Entering edit mode
hibari.kyouya
•
0
@hibarikyouya-10935
Last seen 9.1 years ago
Hi all!
I don't understand why I can't update to Bioconductor 3.3:
> source("https://bioconductor.org/biocLite.R")
Bioconductor version 3.2 (BiocInstaller 1.20.3), ?biocLite for help
Warning message:
BiocInstaller version 3.2 is too old for R version 3.3.1; see
https://bioconductor.org/install/#troubleshoot-biocinstaller
> biocLite("BiocUpgrade")
Error : Bioconductor version 3.2 cannot be upgraded with R version 3.3.1
Any help will be very appreciated :)
Thank you very much!
When I follow the procedure in R --vanilla, I get:
> biocValid() * sessionInfo() R version 3.3.1 (2016-06-21) Platform: x86_64-pc-linux-gnu (64-bit) Running under: Arch Linux locale: [1] LC_CTYPE=fr_FR.UTF-8 LC_NUMERIC=C [3] LC_TIME=fr_FR.UTF-8 LC_COLLATE=fr_FR.UTF-8 [5] LC_MONETARY=fr_FR.UTF-8 LC_MESSAGES=fr_FR.UTF-8 [7] LC_PAPER=fr_FR.UTF-8 LC_NAME=C [9] LC_ADDRESS=C LC_TELEPHONE=C [11] LC_MEASUREMENT=fr_FR.UTF-8 LC_IDENTIFICATION=C attached base packages: [1] stats graphics grDevices utils datasets methods base other attached packages: [1] BiocInstaller_1.20.3 loaded via a namespace (and not attached): [1] tools_3.3.1 * Out-of-date packages Package LibPath Installed Built ReposVer AnnotationDbi "AnnotationDbi" "/usr/lib/R/library" "1.32.3" "3.2.0" "1.32.3" Biobase "Biobase" "/usr/lib/R/library" "2.30.0" "3.2.0" "2.30.0" BiocGenerics "BiocGenerics" "/usr/lib/R/library" "0.16.1" "3.2.0" "0.16.1" BiocInstaller "BiocInstaller" "/usr/lib/R/library" "1.20.1" "3.2.3" "1.20.3" DBI "DBI" "/usr/lib/R/library" "0.3.1" "3.2.0" "0.5-1" IRanges "IRanges" "/usr/lib/R/library" "2.4.8" "3.2.0" "2.4.8" RSQLite "RSQLite" "/usr/lib/R/library" "1.0.0" "3.2.0" "1.0.0" S4Vectors "S4Vectors" "/usr/lib/R/library" "0.8.11" "3.2.0" "0.8.11" Repository AnnotationDbi "https://bioconductor.org/packages/3.2/bioc/src/contrib" Biobase "https://bioconductor.org/packages/3.2/bioc/src/contrib" BiocGenerics "https://bioconductor.org/packages/3.2/bioc/src/contrib" BiocInstaller "https://bioconductor.org/packages/3.2/bioc/src/contrib" DBI "https://cran.rstudio.com/src/contrib" IRanges "https://bioconductor.org/packages/3.2/bioc/src/contrib" RSQLite "https://cran.rstudio.com/src/contrib" S4Vectors "https://bioconductor.org/packages/3.2/bioc/src/contrib" update with biocLite() Erreur : 8 package(s) out of date