Re: [R-SIG-Mac] Using XQuartz - any known issues?

[Fox, John]

Dear Niall,

I'll update the Rcmdr macOS installation notes to reflect Simon's information 
about XQuartz causing a font cache to be built on first installation.

I'm glad that the Rcmdr is now working normally for you and your students. I 
wouldn't code this as "user error," but as a previously unnoticed (by me) 
consequence of installing XQuartz for the first time.

Best,
 John

> On Apr 22, 2020, at 5:06 AM, ANDERSON Niall  wrote:
> 
> Thanks to everyone who has responded.
> 
> The consensus view seems to be that the reboot after initial installation is 
> vital and I/ we probably missed that! Also that very first use may involve 
> more system preparation to generate the font cache, so it may run more slowly 
> until that is complete. I'm inclined to think one or both of these 
> explanations underlay the issues and that we can mark this as User Error, but 
> Resolved!
> 
> Best wishes to all.
> 
> Niall
> 
> 
> 
> 
> Dr Niall H. Anderson | Senior Lecturer in Medical Statistics/ Programme 
> Co-director, MPH (on campus)
> Room G113B, Doorway 1
> Usher Institute, University of Edinburgh
> Old Medical School, Teviot Place, Edinburgh, EH8 9AG
> 
> niall.ander...@ed.ac.uk  | +44 (0)131 650 3212 | Skype = live:niall.h.anderson
> 
> Responses to emails are only expected during your working hours
> 
> www.ed.ac.uk/usher  | @EdinUniUsher 
> 
> 
> 
> 
> 
> 
> On 22/04/2020, 00:24, "Simon Urbanek"  wrote:
> 
>Just a quick note in the hopes that is may be helpful: X11 (fontconfig, 
> really) creates a font cache the first time is it started which can take 
> substantial time depending on hardware (HDD vs SSD...) during which XQuartz 
> doesn't respond. So I wouldn't be surprised if that was actually happening, 
> unrelated to any setttings. If you start XQuartz later after the cache has 
> been built, it will work fine immediately. So if that is what it was, the 
> issue should not re-occur if you were patient enough the first time.
> 
>Cheers,
>Simon
> 
> 
> 
>> On 21/04/2020, at 8:41 PM, ANDERSON Niall  wrote:
>> 
>> Eberhard, Thanks - I'm also  an RStudio user, but am trying to use Rcmdr as 
>> a gentle introduction to R for a course (building up to RStudio use later).
>> 
>> John, thanks also for responding (not at all an Rcmdr issue, I think - 
>> that's just what happened to show the problem). Tech details:
>> 
>> MacBook Pro 15 (bought 2019)
>> Catalina 10.15.4
>> 2.6 GHz 6-core Intel Core i7
>> 16 GB 2400 MHz DDR4 memory
>> Radeon Pro 555X 4GB & Intel UHD Graphics 360 1536MB graphics.
>> 
>> R 3.6.3, new download of Rcmdr etc (reinstalled everything from scratch 
>> before realising X11 was the reason Rcmdr wasn't working and downloading 
>> XQuartz). I'm almost certain I would have rebooted before trying to run this 
>> - I saw that warning somewhere (CRAN FAQ maybe?). I certainly have since, 
>> but perhaps that's why it is now appearing to function correctly? I should 
>> say that 2-3 students have reported the same problem over the last 3-4 days, 
>> so it isn't just me.
>> 
>> Thanks again for input. Best wishes to all on the list.
>> 
>> Niall
>> 
>> 
>> 
>> Dr Niall H. Anderson | Senior Lecturer in Medical Statistics/ Programme 
>> Co-director, MPH (on campus)
>> Room G113B, Doorway 1
>> Usher Institute, University of Edinburgh
>> Old Medical School, Teviot Place, Edinburgh, EH8 9AG
>> 
>> niall.ander...@ed.ac.uk  | +44 (0)131 650 3212 | Skype = 
>> live:niall.h.anderson
>> 
>> Responses to emails are only expected during your working hours
>> 
>> www.ed.ac.uk/usher  | @EdinUniUsher 
>> 
>> 
>> 
>> 
>> 
>> 
>> On 21/04/2020, 04:55, "Fox, John"  wrote:
>> 
>>   Dear Niall,
>> 
>>> On Apr 20, 2020, at 3:42 PM, ANDERSON Niall  wrote:
>>> 
>>> Dear all,
>>> 
>>> I’m relatively new to MacOS and have only recently started trying to use 
>>> XQuartz to enable me to run Rcmdr. Are there any common issues/ tips for 
>>> getting good performance out of it (or should it usually run well with 
>>> default settings)?
>>> 
>>> On first installation, I found there was a very long lag in menus being 
>>> populated (i.e. the menu shape was generated, but no usable options were 
>>> added), to the extent that Rcmdr was then effectively useless (not Rcmdr’s 
>>> fault, I don’t think). One of my students suggested reducing Output Colors 
>>> option from the default “Millions” setting. That seems to deal with the 
>>> problem, thankfully.
>>> 
>>> Is that typical of XQuartz, and is there anything else I should be doing to 
>>> get the best performance from it?
>> 
>>   I haven't observed the problem you describe on my Mac, which is a three- 
>> or four-year-old MacBook Pro (that is, the Rcmdr dialogs display reasonably 
>> crisply for me), and I haven't done anything special to configure XQuartz. 
>> Here are the specs for 

