Bioconductor 3.13 installer reports that affyQCReport is not available
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lsmatott • 0
@bf8ce61d
Last seen 3.2 years ago
United States

The Bioconductor website (https://bioconductor.org/packages/release/bioc/html/affyQCReport.html) indicates that affQCReport is available for Biocondcutor version 3.13, albeit deprecated. However, installation fails with an error:

Bioconductor version 3.13 (BiocManager 1.30.16), R 4.1.1 (2021-08-10)

Installing package(s) 'affyQCReport'

Old packages: 'igraph', 'pkgload', 'viridis'

Warning message:

In .inet_warning(msg) :

package ‘affyQCReport’ is not available for Bioconductor version '3.13'

A version of this package for your version of R might be available elsewhere,

see the ideas at

https://cran.r-project.org/doc/manuals/r-patched/R-admin.html#Installing-packages

Install 3.13 affyQCReport • 2.0k views
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It looks like this might be due to the fact that simpleaffy has been removed from Bioconductor version 3.13 - it seems that affyQCReport depends on simpleaffy.

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shepherl 4.1k
@lshep
Last seen 2 hours ago
United States

If you look at the bottom of the page https://bioconductor.org/packages/release/bioc/html/affyQCReport.html , It never had a successful build since the start of the release. And as lsmatott indicated is due to simpleaffy not being available and them not adjusting their package accordingly. If it did not build correctly at least once it will not be available to download. Also indicated by the badge at the top: Platform: None.

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Miguel ▴ 10
@857848ba
Last seen 2.2 years ago
Spain

Same problem! Solved running:

BiocManager::install("simpleaffy",site_repository = "https://bioconductor.org/packages/3.5/bioc")

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