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I attempted to install the AnnotationHub package for the coursera bioconductor course. I am using Fedora 21.
I did the following:
- Made sure R is up to date (typed sudo yum install R).
- Downloaded and installed an up-to-date version of RStudio.
- Installed biocondoctor:
source("http://www.bioconductor.org/biocLite.R")
biocLite()
created a personal library since I didn't start RStudio as sudo.
biocLite("AnnotationHub") (personal library again, update all old packages).
When it finished, I got the following: Warning messages: 1: In install.packages(pkgs = doing, lib = lib, ...) : installation of package ‘curl’ had non-zero exit status 2: In install.packages(pkgs = doing, lib = lib, ...) : installation of package ‘httr’ had non-zero exit status 3: In install.packages(pkgs = doing, lib = lib, ...) : installation of package ‘AnnotationHub’ had non-zero exit status
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> sessionInfo() R version 3.2.1 (2015-06-18) Platform: x86_64-redhat-linux-gnu (64-bit) Running under: Fedora 21 (Twenty One) locale: [1] LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C LC_TIME=en_US.UTF-8 [4] LC_COLLATE=en_US.UTF-8 LC_MONETARY=en_US.UTF-8 LC_MESSAGES=en_US.UTF-8 [7] LC_PAPER=en_US.UTF-8 LC_NAME=C LC_ADDRESS=C [10] LC_TELEPHONE=C LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C attached base packages: [1] stats graphics grDevices utils datasets methods base other attached packages: [1] BiocInstaller_1.18.4 loaded via a namespace (and not attached): [1] tools_3.2.1
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Thanks!
Thanks, worked like a charm.
curl was already installed, but curl-devel wasn't.