[R] Problem: packages TinnR, Hmisc, applications Tinn-R and R version 2.11.0

[Jose Claudio Faria]

Hi,

First: sorry for my bad English!

I have received several emails reporting problems using Tinn-R with
the new R version (2.11.0).

This email is meant to assist the users.

This problem is new and is related with R 2.11.0 and Hmisc package for Windows!

After download and install R 2.11.0pat under Linux and Windows, see
below my results:

a) Under Linux (Open SUSE 11.3) - I found no problem installing, compiling and
   using these packages: TinnR, Hmisc, R2HTML and svSocket.

b) Under Windows (Vista Ultimate) - after to set the file Rprofile.site with
   the script (generated by Tinn-R, i.e, main menu
   R/Configure/Permanent (Rprofile.site), see below:

##===============================================================
## Tinn-R: necessary packages and functions
## Tinn-R: >= 2.2.0.2 with TinnR package >= 1.0.3
##===============================================================
## Set the URL of the preferred repository, below some examples:
options(repos='http://software.rc.fas.harvard.edu/mirrors/R/') # USA
#options(repos='http://cran.ma.imperial.ac.uk/') # UK
#options(repos='http://brieger.esalq.usp.br/CRAN/') # Brazil

library(utils)

## Check necessary packages
necessary <- c('TinnR', 'svSocket')
installed <- necessary %in% installed.packages()[, 'Package']
if (length(necessary[!installed]) >=1)
 install.packages(necessary[!installed])

## Load packages
library(TinnR)
library(svSocket)

## Uncoment the two lines below if you want Tinn-R to always start R at start-up
## (Observation: check the path of Tinn-R.exe)
#options(IDE='C:/Tinn-R/bin/Tinn-R.exe')
#trStartIDE()

## Set options
options(use.DDE=T)

## Start DDE
trDDEInstall()

.trPaths <- paste(paste(Sys.getenv('APPDATA'), '\\Tinn-R\\tmp\\', sep=''),
  c('', 'search.txt', 'objects.txt', 'file.r', 'selection.r', 'block.r',
  'lines.r'), sep='')
#===============================================================

when R was rebooted I received the messages below:

IO:
#===============================================================
R version 2.11.0 Patched (2010-04-26 r51822)
Copyright (C) 2010 The R Foundation for Statistical Computing
ISBN 3-900051-07-0

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 and
'citation()' on how to cite R or R packages in publications.

Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.

>
#===============================================================

Log:
#===============================================================
Warning: dependency 'Hmisc' is not available
also installing the dependencies 'R2HTML', 'svMisc'

trying URL 'http://software.rc.fas.harvard.edu/mirrors/R/bin/windows/contrib/2.11/R2HTML_2.0.0.zip'
 length 464688 bytes (453 Kb)
opened URL
downloaded 453 Kb

trying URL 'http://software.rc.fas.harvard.edu/mirrors/R/bin/windows/contrib/2.11/svMisc_0.9-57.zip'
 length 134502 bytes (131 Kb)
opened URL
downloaded 131 Kb

trying URL 'http://software.rc.fas.harvard.edu/mirrors/R/bin/windows/contrib/2.11/TinnR_1.0.3.zip'
 length 37715 bytes (36 Kb)
opened URL
downloaded 36 Kb

trying URL 'http://software.rc.fas.harvard.edu/mirrors/R/bin/windows/contrib/2.11/svSocket_0.9-48.zip'
 length 59065 bytes (57 Kb)
opened URL
downloaded 57 Kb

Loading required package: tcltk
 done
Loading required package: Hmisc
Error: package 'Hmisc' could not be loaded
In addition: Warning message:
In library(pkg, character.only = TRUE, logical.return = TRUE, lib.loc
= lib.loc) :
 there is no package called 'Hmisc'
#===============================================================

So, the main problem is related with the package 'Hmisc' under Windows!

I closed the R.
I did a copy/paste from my previous Hmisc package ('library' of my old
R version: R-2.10.0pat) to the folder 'library' of my new R version:
R-2.11.0pat.

So, I rebooted R newly and below the results:

IO:
#===============================================================
R version 2.11.0 Patched (2010-04-26 r51822)
Copyright (C) 2010 The R Foundation for Statistical Computing
ISBN 3-900051-07-0

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.
' for more information and
'citation()' on how to cite R or R packages in publications.

Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.

>
#===============================================================

Log:
#===============================================================
Type 'contributors()Loading required package: mvbutils
Loading required package: utils
Loading required package: tools
Loading required package: tcltk
 done
Loading required package: scatterplot3d
Loading required package: rgl
Loading required package: stats
Loading required package: grDevices
Loading required package: MASS
Loading required package: graphics

Attaching package: 'graphics'

The following object(s) are masked from 'package:mvbutils':

   clip

Loading required package: Hmisc
Loading required package: survival
Loading required package: splines

Attaching package: 'Hmisc'

The following object(s) are masked from 'package:survival':

   untangle.specials

The following object(s) are masked from 'package:mvbutils':

   Save

The following object(s) are masked from 'package:base':

   format.pval, round.POSIXt, trunc.POSIXt, units

Loading required package: R2HTML
#===============================================================

The resource requirements of Hmisc used by Tinn-R are all working
fine: no problem!
For while, not perfect, but this is my recommendation!

HTH,
--
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Jose Claudio Faria
Estatistica - prof. Titular
UESC/DCET/Brasil
joseclaudio.faria at gmail.com
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