From ligges at statistik.tu-dortmund.de  Sat Nov 13 19:47:02 2010
From: ligges at statistik.tu-dortmund.de (Uwe Ligges)
Date: Sat, 13 Nov 2010 19:47:02 +0100
Subject: [Rd] trouble compiling RMySQL (and others) for 64 bit windows.
In-Reply-To: <AANLkTinDSqVgdtt2qJ634_2QTOADQbbxiiXC-qoFrFj_@mail.gmail.com>
References: <AANLkTinDSqVgdtt2qJ634_2QTOADQbbxiiXC-qoFrFj_@mail.gmail.com>
Message-ID: <4CDEDD26.6050201@statistik.tu-dortmund.de>

I just found this obviously unanswered message:

Yes, you need Rtools installed as described in the manual "R 
Installation and Administration" which explains what to do in more 
detail. It makes sense to upgrade to R-2.12.0 if you have not already 
done so.

Best,
Uwe Ligges




On 21.09.2010 22:11, Ted Byers wrote:
> I have a 64 bit machine running 64 bit windows 7 pro, 64 bit MySQL, and 64
> bit R 2.11.1.
>
> I have also installed RTools for 64 bit windows for this version of R
> (archive name is oldWin64toolchain.zip; the install path for its contents
> is C:\RTools, if that matters).  I can open up a commandline window and
> invoke any of the programs in both bin directories (both added to the system
> path).
> There are several packages for which I could not find 64 bit binaries
> RMySQL, RPostgreSQL, RQRMlib,&c.  While I don't have time at present to
> develop ne packages for R, these packages are things I routinely use on my
> 32 bit machine (where, thankfully, all seems to be working fine).
> Therefore, my only interest is in getting or making the 64 bit binaries for
> these packages so I can duplicate on the new 64 bit machine what I had been
> doing on the old 32 bit machine.
>
> Note, I routinely develop new software using MS VS (originally v 6, and then
> VS 2005, and now vs 2010), and if I need to work up code to run on some
> flavour of unix, I use the cygwin environment.  Therefore, I have no qualms
> about compiling programs I use from source.  I just prefer not to if there
> is already a binary distribution for whatever platform I happen to be using.
>
> I began by trying to follow the instructions provided on
> http://biostat.mc.vanderbilt.edu/wiki/Main/RMySQL, and found a couple
> issues.
>
>
>
> First, there was no Renviron.site in C:/Program Files/R/R-2.11.1-x64/etc so
> I made one and placed in it the following:
>
> MYSQL_HOME=C:\PROGRA~1\MySQL\MYSQLS~1.1
>
> The full path to the installation of MySQL is: C:\Program Files\MySQL\MySQL
> Server 5.1
>
> Unlike what is said on the biostat.mc.vanderbilt.edu pages, MYSQL_HOME is
> still empty:
>
>
>> Sys.getenv('MYSQL_HOME')
> MYSQL_HOME
>          ""
> This is when I start R AFTER having made the Renviron.site file.
>
> Something I notice, though, that may have a bearing on this is that although
> Emacs finds my new Renviron.site file when I navigate to that directory, it
> does not appear in Windows Explorer.  I am wondering if Windows 7 is somehow
> blocking access to it.  If that guess is correct, the question becomes, how
> do I fix that?  If it isn't correct, what should I check?  This is not an
> insurmountable problem, though as I can always set that environment variable
> at the beginning of a session.  I do that already on other systems that are
> 32 bit clients that have to talk to 64 bit servers.  It is just mildly
> disturbing that R does not seem to know about the Renviron.site file I made
> for it.
>
> Second, I read in the instructions the following:
>
>
>> 3. *Re-start R and execute install.packages('RMySQL',type='source')* at
>> the R prompt.
>>
>> As long as you followed the above steps correctly, RMySQL<https://mail.google.com/wiki/Main/RMySQL>will install cleanly and you will be able to immediately load it and use it.
>>
> However, when I follow this instruction I get:
>> install.packages('RMySQL',type='source')
> Warning in install.packages("RMySQL", type = "source") :
>    argument 'lib' is missing: using
> 'C:\Users\Ted\Documents/R/win64-library/2.11'
> --- Please select a CRAN mirror for use in this session ---
> trying URL 'http://probability.ca/cran/src/contrib/RMySQL_0.7-5.tar.gz'
> Content type 'application/x-gzip' length 160769 bytes (157 Kb)
> opened URL
> downloaded 157 Kb
> * installing *source* package 'RMySQL' ...
> Warning in system("sh ./configure.win") : sh not found
> ERROR: configuration failed for package 'RMySQL'
> * removing 'C:/Users/Ted/Documents/R/win64-library/2.11/RMySQL'
> The downloaded packages are in
>          ?C:\Users\Ted\AppData\Local\Temp\Rtmp7xg8yb\downloaded_packages?
> Warning message:
> In install.packages("RMySQL", type = "source") :
>    installation of package 'RMySQL' had non-zero exit status
>>
>
> It is clearly failing before it could choke on the MYSQL_HOME value.  On
> reading it, it is no surprise to me that it failed to find sh as I recognize
> that as one of several unix shells.  What I don't know is how I should alter
> the instructions provided on the vanderbilt site so that the install works
> on Windows 7.  I know I have access to sh in cygwin, but I really don't want
> to confound my cygwin environment with what I use for R.
>
> While I have not used RTools before, I would assume that whatever issues I
> am presently facing would impact any package for which I need to build 64
> bit binaries for Windows 7.  So what do I need to know in order to
> effectively use RTools on compiling an arbitrary package, perhaps using
> RMySQL as an example (since that is the first one I need to compile).
>
> Thanks
>
> Ted
>
> 	[[alternative HTML version deleted]]
>
>
>
>
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[Rd] trouble compiling RMySQL (and others) for 64 bit windows.
Uwe Ligges