[R] /tmp/ gets filled up fast

From: Alessandro Gagliardi <alessandro_at_gagliardi.name>
Date: Fri, 25 May 2007 14:42:37 -0400

Dear useRs,

I'm running some pretty big R scripts using a PBS that calls upon the RMySQL library and it's filling up the /tmp/ directory with Rtmp* files. I thought the problem might have come from scripts crashing and therefore not getting around to executing the dbDisconnect() function, but I just ran a script that exited correctly and it still left a giant file in /tmp/ without cleaning up after itself. I'm running all of my scripts using the --vanilla tag (saving the data I need either into a separate .RData file or into the MySQL database). Is there some other tag I should be using or some command I can put at the end of my script to remove the Rtmp file when it's done?

Thank you,

We need to resolve the issue somehow better way... /tmp/ gets filled up fast with your R tasks...

*$> du -scm RtmpvKEqwr/

804     RtmpvKEqwr/
804     total

$> ls -ld RtmpvKEqwr/
0 drwx------ 2 eklypse eklypse 80 2007-05-24 15:18 RtmpvKEqwr//

$> df .

Filesystem           1K-blocks      Used Available Use% Mounted on
/dev/sda6              1052184   1052184         0 100% /tmp

I had to remove it...

check if there is a way to use some other directory may be? or properly clean up??

On Wed, 23 May 2007, Alessandro Gagliardi wrote:

> Well, this is a real problem then. Because I'm generating tables that
> R cannot get into MySQL because they are too big and it times out
> before it's done.

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