Hello,

I'm experiencing an issue when trying to install the "aaMap" package with its dependencies.  This is exactly what I did, first the Biobase import, then aaMap but I keep getting the Warning message?  I've pasted my sequence below:

> biocLite("Biobase")

BioC_mirror: https://bioconductor.org

Using Bioconductor 3.7 (BiocInstaller 1.30.0), R 3.5.1 (2018-07-02).

Installing package(s) ‘Biobase’

trying URL 'https://bioconductor.org/packages/3.7/bioc/bin/macosx/el-capitan/contrib/3.5/Biobase_2.40.0.tgz'

Content type 'application/x-gzip' length 2350360 bytes (2.2 MB)

==================================================

downloaded 2.2 MB

So then I try installing the "aaMap" package with its dependencies:

> biocLite("aaMap")

BioC_mirror: https://bioconductor.org

Using Bioconductor 3.7 (BiocInstaller 1.30.0), R 3.5.1 (2018-07-02).

Installing package(s) ‘aaMap’

Warning message:

package ‘aaMap’ is not available (for R version 3.5.1)

That didn't work, so I go back and load the Biobase library:

> library(Biobase)

Loading required package: BiocGenerics

Loading required package: parallel


Attaching package: ‘BiocGenerics’


The following objects are masked from ‘package:parallel’:


    clusterApply, clusterApplyLB, clusterCall, clusterEvalQ,

    clusterExport, clusterMap, parApply, parCapply, parLapply,

    parLapplyLB, parRapply, parSapply, parSapplyLB


The following objects are masked from ‘package:stats’:


    IQR, mad, sd, var, xtabs


The following objects are masked from ‘package:base’:


    anyDuplicated, append, as.data.frame, basename, cbind, colMeans,

    colnames, colSums, dirname, do.call, duplicated, eval, evalq,

    Filter, Find, get, grep, grepl, intersect, is.unsorted, lapply,

    lengths, Map, mapply, match, mget, order, paste, pmax, pmax.int,

    pmin, pmin.int, Position, rank, rbind, Reduce, rowMeans, rownames,

    rowSums, sapply, setdiff, sort, table, tapply, union, unique,

    unsplit, which, which.max, which.min


Welcome to Bioconductor


    Vignettes contain introductory material; view with

    'browseVignettes()'. To cite Bioconductor, see

    'citation("Biobase")', and for packages 'citation("pkgname")'.

One more try at loading aaMap:

> biocLite("aaMap")

BioC_mirror: https://bioconductor.org

Using Bioconductor 3.7 (BiocInstaller 1.30.0), R 3.5.1 (2018-07-02).

Installing package(s) ‘aaMap’

Warning message:

package ‘aaMap’ is not available (for R version 3.5.1)

Again, warning message; however, I have no trouble installing the "ALL" dataset - see below, everything installed just fine!?!

> biocLite("ALL")

BioC_mirror: https://bioconductor.org

Using Bioconductor 3.7 (BiocInstaller 1.30.0), R 3.5.1 (2018-07-02).

Installing package(s) ‘ALL’

installing the source package ‘ALL’


trying URL 'https://bioconductor.org/packages/3.7/data/experiment/src/contrib/ALL_1.22.0.tar.gz'

Content type 'application/x-gzip' length 11401913 bytes (10.9 MB)

==================================================

downloaded 10.9 MB


* installing *source* package ‘ALL’ ...

** R

** data

** inst

** byte-compile and prepare package for lazy loading

** help

*** installing help indices

** building package indices

** installing vignettes

** testing if installed package can be loaded

* DONE (ALL)


The downloaded source packages are in

    ‘/private/var/folders/hv/9fdmt1rj7zd6_6kqywsmplm40000gn/T/RtmpJkiUA9/downloaded_packages’

​What am I doing wrong?

In case it matters, below is the version I'm running on my mac:

R version 3.5.1 (2018-07-02) -- "Feather Spray"

Copyright (C) 2018 The R Foundation for Statistical Computing

Platform: x86_64-apple-darwin15.6.0 (64-bit)

I can't be sure but based on my research it looks as though there isnt a package called aaMap at all. Rather there is a data set that is loaded

 data(aaMap)

see:

https://www.rdocumentation.org/packages/Biobase/versions/2.32.0/topics/data%3AaaMap