I need to convert several hundred SNPs from one build to another. Went to install the liftOver workflow and the install fails.
I followed the copied the instructions for installing the workflow found here
I had no problems here but next part didnt work
source("http://bioconductor.org/workflows.R") workflowInstall("liftOver") Warning in install.packages : URL 'http://bioconductor.org/packages/3.3/workflows/bin/macosx/mavericks/contrib/3.3/PACKAGES.gz': status was '404 Not Found' Warning in install.packages : URL 'http://bioconductor.org/packages/3.3/workflows/bin/macosx/mavericks/contrib/3.3/PACKAGES': status was '404 Not Found' Warning in install.packages : unable to access index for repository http://bioconductor.org/packages/3.3/workflows/bin/macosx/mavericks/contrib/3.3: cannot download all files installing the source package ‘liftOver’ trying URL 'http://bioconductor.org/packages/3.3/workflows/src/contrib/liftOver_0.99.120929.tar.gz' Content type 'application/x-gzip' length 2756637 bytes (2.6 MB) ================================================== downloaded 2.6 MB * installing *source* package ‘liftOver’ ... ** inst ** help No man pages found in package ‘liftOver’ *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded Error in loadNamespace(i, c(lib.loc, .libPaths()), versionCheck = vI[[i]]) : there is no package called ‘stringi’ Error: loading failed Execution halted ERROR: loading failed * removing ‘/Library/Frameworks/R.framework/Versions/3.3/Resources/library/liftOver’ * restoring previous ‘/Library/Frameworks/R.framework/Versions/3.3/Resources/library/liftOver’ Warning in install.packages : installation of package ‘liftOver’ had non-zero exit status The downloaded source packages are in ‘/private/var/folders/fc/lcgdm6b56zzfrpjjj483ckq40000gn/T/RtmpsAXW9i/downloaded_packages’
I am running R version 3.3.1 (2016-06-21) -- "Bug in Your Hair"
Any help would be greatly appreciated.
sessionInfo() R version 3.3.1 (2016-06-21) Platform: x86_64-apple-darwin13.4.0 (64-bit) Running under: OS X 10.11.6 (El Capitan) locale:  en_CA.UTF-8/en_CA.UTF-8/en_CA.UTF-8/C/en_CA.UTF-8/en_CA.UTF-8 attached base packages:  stats graphics grDevices utils datasets methods base other attached packages:  BiocInstaller_1.22.3 loaded via a namespace (and not attached):  tools_3.3.1