVKJTKg$