Question: (Closed) Bioconductor Dataset "aaMAP" Import "Not Available"
0
oars • 150 wrote:
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)
Hello oars!
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For this reason we have closed your question. This allows us to keep the site focused on the topics that the community can help with.
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