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[?] update.packages() - Linux

1 message · Francisco Cribari

Francisco Cribari
# 
I am running R 1.2.1 under Mandrake Linux 7.2 (installed from RPM)
and I installed a few packages using install.packages() . Now, I 
am trying to upgrade these packages using update.packages() but I 
believe I am running into some kind of error. See below. Any tips
will be greatly welcome. Thanks in advance. Francisco 

PS: update.packages() only tries to update wle from version 0.3 
to 0.4, gives me an error message at the end, and 
installed.packages() continues to list version 0.3 as the installed 
version. I ran install.packages("package-name") as root, and am 
running update.packages() as root. I must be missing something 
simple. 

-----------------------------------------------------------------

[root at edgeworth cribari]# R

R : Copyright 2001, The R Development Core Team
Version 1.2.1  (2001-01-15)

R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type `license()' or `licence()' for distribution details.

R is a collaborative project with many contributors.
Type `contributors()' for more information.

Type `demo()' for some demos, `help()' for on-line help, or
`help.start()' for a HTML browser interface to help.
Type `q()' to quit R.
Package      LibPath              Version  Priority Bundle Depends
 [1,] "base"       "/usr/lib/R/library" "1.2.1"  "base"   "NA"   "NA"   
 [2,] "ctest"      "/usr/lib/R/library" "1.2.1"  "base"   "NA"   ""     
 [3,] "eda"        "/usr/lib/R/library" "1.2.1"  "base"   "NA"   "NA"   
 [4,] "ineq"       "/usr/lib/R/library" "0.1-2"  "NA"     "NA"   "NA"   
 [5,] "KernSmooth" "/usr/lib/R/library" "2.22-4" "NA"     "NA"   "NA"   
 [6,] "lmtest"     "/usr/lib/R/library" "0.1-9"  "NA"     "NA"   ""     
 [7,] "lqs"        "/usr/lib/R/library" "1.2.1"  "base"   "NA"   "NA"   
 [8,] "modreg"     "/usr/lib/R/library" "1.2.1"  "base"   "NA"   "NA"   
 [9,] "mva"        "/usr/lib/R/library" "1.2.1"  "base"   "NA"   "NA"   
[10,] "nls"        "/usr/lib/R/library" "1.2.1"  "base"   "NA"   "NA"   
[11,] "quantreg"   "/usr/lib/R/library" "3.01-1" "NA"     "NA"   "NA"   
[12,] "splines"    "/usr/lib/R/library" "1.2.1"  "base"   "NA"   "NA"   
[13,] "stepfun"    "/usr/lib/R/library" "1.2.1"  "base"   "NA"   "NA"   
[14,] "tcltk"      "/usr/lib/R/library" "1.2.1"  "base"   "NA"   "NA"   
[15,] "ts"         "/usr/lib/R/library" "1.2.1"  "base"   "NA"   "NA"   
[16,] "wle"        "/usr/lib/R/library" "0.3"    "NA"     "NA"   "NA"
--10:36:29--  http://cran.r-project.org:80/src/contrib/PACKAGES
           => `/tmp/fileR5148S327b23c6'
Connecting to cran.r-project.org:80... connected!
HTTP request sent, awaiting response... 200 OK
Length: 38,275 [text/plain]

    0K .......... .......... .......... .......              100%   0:00 9.06K

10:36:42 (8.85 KB/s) - `/tmp/fileR5148S327b23c6' saved [38275/38275]

wle :
 Version 0.3 in /usr/lib/R/library 
 Version 0.4 on CRAN
Update (y/N)?  y
--10:37:38--  http://cran.r-project.org:80/src/contrib/wle_0.4.tar.gz
           => `/tmp/RinstdirR5148S643c9869/wle_0.4.tar.gz'
Connecting to cran.r-project.org:80... connected!
HTTP request sent, awaiting response... 200 OK
Length: 131,087 [application/x-tar]

    0K .......... .......... .......... .......... .......... 39%   1:21  978B
   50K .......... .......... .......... .......... .......... 78%   0:18 1.56K
  100K .......... .......... ........                        100%   0:00  869B

10:39:37 (1.08 KB/s) - `/tmp/RinstdirR5148S643c9869/wle_0.4.tar.gz' saved [131087/131087]

WARNING: ignoring environment value of R_HOME
/var/tmp/R-base-root/usr/lib/R/bin/Rcmd: /var/tmp/R-base-root/usr/lib/R/bin/Rcmd: No such file or directory

Delete downloaded files (y/N)? y

Warning message: 
Installation of package wle had non-zero exit status in: install.packages(update[, "Package"], instlib, contriburl = contriburl,
Package      LibPath              Version  Priority Bundle Depends
 [1,] "base"       "/usr/lib/R/library" "1.2.1"  "base"   "NA"   "NA"   
 [2,] "ctest"      "/usr/lib/R/library" "1.2.1"  "base"   "NA"   ""     
 [3,] "eda"        "/usr/lib/R/library" "1.2.1"  "base"   "NA"   "NA"   
 [4,] "ineq"       "/usr/lib/R/library" "0.1-2"  "NA"     "NA"   "NA"   
 [5,] "KernSmooth" "/usr/lib/R/library" "2.22-4" "NA"     "NA"   "NA"   
 [6,] "lmtest"     "/usr/lib/R/library" "0.1-9"  "NA"     "NA"   ""     
 [7,] "lqs"        "/usr/lib/R/library" "1.2.1"  "base"   "NA"   "NA"   
 [8,] "modreg"     "/usr/lib/R/library" "1.2.1"  "base"   "NA"   "NA"   
 [9,] "mva"        "/usr/lib/R/library" "1.2.1"  "base"   "NA"   "NA"   
[10,] "nls"        "/usr/lib/R/library" "1.2.1"  "base"   "NA"   "NA"   
[11,] "quantreg"   "/usr/lib/R/library" "3.01-1" "NA"     "NA"   "NA"   
[12,] "splines"    "/usr/lib/R/library" "1.2.1"  "base"   "NA"   "NA"   
[13,] "stepfun"    "/usr/lib/R/library" "1.2.1"  "base"   "NA"   "NA"   
[14,] "tcltk"      "/usr/lib/R/library" "1.2.1"  "base"   "NA"   "NA"   
[15,] "ts"         "/usr/lib/R/library" "1.2.1"  "base"   "NA"   "NA"   
[16,] "wle"        "/usr/lib/R/library" "0.3"    "NA"     "NA"   "NA"