Hi Ulrich,
The updated BSgenome.Mmusculus.UCSC.mm10.masked (version 1.4.3) will
become available via BiocManager::install() for BioC 3.14 users in about
3 hours. It might be too late for the daily builds to pick it up today
in which case podkat will still be in ERROR on tomorrow's report but it
should turn green on Wednesday. Let us know if it doesn't.
Best,
H.
On 30/08/2021 09:56, Hervé Pagès wrote:
Hi,
It's still on my list to reforge BSgenome.Mmusculus.UCSC.mm10.masked. I
reforged BSgenome.Mmusculus.UCSC.mm10 back in June after the UCSC folks
updated the mm10 genome and tracks (see
https://github.com/Bioconductor/GenomeInfoDb/issues/27). But
BSgenome.Mmusculus.UCSC.mm10.masked is still based on the old
BSgenome.Mmusculus.UCSC.mm10 and needs to be resynced with the new one.
I'll do this today. Sorry for the inconvenience.
H.
On 30/08/2021 06:58, Kern, Lori wrote:
We will look into the ERROR. You do not have to alter your package at
this time as the ERROR is on our end and we will look at correcting.
Lori Shepherd
Bioconductor Core Team
Roswell Park Comprehensive Cancer Center
Department of Biostatistics & Bioinformatics
Elm & Carlton Streets
Buffalo, New York 14263
________________________________
From: Bioc-devel <bioc-devel-boun...@r-project.org> on behalf of
bodenho...@bioinf.jku.at <bodenho...@bioinf.jku.at>
Sent: Monday, August 30, 2021 9:12 AM
To: bioc-devel@r-project.org <bioc-devel@r-project.org>
Subject: [Bioc-devel] BioC 3.14: BSgenome.Mmusculus.UCSC.mm10.masked
Hi,
The vignette of my package 'podkat' loads the
'BSgenome.Mmusculus.UCSC.mm10.masked' package. Currently, my package
fails
on all three BioC 3.14 servers because of this package. On nebbiolo2 and
riesling1, the package is not available, while the package is
available, but
fails to load, on merida1
(http://bioconductor.org/checkResults/3.14/bioc-LATEST/podkat/merida1-builds
rc.html). Is the package no longer available in 3.14 or is there anything
else that goes wrong? Is there anything I can about it? (except
removing it
from the 'podkat' vignette)
Any help is gratefully appreciated, thank you,
Ulrich
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Hervé Pagès
Bioconductor Core Team
hpages.on.git...@gmail.com
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