Question

Failing to install DEP package. Some strange error.

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tpm • 0

@tpm-23631

Last seen 2.8 years ago

Netherlands

Hello. I am trying to install the DEP package on R. Somehow, I when I run this code below, I get this strange error. Maybe someone knows how to deal with this issue? Thank you in advance.

 if (!requireNamespace("BiocManager", quietly=TRUE))
      install.packages("BiocManager")
    BiocManager::install("DEP")

    library("DEP")

Then the error message:

Error in read.dcf(file.path(pkgname, "DESCRIPTION"), c("Package", "Type")) : cannot open the connection In addition: Warning messages: 1: In download.file(url, destfile, method, mode = "wb", ...) : downloaded length 471040 != reported length 1870917 2: In unzip(zipname, exdir = dest) : error 1 in extracting from zip file 3: In read.dcf(file.path(pkgname, "DESCRIPTION"), c("Package", "Type")) : cannot open compressed file 'BiocParallel/DESCRIPTION', probable reason 'No such file or directory'

library("DEP") Error in library("DEP") : there is no package called ‘DEP’

R Bioconductor Install DEP • 1.5k views

ADD COMMENT • link 3.1 years ago tpm • 0

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BiocParallel is missing, could you try install it ?

if (!requireNamespace("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("BiocParallel")

ADD REPLY • link 3.1 years ago Basti ▴ 780

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Thank you very much. It worked nicely.

ADD REPLY • link 3.1 years ago tpm • 0

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Can you add your sessionInfo()

ADD REPLY • link 3.1 years ago shepherl 3.8k

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Yes, please find the attached.

sessionInfo() R version 4.0.4 (2021-02-15) Platform: x86_64-w64-mingw32/x64 (64-bit) Running under: Windows >= 8 x64 (build 9200)
Matrix products: default
locale: [1] LC_COLLATE=English_United Kingdom.1252 LC_CTYPE=English_United Kingdom.1252 LC_MONETARY=English_United Kingdom.1252 LC_NUMERIC=C
[5] LC_TIME=English_United Kingdom.1252

attached base packages: [1] stats graphics grDevices utils datasets methods base

loaded via a namespace (and not attached): [1] BiocManager_1.30.10 compiler_4.0.4 tools_4.0.4

ADD REPLY • link 3.1 years ago tpm • 0