![]() ![]() Those that have code that needs to be compiled, and those that do not. There are two main types of source packages. Installation of package ‘rlang’ had non-zero exit status There is a binary version available but the source version is later:Ĭontent type 'application/x-gzip' length 740971 bytes (723 KB) > install.packages("rlang", force = TRUE) Could it be a problem when installing from source? It is indicating that the package 'rlang' is an old version, so I have tried to re-install it, but it is also saying the non-zero exit status for this package. Installation paths not writeable, unable to update ‘C:\Users\joser\AppData\Local\Temp\RtmpsF3cDn\downloaded_packages’ Standard repositories, see '?repositories' forīioconductor version 3.15 (BiocManager 1.30.18), R 'getOption("repos")' replaces Bioconductor Here is what happend when I don´t update: > install("GenomeInfoDbData", force = TRUE) ![]() 'C:\Users\Public\Documents\Wondershare\CreatorTemp\RtmpY78tX0\downloaded_packages' ![]() ** testing if installed package keeps a record of temporary installation path ** testing if installed package can be loaded from final location ** testing if installed package can be loaded from temporary location * installing *source* package 'GenomeInfoDbData'. Installing the source package 'GenomeInfoDbData' Is the output you provided the entirety of the output or have you subsetted? I get much more > install("GenomeInfoDbData", force = TRUE)īioconductor version 3.15 (BiocManager 1.30.18), R 4.2.0 ( ucrt) ‘C:\Users\joser\AppData\Local\Temp\RtmpobqssT\downloaded_packages’ 'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for detailsīioconductor version 3.15 (BiocManager 1.30.18), R 4.2.1 ( ucrt) It just try to install it without asking me: > BiocManager::install("GenomeInfoDbData") Regardless to the "I don’t know why it would install from source unless you say when prompted" It is not giving me the option to answer in the prompt. ![]() There is no package called ‘GenomeInfoDbData’ The following object is masked from ‘package:grDevices’:Įrror: package or namespace load failed for ‘GenomeInfoDb’ in loadNamespace(i, c(lib.loc. Sort, table, tapply, union, unique, unsplit, Rbind, Reduce, rownames, sapply, setdiff, Pmax.int, pmin, pmin.int, Position, rank, Map, mapply, match, mget, order, paste, pmax, Grep, grepl, intersect, is.unsorted, lapply, The following objects are masked from ‘package:base’:īasename, cbind, colnames, dirname, do.call,ĭuplicated, eval, evalq, Filter, Find, get, The following objects are masked from ‘package:stats’: Package ‘GenomeInfoDb’ successfully unpacked and MD5 sums checked Installing package into ‘C:/Users/joser/AppData/Local/R/win-library/4.2’ > install.packages("C:/Users/joser/Downloads/GenomeInfoDb_1.32.2.zip", repos = NULL, type = "win.binary") I have try to install GenomeInfoDbData from binary, but there is no any Windows Binary in the Bioconductor page ( ). I have tried installing GenomeInfoDb, but it comes with the same GenomeInfoDbData error. Do you have any clue about what could be going on here? I have tried to solve this problem in different ways (re-installing R and Rstudio several times and removing old files, installing GenomeInfoDbData alone using BiocManager and from source, with and without admin permissions.) but all failed and all finally reported "installation of package ‘GenomeInfoDbData’ had non-zero exit status". Installation of package ‘GenomeInfoDbData’ had non-zero exit status Installation paths not writeable, unable to update packages ‘C:\Users\joser\AppData\Local\Temp\Rtmpw7QBW1\downloaded_packages’ Installing the source package ‘GenomeInfoDbData’Ĭontent type 'application/x-gzip' length 11512907 bytes (11.0 MB) Install.packages("BiocManager") BiocManager::install("DESeq2")Īll commands run well, however, at the end of the installation the next problem related with GenomeInfoDbData pops up: The downloaded binary packages are inĬ:\Users\joser\AppData\Local\Temp\Rtmpw7QBW1\downloaded_packages I am running RStudio with R 4.2.1 in windows10 and I am trying to install the DEseq2 package using the recommended commands: if (!require("BiocManager", quietly = TRUE)) However, I have not been able to fix this issue with that information. I know this is a post closely related with others posted here. ![]()
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