[Bioc-devel] Biostrings: substitution matrices disappeared?

[Martin Grigorov]

Hi,

Yesterday there was another email about Biostrings -
https://stat.ethz.ch/pipermail/bioc-devel/2024-April/020395.html
I thought it might be related to your problem.

Regards,
Martin

On Thu, Apr 25, 2024 at 8:23 AM Ulrich Bodenhofer <
ulrich.bodenhofer using gmail.com> wrote:

> Dear colleagues, dear BioC core team,
>
> One of my packages in the devel branch, the ‘msa’ package seems broken
> since
> yesterday. The vignette does not run anymore (therefore, the package does
> not build), and the reason is that the BLOSUM62 substitution matrix cannot
> be loaded form the ‘Biostrings’ package anymore. I checked the ‘Biostrings’
> package. In Version 2.70.3 in the release branch, the substitution matrices
> were still in the ‘data/’ directory. In the current devel version 2.71.6,
> they have disappeared. I found no hint to that in the NEWS file. So, I want
> to kindly ask the maintainers of the ‘Biostrings’ package to give me some
> advice how to fix that on my side or, in case that this is an error in the
> current devel version of the ‘Biostrings’ package, to have a look into
> this.
>
> Thanks a lot in advance, best regards,
> Ulrich
>
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