Re: [R-SIG-Mac] Using XQuartz - any known issues?

[Fox, John]

Dear Simon,

Thanks for the explanation -- it makes sense of what Niall and some of his 
students observed and why I haven't seen this problem, because XQuartz was 
first installed on my Mac years ago.

Best,
 John

> On Apr 21, 2020, at 7:24 PM, Simon Urbanek  
> wrote:
> 
> Just a quick note in the hopes that is may be helpful: X11 (fontconfig, 
> really) creates a font cache the first time is it started which can take 
> substantial time depending on hardware (HDD vs SSD...) during which XQuartz 
> doesn't respond. So I wouldn't be surprised if that was actually happening, 
> unrelated to any setttings. If you start XQuartz later after the cache has 
> been built, it will work fine immediately. So if that is what it was, the 
> issue should not re-occur if you were patient enough the first time.
> 
> Cheers,
> Simon
> 
> 
> 
>> On 21/04/2020, at 8:41 PM, ANDERSON Niall  wrote:
>> 
>> Eberhard, Thanks - I'm also  an RStudio user, but am trying to use Rcmdr as 
>> a gentle introduction to R for a course (building up to RStudio use later).
>> 
>> John, thanks also for responding (not at all an Rcmdr issue, I think - 
>> that's just what happened to show the problem). Tech details:
>> 
>> MacBook Pro 15 (bought 2019)
>> Catalina 10.15.4
>> 2.6 GHz 6-core Intel Core i7
>> 16 GB 2400 MHz DDR4 memory
>> Radeon Pro 555X 4GB & Intel UHD Graphics 360 1536MB graphics.
>> 
>> R 3.6.3, new download of Rcmdr etc (reinstalled everything from scratch 
>> before realising X11 was the reason Rcmdr wasn't working and downloading 
>> XQuartz). I'm almost certain I would have rebooted before trying to run this 
>> - I saw that warning somewhere (CRAN FAQ maybe?). I certainly have since, 
>> but perhaps that's why it is now appearing to function correctly? I should 
>> say that 2-3 students have reported the same problem over the last 3-4 days, 
>> so it isn't just me.
>> 
>> Thanks again for input. Best wishes to all on the list.
>> 
>> Niall
>> 
>> 
>> 
>> Dr Niall H. Anderson | Senior Lecturer in Medical Statistics/ Programme 
>> Co-director, MPH (on campus)
>> Room G113B, Doorway 1
>> Usher Institute, University of Edinburgh
>> Old Medical School, Teviot Place, Edinburgh, EH8 9AG
>> 
>> niall.ander...@ed.ac.uk  | +44 (0)131 650 3212 | Skype = 
>> live:niall.h.anderson
>> 
>> Responses to emails are only expected during your working hours
>> 
>> www.ed.ac.uk/usher  | @EdinUniUsher 
>> 
>> 
>> 
>> 
>> 
>> 
>> On 21/04/2020, 04:55, "Fox, John"  wrote:
>> 
>>   Dear Niall,
>> 
>>> On Apr 20, 2020, at 3:42 PM, ANDERSON Niall  wrote:
>>> 
>>> Dear all,
>>> 
>>> I’m relatively new to MacOS and have only recently started trying to use 
>>> XQuartz to enable me to run Rcmdr. Are there any common issues/ tips for 
>>> getting good performance out of it (or should it usually run well with 
>>> default settings)?
>>> 
>>> On first installation, I found there was a very long lag in menus being 
>>> populated (i.e. the menu shape was generated, but no usable options were 
>>> added), to the extent that Rcmdr was then effectively useless (not Rcmdr’s 
>>> fault, I don’t think). One of my students suggested reducing Output Colors 
>>> option from the default “Millions” setting. That seems to deal with the 
>>> problem, thankfully.
>>> 
>>> Is that typical of XQuartz, and is there anything else I should be doing to 
>>> get the best performance from it?
>> 
>>   I haven't observed the problem you describe on my Mac, which is a three- 
>> or four-year-old MacBook Pro (that is, the Rcmdr dialogs display reasonably 
>> crisply for me), and I haven't done anything special to configure XQuartz. 
>> Here are the specs for my Mac:
>> 
>>Model Name:   MacBook Pro
>> Model Identifier:MacBookPro13,2
>> Processor Name:  Dual-Core Intel Core i7
>> Processor Speed: 3.3 GHz
>> Number of Processors:1
>> Total Number of Cores:   2
>> L2 Cache (per Core): 256 KB
>> L3 Cache:4 MB
>> Hyper-Threading Technology:  Enabled
>> Memory:  8 GB
>> 
>>   It might help to have some more information. I assume that you're using 
>> the most recent versions of R, the Rcmdr package, and other packages, and a 
>> recent version of macOS. What Mac do you have, and did you reboot it after 
>> installing XQuartz? If you updated R, did you reinstall XQuartz?
>> 
>>   Best,
>>John
>> 
>> -
>> John Fox, Professor Emeritus
>> McMaster University
>> Hamilton, Ontario, Canada
>> Web: http::/socserv.mcmaster.ca/jfox
>> 
>>> 
>>> Thanks,
>>> 
>>> Niall Anderson
>>> 
>>> 
>>> 
>>> 
>>> Dr Niall H. Anderson | Senior Lecturer in Medical Statistics/ Programme 
>>> Co-director, MPH (on campus)
>>> 
>>> Room G113B, Doorway 1
>>> Usher Institute, University of Edinburgh
>>> Old Medical School, Teviot Place, Edinburgh, EH8 9AG
>>> 
>>> 

