I've regenerated the release (3.3) and devel (3.4) AMIs. New links are live on the website:
http://www.bioconductor.org/help/bioconductor-cloud-ami/#ami_ids The approach we took was to install R (with no recommended packages) as root in /usr/local. In theory, these packages should not be updated until the next R release so biocLite() should never ask about them. All other packages are installed in /home/ubuntu/R-libs all owned by ubuntu. I've done some preliminary testing and all looks good as far as permissions. Let me know if you run into other problems. Valerie On 08/24/2016 04:45 AM, Simon Anders wrote: > Hi > > I'm currently working with the Bioconductor Amazon Machine Instance > (AMI) for Bioc 3.3 (ami-64d43409) and wanted to install additional > packages with biocLite(). This failed because about half of the > sub-directories in ~/R-libs are not owned by the standard user 'ubuntu' > but by root. > > Can this be easily fixed in the existing AMI? (I mean, can one just > run a 'chown' and save it as a new AMI?) If so, this might be useful. > > > Thanks > > Simon > > > -- > | Dr. Simon Anders, Dipl.-Phys. > | Group Leader, Institute for Molecular Medicine Finland (FIMM) > | https://www.fimm.fi/en/research/groups/anders > > _______________________________________________ > Bioc-devel@r-project.org mailing list > https://stat.ethz.ch/mailman/listinfo/bioc-devel > This email message may contain legally privileged and/or confidential information. If you are not the intended recipient(s), or the employee or agent responsible for the delivery of this message to the intended recipient(s), you are hereby notified that any disclosure, copying, distribution, or use of this email message is prohibited. If you have received this message in error, please notify the sender immediately by e-mail and delete this email message from your computer. Thank you. _______________________________________________ Bioc-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/bioc-devel
