User: balin
balin • 0
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Posts by balin
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... On Wed, 2018-05-16 at 13:22 +0000, Martin Morgan [bioc] wrote:
> Activity on a post you are following on support.bioconductor.org
> User Martin Morgan wrote Comment: R 3.5.0/Bioconductor version 3.6:
> OS-dependent behavior divergence for list concatenation of
> SummarizedExperiment:
> ...
written 5 months ago by
balin • 0
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... I don't ... loads without a hitch.
...
written 5 months ago by
balin • 0
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...
> BiocInstaller::biocLite('BiocUpgrade')
Error: Bioconductor version 3.6 cannot be upgraded with R version 3.5.0
...
written 5 months ago by
balin • 0
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...
> BiocInstaller::biocValid()
[1] TRUE
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written 5 months ago by
balin • 0
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... @Martin Morgan
1) I have not down anything out of the ordinary (other than maintaining my dev environment in switchr) - is switchr known to generate this kind of R/bioc mismatch?
2) isn't it strange that the apparently mismatched R/bioc combination does the concatenation just fine, but your matche ...
written 5 months ago by
balin • 0
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... Weirder by the minute ... here's my (again error free) reproduction including sessionInfo() ...
I note a difference in SummarizedExperiment version (above 1.10., me 1.8), which BiocInstaller::biocLite(checkBuild=T) does not change ... where does that difference come from?
> nrows <- 200; ncols ...
written 5 months ago by
balin • 0
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... Consider the following code:
nrows <- 200; ncols <- 6
counts <- matrix(runif(nrows * ncols, 1, 1e4), nrows)
rowRanges <- GenomicRanges::GRanges(rep(c("chr1", "chr2"), c(50, 150)),
IRanges::IRanges(floor(runif(200, 1e5, 1e6)), width=100),
strand=sample(c("+", ...
written 5 months ago by
balin • 0
• updated 5 months ago by
James W. MacDonald ♦ 48k
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