[BioC] RE: memory problem in R

Stephen Henderson s.henderson@ucl.ac.uk
Wed, 11 Sep 2002 11:56:26 +0100


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Thank you very much, that has remedied the problem I had actually given up
on. Odd as the memory options "memory.size( ), memory.limit( )"  in R-Win
itself do not appear capable of extending the memory.

 

Thanks Again

Stephen

 

-----Original Message-----
From: Tibor van Rooij [mailto:tibor@cs.mcgill.ca] 
Sent: Tuesday, September 10, 2002 6:29 PM
To: s.henderson
Subject: memory problem in R

 

Hi Stephen,

 

This is to remedy the run out of memory problem in R assuming your in
windows.

 

If you have a shortcut on your desktop for R (or somewhere else), then if
you right click on the icon and bring up the Properties window, you will see
an entry for 
Target with the path to the executable filled in. After that path (and
outside of the quotes) add this command-line argument on my PC, for example
it would look like this: 

 

"C:\Program Files\R\rw1051\bin\Rgui.exe" --max-mem-size=768M 

 

Restart R and you will be in business...

 

Tibor

___________________________ 
Tibor van Rooij 
Bioinformatician 
Montreal Genome Centre
McGill University, Duff Building 
Tel:  (514) 398-2497
Fax: (514) 398-1838
 
"Alle Menschen werden Bruder"-- Friedrich von Schiller



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<div class=3DSection1>

<p class=3DMsoNormal style=3D'margin-left:.5in'><font size=3D2 color=3Dnavy=
 face=3DArial><span
style=3D'font-size:10.0pt;font-family:Arial;color:navy'>Thank you very much=
, that
has remedied the problem I had actually given up on. Odd as the memory opti=
ons "memory.size(
), memory.limit( )"&nbsp; in R-Win itself do not appear capable of
extending the memory.</span></font></p>

<p class=3DMsoNormal style=3D'margin-left:.5in'><font size=3D2 color=3Dnavy=
 face=3DArial><span
style=3D'font-size:10.0pt;font-family:Arial;color:navy'>&nbsp;</span></font=
></p>

<p class=3DMsoNormal style=3D'margin-left:.5in'><font size=3D2 color=3Dnavy=
 face=3DArial><span
style=3D'font-size:10.0pt;font-family:Arial;color:navy'>Thanks Again</span>=
</font></p>

<p class=3DMsoNormal style=3D'margin-left:.5in'><font size=3D2 color=3Dnavy=
 face=3DArial><span
style=3D'font-size:10.0pt;font-family:Arial;color:navy'>Stephen</span></fon=
t></p>

<p class=3DMsoNormal><font size=3D2 color=3Dnavy face=3DArial><span style=
=3D'font-size:
10.0pt;font-family:Arial;color:navy'>&nbsp;</span></font></p>

<p class=3DMsoNormal style=3D'margin-left:.5in'><font size=3D2 face=3DTahom=
a><span
style=3D'font-size:10.0pt;font-family:Tahoma'>-----Original Message-----<br>
<b><span style=3D'font-weight:bold'>From:</span></b> Tibor van Rooij
[mailto:tibor@cs.mcgill.ca] <br>
<b><span style=3D'font-weight:bold'>Sent:</span></b> </span></font><font si=
ze=3D2 face=3DTahoma><span style=3D'font-size:10.0pt;font-family:Tahoma'>Tu=
esday,
 September 10, 2002</span></font><font size=3D2 face=3DTahoma><span
style=3D'font-size:10.0pt;font-family:Tahoma'> </span></font><font
 size=3D2 face=3DTahoma><span style=3D'font-size:10.0pt;font-family:Tahoma'=
>6:29 PM</span></font><font
size=3D2 face=3DTahoma><span style=3D'font-size:10.0pt;font-family:Tahoma'>=
<br>
<b><span style=3D'font-weight:bold'>To:</span></b> s.henderson<br>
<b><span style=3D'font-weight:bold'>Subject:</span></b> memory problem in R=
</span></font></p>

<p class=3DMsoNormal style=3D'margin-left:.5in'><font size=3D3 face=3D"Time=
s New Roman"><span
style=3D'font-size:12.0pt'>&nbsp;</span></font></p>

<div>

<p class=3DMsoNormal style=3D'margin-left:.5in'><font size=3D2 face=3DArial=
><span
style=3D'font-size:10.0pt;font-family:Arial'>Hi Stephen,</span></font></p>

