[R-SIG-Mac] plot() does not give labels under quartz

[Tena Sakai]

Hi,

I googled "os x corrupt font cache" and came up with a few hits.
The top hit was:
   http://www.macworld.com/article/139383/2009/03/fontcacheclear.html
and it suggested issuing three lines below from unix prompt:
   atsutil databases -removeUser
   atsutil server -shutdown
   atsutil server -ping
Unfortunately, it didn't cure the problem.  The above link states:
"Prior to OS X 10.5, all font caches ..."  The date of article is
Mar 13, 2009.  As I stated before, mine is 10.6.6.

Another hit was:
   http://hints.macworld.com/article.php?story=20071026081555971
it specifically says, "10.5 Only."  It is different from
the previous one, but slightly messy:
   sudo rm -rf `lsof | grep com.apple.ATS/annex.aux \
     | grep Finder | cut -c 66-139`

I didn't try this one because with different rev constants like
66-139 scare me.  Plus I am happy with X11() and/or adding
Family="sans" in the plot(foo ~ moo). Either is good enough
fix/work-around for me.

Thank you for your help.

Regards,

Tena Sakai
tsakai at gallo.ucsf.edu
 


On 1/19/11 3:22 AM, "Prof Brian Ripley" <ripley at stats.ox.ac.uk> wrote:

> Missing labels has been reported several times, and AFAIK has always
> indicated a corrupt font cache (or other problems in the font book).
> There are various ways to repair that, so I'll leave you to Google for
> one.
> 
> On Wed, 19 Jan 2011, Phillip Jardine wrote:
> 
>> Tena,
>> 
>> I had the same problem myself a few months ago, when I upgraded to
>> OS X 10.6.5 (from OS X 10.4) I don't know why this happened, but by
>> trial and error I found that putting family = "sans" into the plot
>> command brought back the labels.
>> 
>> Bizarrely though things recently started working normally again,
>> with no updates/upgrades on my part. Strange, eh?
>> 
>> Anyway, try the family = "sans" thing, it might help.
>> 
>> Best wishes,
>> 
>> Phil
>> --
>> Phil Jardine
>> Geosystems Research Group
>> School of Geography, Earth, and Environmental Sciences
>> University of Birmingham
>> Edgbaston
>> Birmingham
>> B15 2TT
>> 
>> pej083 at bham.ac.uk
>> Tel. 0121 414 6146
>> http://www.gees.bham.ac.uk/staff/pgpej083.shtml
>> ________________________________________
>> From: r-sig-mac-bounces at r-project.org [r-sig-mac-bounces at r-project.org] On
>> Behalf Of Tena Sakai [tsakai at gallo.ucsf.edu]
>> Sent: 19 January 2011 04:29
>> To: r-sig-mac at r-project.org
>> Subject: [R-SIG-Mac] plot() does not give labels under quarts.
>> 
>> Greetings,
>> 
>> I have noticed a bit odd behavior of plot() on OS X 10.6.5.
>> The R I downloaded from cran is R-2.12.1.pkg.  Below is
>> what I did:
>> 
>>        R version 2.12.1 (2010-12-16)
>>               .
>>               .
>>        [R.app GUI 1.35 (5665) x86_64-apple-darwin9.8.0]
>> 
>>> foo <- c( 4, 6, 9 ,12 )
>>> moo <- c( 34, 37, 41, 49 )
>>> plot( foo ~ moo )
>> 
>> This gives me a plot with no labels.  No "moo", "foo", or numbers under
>> tics.  But,
>> 
>>> X11()
>>> plot( foo ~ moo )
>> 
>> This gives me xlabel ("moo"), ylabel ("foo"), and numbers under tics.
>> In the first case, by default, I am using quartz, while the second,
>> obviously, I am using X11.
>> 
>> Does anybody know why this happens under quartz and not under X11?
>> 
>> Thank you.
>> 
>> Tena Sakai
>> tsakai at gallo.ucsf.edu