Hi Onur,
AFAICT ChIPseeker is currently available on all platforms in BioC devel:
https://bioconductor.org/packages/3.13/ChIPseeker
Same for all the other Bioconductor packages that the CRAN check results
for cinaR say are not available:
- CRAN check results:
https://www.r-project.org/nosvn/R.check/r-devel-linux-x86_64-debian-clang/cinaR-00check.html
https://www.r-project.org/nosvn/R.check/r-devel-linux-x86_64-debian-gcc/cinaR-00check.html
https://www.r-project.org/nosvn/R.check/r-devel-linux-x86_64-fedora-clang/cinaR-00check.html
https://www.r-project.org/nosvn/R.check/r-devel-linux-x86_64-fedora-gcc/cinaR-00check.html
- Packages reported as not available are available:
pkgs_reported_as_not_available <- c(
'ChIPseeker',
'DESeq2',
'TxDb.Hsapiens.UCSC.hg38.knownGene',
'TxDb.Hsapiens.UCSC.hg19.knownGene',
'TxDb.Mmusculus.UCSC.mm10.knownGene')
library(BiocManager)
# Bioconductor version 3.13 (BiocManager 1.30.11),
?BiocManager::install for help
available_pkgs <-
rownames(available.packages(contrib.url(repositories(
pkgs_reported_as_not_available %in% available_pkgs
# [1] TRUE TRUE TRUE TRUE TRUE
So to me it looks like some hiccup in the CRAN builds.
H.
On 3/23/21 3:12 PM, Onur Karakaslar wrote:
Hi all,
I have a CRAN package called cinaR which depends on ChIPseeker. Yet, I
recently learned that ChIPseeker is actually failing on r-devel checks of
CRAN, which possibly fails my package as well. You can find the detailed
info here:
https://support.bioconductor.org/p/9135778/
Can anyone help me figure this out?
Thank you very much for your help!
Best,
Onur
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