Re: [R-SIG-Mac] Using XQuartz - any known issues?

[ANDERSON Niall]

Thanks to everyone who has responded.

The consensus view seems to be that the reboot after initial installation is 
vital and I/ we probably missed that! Also that very first use may involve more 
system preparation to generate the font cache, so it may run more slowly until 
that is complete. I'm inclined to think one or both of these explanations 
underlay the issues and that we can mark this as User Error, but Resolved!

Best wishes to all.

Niall



 
Dr Niall H. Anderson | Senior Lecturer in Medical Statistics/ Programme 
Co-director, MPH (on campus)
Room G113B, Doorway 1
Usher Institute, University of Edinburgh
Old Medical School, Teviot Place, Edinburgh, EH8 9AG
 
niall.ander...@ed.ac.uk  | +44 (0)131 650 3212 | Skype = live:niall.h.anderson
 
Responses to emails are only expected during your working hours

www.ed.ac.uk/usher  | @EdinUniUsher 

 

 
 

On 22/04/2020, 00:24, "Simon Urbanek"  wrote:

Just a quick note in the hopes that is may be helpful: X11 (fontconfig, 
really) creates a font cache the first time is it started which can take 
substantial time depending on hardware (HDD vs SSD...) during which XQuartz 
doesn't respond. So I wouldn't be surprised if that was actually happening, 
unrelated to any setttings. If you start XQuartz later after the cache has been 
built, it will work fine immediately. So if that is what it was, the issue 
should not re-occur if you were patient enough the first time.

Cheers,
Simon



> On 21/04/2020, at 8:41 PM, ANDERSON Niall  wrote:
> 
> Eberhard, Thanks - I'm also  an RStudio user, but am trying to use Rcmdr 
as a gentle introduction to R for a course (building up to RStudio use later).
> 
> John, thanks also for responding (not at all an Rcmdr issue, I think - 
that's just what happened to show the problem). Tech details:
> 
> MacBook Pro 15 (bought 2019)
> Catalina 10.15.4
> 2.6 GHz 6-core Intel Core i7
> 16 GB 2400 MHz DDR4 memory
> Radeon Pro 555X 4GB & Intel UHD Graphics 360 1536MB graphics.
> 
> R 3.6.3, new download of Rcmdr etc (reinstalled everything from scratch 
before realising X11 was the reason Rcmdr wasn't working and downloading 
XQuartz). I'm almost certain I would have rebooted before trying to run this - 
I saw that warning somewhere (CRAN FAQ maybe?). I certainly have since, but 
perhaps that's why it is now appearing to function correctly? I should say that 
2-3 students have reported the same problem over the last 3-4 days, so it isn't 
just me.
> 
> Thanks again for input. Best wishes to all on the list.
> 
> Niall
> 
> 
> 
> Dr Niall H. Anderson | Senior Lecturer in Medical Statistics/ Programme 
Co-director, MPH (on campus)
> Room G113B, Doorway 1
> Usher Institute, University of Edinburgh
> Old Medical School, Teviot Place, Edinburgh, EH8 9AG
> 
> niall.ander...@ed.ac.uk  | +44 (0)131 650 3212 | Skype = 
live:niall.h.anderson
> 
> Responses to emails are only expected during your working hours
> 
> www.ed.ac.uk/usher  | @EdinUniUsher 

