Re: Rhtslib does not contain bam.h any more thus build of BitSeq fails
On 21 November 2022 at 20:13, Nilesh Patra wrote:
| On Mon, Nov 21, 2022 at 02:43:28PM +0100, Andreas Tille wrote:
| > Am Mon, Nov 21, 2022 at 03:35:38PM +0200 schrieb Antti Honkela:
| > > We do not have resources to maintain BitSeq anymore and have requested its removal from Bioconductor. I am not sure why it is still there as it is broken.
| >
| > Thanks a lot for the super fast and helpful response.
| >
| > To the readers of Debian R pkg team: Seems we should remove
| > r-bioc-bitseq from Debian, right?
|
| If it is going away from bioconductor itself, then I see no reason to keep it in Debian either.
Using the same short code example Kurt Hornik posted for CRAN to find
packages `apt-cache search` still knows, but that are no longer in the
repository, I looked at the BioConductor release and found these two:
> setdiff(p, paste0("r-bioc-", tolower(AP$Package)))
[1] "r-bioc-deseq" "r-bioc-mofa"
>
A search at the BioConductor site seems to confirm it. So that would be two
candidates for removal (but if they still build one can also argue for
keeping them for our user's benefit).
Dirk
--
dirk.eddelbuettel.com | @eddelbuettel | edd@debian.org
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