help with pROC installation on a Debian box (Rcpp related)

[lbraglia]

Hello,

i've a problem installing package pROC on my Debian testing

install.packages("pROC")
Installing package into
‘/home/l/R/x86_64-pc-linux-gnu-library/3.0’
(as ‘lib’ is unspecified)
provo con l'URL
'http://cran.mirror.garr.it/mirrors/CRAN/src/contrib/pROC_1.7.1.ta
r.gz'
Warning in download.file(url, destfile, method, mode = "wb", ...)
:
connesso a 'cran.mirror.garr.it' sulla porta 80.
Warning in download.file(url, destfile, method, mode = "wb", ...)
:
-> GET /mirrors/CRAN/src/contrib/pROC_1.7.1.tar.gz HTTP/1.0
Host: cran.mirror.garr.it
User-Agent: R (3.0.3 x86_64-pc-linux-gnu x86_64 linux-gnu)

Warning in download.file(url, destfile, method, mode = "wb", ...)
:
<- HTTP/1.1 200 OK
Warning in download.file(url, destfile, method, mode = "wb", ...)
:
<- Server: nginx/1.4.7
Warning in download.file(url, destfile, method, mode = "wb", ...)
:
<- Date: Fri, 28 Mar 2014 16:54:04 GMT
Warning in download.file(url, destfile, method, mode = "wb", ...)
:
<- Content-Type: text/plain
Warning in download.file(url, destfile, method, mode = "wb", ...)
:
<- Content-Length: 91857
Warning in download.file(url, destfile, method, mode = "wb", ...)
:
<- Last-Modified: Fri, 21 Feb 2014 04:39:58 GMT
Warning in download.file(url, destfile, method, mode = "wb", ...)
:
<- Connection: close
Warning in download.file(url, destfile, method, mode = "wb", ...)
:
<- ETag: "5306d89e-166d1"
Warning in download.file(url, destfile, method, mode = "wb", ...)
:
<- Accept-Ranges: bytes
Warning in download.file(url, destfile, method, mode = "wb", ...)
:
Code 200, content-type 'text/plain'
Content type 'text/plain' length 91857 bytes (89 Kb)
URL aperto

downloaded 89 Kb

Carico il pacchetto richiesto: splines
Warning in library(pkg, character.only = TRUE, logical.return =
TRUE, lib.loc = lib.loc) :
there is no package called ‘pROC’
Warning: package ‘yapomif’ in options("defaultPackages") was not
found

tools:::.install_packages()

• installing source package ‘pROC’ ...
  ** package ‘pROC’ successfully unpacked and MD5 sums checked
  Warning in writeLines(paste0(c(out[is_not_empty]), eor), file) :
  stringa carattere non valida nella conversione dell'output
  ** libs
  g++ -I/usr/share/R/include -DNDEBUG
  -I"/usr/lib/R/site-library/Rcpp/include" -fpic -O3 -pipe -g
  -c RcppExports.cpp -o RcppExports.o
  g++ -I/usr/share/R/include -DNDEBUG
  -I"/usr/lib/R/site-library/Rcpp/include" -fpic -O3 -pipe -g
  -c delong.cpp -o delong.o
  g++ -I/usr/share/R/include -DNDEBUG
  -I"/usr/lib/R/site-library/Rcpp/include" -fpic -O3 -pipe -g
  -c perfsAll.cpp -o perfsAll.o
  Carico il pacchetto richiesto: splines
  Error in library.dynam(lib, package, package.lib) :
  shared object ‘pROC.so’ not found
  Warning: package ‘yapomif’ in options("defaultPackages") was not
  found
  g++ -shared -o pROC.so RcppExports.o delong.o perfsAll.o >
  Rcpp:::LdFlags() > > -L/usr/lib/R/lib -lR
  Carico il pacchetto richiesto: splines
  Error in library.dynam(lib, package, package.lib) :
  shared object ‘pROC.so’ not found
  Warning: package ‘yapomif’ in options("defaultPackages") was not
  found
  g++: error: >: File o directory non esistente
  g++: error: Rcpp:::LdFlags(): File o directory non esistente
  g++: error: >: File o directory non esistente
  g++: error: >: File o directory non esistente
  make: *** [pROC.so] Error 1
  ERROR: compilation failed for package ‘pROC’
• removing ‘/home/l/R/x86_64-pc-linux-gnu-library/3.0/pROC’
  Warning in install.packages("pROC") :
  installation of package ‘pROC’ had non-zero exit status

It seems to be a compilation problem, but Rcpp version is > than
that required (0.10.5)

packageVersion("Rcpp")
[1] ‘0.11.0’

A few infos...

                          sysname 
                          "Linux" 
                          release 
                   "3.10-2-amd64" 
                          version 

"#1 SMP Debian 3.10.7-1 (2013-08-17)"
nodename
"np350v5c"
machine
"x86_64"
login
"l"
user
"l"
effective_user
"l"

R.version
_
platform x86_64-pc-linux-gnu
arch x86_64
os linux-gnu
system x86_64, linux-gnu
status
major 3
minor 0.3
year 2014
month 03
day 06
svn rev 65126
language R
version.string R version 3.0.3 (2014-03-06)
nickname Warm Puppy

Any hint to solve the problem?

thank you,
Luca

[lbraglia]

sorry for bad formatting... i've pasted the R output directly

[lbraglia]

warning says (freely translating): not valid string in output conversion.

g++ errors say "file or directory not found"

[lbraglia]

fixed... using R --vanilla...

https://stat.ethz.ch/pipermail/r-help/2014-March/368304.html