> 
> 
> 
> 
> 
> On 21/04/2020, 04:55, "Fox, John"  wrote:
> 
>Dear Niall,
> 
>> On Apr 20, 2020, at 3:42 PM, ANDERSON Niall  
wrote:
>> 
>> Dear all,
>> 
>> I’m relatively new to MacOS and have only recently started trying to use 
XQuartz to enable me to run Rcmdr. Are there any common issues/ tips for 
getting good performance out of it (or should it usually run well with default 
settings)?
>> 
>> On first installation, I found there was a very long lag in menus being 
populated (i.e. the menu shape was generated, but no usable options were 
added), to the extent that Rcmdr was then effectively useless (not Rcmdr’s 
fault, I don’t think). One of my students suggested reducing Output Colors 
option from the default “Millions” setting. That seems to deal with the 
problem, thankfully.
>> 
>> Is that typical of XQuartz, and is there anything else I should be doing 
to get the best performance from it?
> 
>I haven't observed the problem you describe on my Mac, which is a 
three- or four-year-old MacBook Pro (that is, the Rcmdr dialogs display 
reasonably crisply for me), and I haven't done anything special to configure 
XQuartz. Here are the specs for my Mac:
> 
> Model Name:   MacBook Pro
>  Model Identifier:MacBookPro13,2
>  Processor Name:  Dual-Core Intel Core i7
>  Processor Speed: 3.3 GHz
>  Number of Processors:1
>  Total Number of Cores:   2
>  L2 Cache (per Core): 256 KB
>  L3 Cache:4 MB
>  Hyper-Threading Technology:  Enabled
>  Memory:  8 GB
> 
>   

Re: [R-SIG-Mac] Using XQuartz - any known issues?

[Simon Urbanek]

Bill,

that has been always the case. You have to re-install XQuartz with every macOS 
upgrade. There are many issues with Catalina, but at least this one is not new 
;).

Cheers,
Simon


> On 22/04/2020, at 4:37 PM, William Michels via R-SIG-Mac 
>  wrote:
> 
> Hello,
> 
> Regarding R with XQuartz on Mac--I found one reference claiming that
> after upgrading to MacOS 10.15 Catalina, users may be required to
> re-install XQuartz. The MacOS Catalina installer moves/quarantines
> prior XQuartz installations to a folder called "Relocated Items",
> which may disrupt programs linking to XQuartz and expecting to find it
> in the old location:
> 
> "Installing or Reinstalling XQuartz if Upgrade to macOS 10.15 Catalina
> Causes Issues"
> https://www.harrisgeospatial.com/Support/Self-Help-Tools/Help-Articles/Help-Articles-Detail/ArtMID/10220/ArticleID/23855/default
> 
> HTH, Bill.
> 
> W. Michels, Ph.D.
> 
> 
> 
> On Tue, Apr 21, 2020 at 4:25 PM  wrote:
>> 
>> Send R-SIG-Mac mailing list submissions to
>>r-sig-mac@r-project.org
> 
> ___
> R-SIG-Mac mailing list
> R-SIG-Mac@r-project.org
> https://stat.ethz.ch/mailman/listinfo/r-sig-mac

___
R-SIG-Mac mailing list
R-SIG-Mac@r-project.org
https://stat.ethz.ch/mailman/listinfo/r-sig-mac

Re: [R-SIG-Mac] Using XQuartz - any known issues?