</div>

<div>

<p class=3DMsoNormal style=3D'margin-left:.5in'><font size=3D3 face=3D"Time=
s New Roman"><span
style=3D'font-size:12.0pt'>&nbsp;</span></font></p>

</div>

<div>

<div>

<p class=3DMsoNormal style=3D'margin-left:.5in'><font size=3D2 face=3DArial=
><span
style=3D'font-size:10.0pt;font-family:Arial'>This is to remedy the run out =
of
memory problem in R assuming your in windows.</span></font></p>

</div>

<div>

<p class=3DMsoNormal style=3D'margin-left:.5in'><font size=3D2 face=3DArial=
><span
style=3D'font-size:10.0pt;font-family:Arial'>&nbsp;</span></font></p>

</div>

<div>

<p class=3DMsoNormal style=3D'margin-left:.5in'><font size=3D2 face=3DArial=
><span
style=3D'font-size:10.0pt;font-family:Arial'>If you have a shortcut on your
desktop for R (or somewhere else), then if you right click on the icon and
bring up the Properties window, you will see an entry for <br>
Target with the path to the executable filled in. After that path (and outs=
ide
of the quotes) add this command-line argument on my PC, for example it would
look like this: </span></font></p>

</div>

<div>

<p class=3DMsoNormal style=3D'margin-left:.5in'><font size=3D2 face=3DArial=
><span
style=3D'font-size:10.0pt;font-family:Arial'>&nbsp;</span></font></p>

</div>

<div>

<p class=3DMsoNormal style=3D'margin-left:.5in'><font size=3D2 face=3DArial=
><span
style=3D'font-size:10.0pt;font-family:Arial'>&quot;C:\Program
Files\R\rw1051\bin\Rgui.exe&quot; --max-mem-size=3D768M </span></font></p>

</div>

<div>

<p class=3DMsoNormal style=3D'margin-left:.5in'><font size=3D2 face=3DArial=
><span
style=3D'font-size:10.0pt;font-family:Arial'>&nbsp;</span></font></p>

</div>

<div>

<p class=3DMsoNormal style=3D'margin-left:.5in'><font size=3D2 face=3DArial=
><span
style=3D'font-size:10.0pt;font-family:Arial'>Restart R and you will be in
business...</span></font></p>

</div>

<div>

<p class=3DMsoNormal style=3D'margin-left:.5in'><font size=3D2 face=3DArial=
><span
style=3D'font-size:10.0pt;font-family:Arial'>&nbsp;</span></font></p>

</div>

<div>

<p class=3DMsoNormal style=3D'margin-left:.5in'><font size=3D2 face=3DArial=
><span
style=3D'font-size:10.0pt;font-family:Arial'>Tibor</span></font></p>

</div>

<p class=3DMsoNormal style=3D'margin-left:.5in'><font size=3D2 face=3DArial=
><span
style=3D'font-size:10.0pt;font-family:Arial'>___________________________ <b=
r>
Tibor van Rooij <br>
Bioinformatician <br>
Montreal Genome Centre<br>
</span></font><font size=3D2 face=3DArial><span style=3D'font-size:10.0pt;f=
ont-family:
  Arial'>McGill</span></font><font size=3D2 face=3DArial><span style=3D'fon=
t-size:
 10.0pt;font-family:Arial'> </span></font><font size=3D2 face=3DArial><span
  style=3D'font-size:10.0pt;font-family:Arial'>University</span></font><font
size=3D2 face=3DArial><span style=3D'font-size:10.0pt;font-family:Arial'>, =
</span></font><font
  size=3D2 face=3DArial><span style=3D'font-size:10.0pt;font-family:Arial'>=
Duff</span></font><font
 size=3D2 face=3DArial><span style=3D'font-size:10.0pt;font-family:Arial'> =
</span></font><font
  size=3D2 face=3DArial><span style=3D'font-size:10.0pt;font-family:Arial'>=
Building</span></font><font
size=3D2 face=3DArial><span style=3D'font-size:10.0pt;font-family:Arial'> <=
br>
Tel:&nbsp; (514) 398-2497<br>
Fax: (514) 398-1838<br>
&nbsp;<br>
&quot;Alle Menschen werden Bruder&quot;-- Friedrich von Schiller</span></fo=
nt></p>

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