I am having trouble installing the reshape2 package for R 2.15.3 on Ubuntu 12.04.4 LTS. I decided not to upgrade to R 3.x because many of the packages that I use have not been upgraded to support the new version.
When I try to install reshape2 using R 2.15.3 on Ubuntu 12.04.4 LTS, I get the following.
> install.packages("reshape2")
Installing package(s) into â/usr/local/lib/R/site-libraryâ
(as âlibâ is unspecified)
Warning in install.packages("reshape2") :
'lib = "/usr/local/lib/R/site-library"' is not writable
Would you like to use a personal library instead? (y/n) y
Would you like to create a personal library
~/R/x86_64-pc-linux-gnu-library/2.15
to install packages into? (y/n) y
Warning: dependency âRcppâ is not available
also installing the dependencies âplyrâ, âstringrâ
trying URL 'http://cran.cs.wwu.edu/src/contrib/plyr_1.8.1.tar.gz'
Content type 'application/x-gzip' length 393233 bytes (384 Kb)
opened URL
==================================================
downloaded 384 Kb
trying URL 'http://cran.cs.wwu.edu/src/contrib/stringr_0.6.2.tar.gz'
Content type 'application/x-gzip' length 20636 bytes (20 Kb)
opened URL
==================================================
downloaded 20 Kb
trying URL 'http://cran.cs.wwu.edu/src/contrib/reshape2_1.2.2.tar.gz'
Content type 'application/x-gzip' length 27220 bytes (26 Kb)
opened URL
==================================================
downloaded 26 Kb
ERROR: dependency âRcppâ is not available for package âplyrâ
* removing â/home/ubuntu/R/x86_64-pc-linux-gnu-library/2.15/plyrâ
* installing *source* package âstringrâ ...
** package âstringrâ successfully unpacked and MD5 sums checked
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** testing if installed package can be loaded
* DONE (stringr)
ERROR: dependency âplyrâ is not available for package âreshape2â
* removing â/home/ubuntu/R/x86_64-pc-linux-gnu-library/2.15/reshape2â
The downloaded source packages are in
â/tmp/RtmpxP5OIc/downloaded_packagesâ
Warning messages:
1: In install.packages("reshape2") :
installation of package âplyrâ had non-zero exit status
2: In install.packages("reshape2") :
installation of package âreshape2â had non-zero exit status
>
I tried to then install the missing Rcpp but get the error message:
Warning message:
package âRcppâ is not available (for R version 2.15.3)
I searched some more and discovered that Rcpp now requires R version 3.x but that there is a RcppClassic version that is backwards compatible.
When trying to install RcppClassic, I get:
Installing package(s) into â/home/ubuntu/R/x86_64-pc-linux-gnu-library/2.15â
(as âlibâ is unspecified)
Warning: dependency âRcppâ is not available
trying URL 'http://cran.cs.wwu.edu/src/contrib/RcppClassic_0.9.5.tar.gz'
Content type 'application/x-gzip' length 185057 bytes (180 Kb)
opened URL
==================================================
downloaded 180 Kb
ERROR: dependency âRcppâ is not available for package âRcppClassicâ
* removing â/home/ubuntu/R/x86_64-pc-linux-gnu-library/2.15/RcppClassicâ
The downloaded source packages are in
â/tmp/RtmpxP5OIc/downloaded_packagesâ
Warning message:
In install.packages("RcppClassic") :
installation of package âRcppClassicâ had non-zero exit status
I then tried and was able to install Rcpp using "sudo apt-get install r-cran-rcpp":
$ sudo apt-get install r-cran-rcpp
Reading package lists... Done
Building dependency tree
Reading state information... Done
The following packages were automatically installed and are no longer required:
libgudev-1.0-0 gir1.2-gudev-1.0
Use 'apt-get autoremove' to remove them.
The following extra packages will be installed:
littler r-cran-int64
Suggested packages:
r-cran-getopt r-cran-inline
The following NEW packages will be installed:
littler r-cran-int64 r-cran-rcpp
0 upgraded, 3 newly installed, 0 to remove and 3 not upgraded.
Need to get 2,899 kB of archives.
After this operation, 11.2 MB of additional disk space will be used.
Do you want to continue [Y/n]? Y
Get:1 http://us-west-2.ec2.archive.ubuntu.com/ubuntu/ precise/universe littler amd64 0.1.5-1 [32.2 kB]
Get:2 http://us-west-2.ec2.archive.ubuntu.com/ubuntu/ precise/universe r-cran-int64 amd64 1.1.2-1 [359 kB]
Get:3 http://us-west-2.ec2.archive.ubuntu.com/ubuntu/ precise/universe r-cran-rcpp amd64 0.9.9-1 [2,508 kB]
Fetched 2,899 kB in 0s (8,959 kB/s)
Selecting previously unselected package littler.
(Reading database ... 60157 files and directories currently installed.)
Unpacking littler (from .../littler_0.1.5-1_amd64.deb) ...
Selecting previously unselected package r-cran-int64.
Unpacking r-cran-int64 (from .../r-cran-int64_1.1.2-1_amd64.deb) ...
Selecting previously unselected package r-cran-rcpp.
Unpacking r-cran-rcpp (from .../r-cran-rcpp_0.9.9-1_amd64.deb) ...
Processing triggers for man-db ...
Setting up littler (0.1.5-1) ...
Setting up r-cran-int64 (1.1.2-1) ...
Setting up r-cran-rcpp (0.9.9-1) ...
But when I tried to install "reshape2" in R, I got the same error messages as before.
What I don't understand is why I'm getting the error message:
Warning: dependency âRcppâ is not available
Since 'sudo apt-get install r-cran-rcpp' worked
After some more searching, I found a vignette on how to use RcppClassic here: http://cran.r-project.org/web/packages/RcppClassic/vignettes/RcppClassic-intro.pdf
However, making modifications to the DESCRIPTION, NAMESPACE and MAKEVAR files is starting to go beyond my capabilities so I'm reaching out for help.
Here's the output from sessionInfo():
> sessionInfo()
R version 2.15.3 (2013-03-01)
Platform: x86_64-pc-linux-gnu (64-bit)
locale:
[1] LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C
[3] LC_TIME=en_US.UTF-8 LC_COLLATE=en_US.UTF-8
[5] LC_MONETARY=en_US.UTF-8 LC_MESSAGES=en_US.UTF-8
[7] LC_PAPER=C LC_NAME=C
[9] LC_ADDRESS=C LC_TELEPHONE=C
[11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C
attached base packages:
[1] stats graphics grDevices utils datasets methods base
Thanks in advance!
EDIT 3/15/2014: My "use case" is that I'm running a series of periodic jobs on AWS EC2 instances so I don't need the latest/greatest software features. What I have using R 2.15 on my Mac development machine works so I was just looking to port what I have to my AWS EC2 Ubuntu instances.
The packages I use are: reshape2, xlsx (and xlsxjars), RJSONIO, stringr, R2HTML, RCurl, plots, lattice, latticeExtra, gdata and ggplot2.