[William Michels via R-SIG-Mac]

Hello,

Regarding R with XQuartz on Mac--I found one reference claiming that
after upgrading to MacOS 10.15 Catalina, users may be required to
re-install XQuartz. The MacOS Catalina installer moves/quarantines
prior XQuartz installations to a folder called "Relocated Items",
which may disrupt programs linking to XQuartz and expecting to find it
in the old location:

"Installing or Reinstalling XQuartz if Upgrade to macOS 10.15 Catalina
Causes Issues"
https://www.harrisgeospatial.com/Support/Self-Help-Tools/Help-Articles/Help-Articles-Detail/ArtMID/10220/ArticleID/23855/default

HTH, Bill.

W. Michels, Ph.D.



On Tue, Apr 21, 2020 at 4:25 PM  wrote:
>
> Send R-SIG-Mac mailing list submissions to
> r-sig-mac@r-project.org

___
R-SIG-Mac mailing list
R-SIG-Mac@r-project.org
https://stat.ethz.ch/mailman/listinfo/r-sig-mac

Re: [R-SIG-Mac] Using XQuartz - any known issues?

[Simon Urbanek]

Just a quick note in the hopes that is may be helpful: X11 (fontconfig, really) 
creates a font cache the first time is it started which can take substantial 
time depending on hardware (HDD vs SSD...) during which XQuartz doesn't 
respond. So I wouldn't be surprised if that was actually happening, unrelated 
to any setttings. If you start XQuartz later after the cache has been built, it 
will work fine immediately. So if that is what it was, the issue should not 
re-occur if you were patient enough the first time.

Cheers,
Simon



> On 21/04/2020, at 8:41 PM, ANDERSON Niall  wrote:
> 
> Eberhard, Thanks - I'm also  an RStudio user, but am trying to use Rcmdr as a 
> gentle introduction to R for a course (building up to RStudio use later).
> 
> John, thanks also for responding (not at all an Rcmdr issue, I think - that's 
> just what happened to show the problem). Tech details:
> 
> MacBook Pro 15 (bought 2019)
> Catalina 10.15.4
> 2.6 GHz 6-core Intel Core i7
> 16 GB 2400 MHz DDR4 memory
> Radeon Pro 555X 4GB & Intel UHD Graphics 360 1536MB graphics.
> 
> R 3.6.3, new download of Rcmdr etc (reinstalled everything from scratch 
> before realising X11 was the reason Rcmdr wasn't working and downloading 
> XQuartz). I'm almost certain I would have rebooted before trying to run this 
> - I saw that warning somewhere (CRAN FAQ maybe?). I certainly have since, but 
> perhaps that's why it is now appearing to function correctly? I should say 
> that 2-3 students have reported the same problem over the last 3-4 days, so 
> it isn't just me.
> 
> Thanks again for input. Best wishes to all on the list.
> 
> Niall
> 
> 
> 
> Dr Niall H. Anderson | Senior Lecturer in Medical Statistics/ Programme 
> Co-director, MPH (on campus)
> Room G113B, Doorway 1
> Usher Institute, University of Edinburgh
> Old Medical School, Teviot Place, Edinburgh, EH8 9AG
> 
> niall.ander...@ed.ac.uk  | +44 (0)131 650 3212 | Skype = live:niall.h.anderson
> 
> Responses to emails are only expected during your working hours
> 
> www.ed.ac.uk/usher  | @EdinUniUsher 
> 
> 
> 
> 
> 
> 
> On 21/04/2020, 04:55, "Fox, John"  wrote:
> 
>Dear Niall,
> 
>> On Apr 20, 2020, at 3:42 PM, ANDERSON Niall  wrote:
>> 
>> Dear all,
>> 
>> I’m relatively new to MacOS and have only recently started trying to use 
>> XQuartz to enable me to run Rcmdr. Are there any common issues/ tips for 
>> getting good performance out of it (or should it usually run well with 
>> default settings)?
>> 
>> On first installation, I found there was a very long lag in menus being 
>> populated (i.e. the menu shape was generated, but no usable options were 
>> added), to the extent that Rcmdr was then effectively useless (not Rcmdr’s 
>> fault, I don’t think). One of my students suggested reducing Output Colors 
>> option from the default “Millions” setting. That seems to deal with the 
>> problem, thankfully.
>> 
>> Is that typical of XQuartz, and is there anything else I should be doing to 
>> get the best performance from it?
> 
>I haven't observed the problem you describe on my Mac, which is a three- 
> or four-year-old MacBook Pro (that is, the Rcmdr dialogs display reasonably 
> crisply for me), and I haven't done anything special to configure XQuartz. 
> Here are the specs for my Mac:
> 
> Model Name:   MacBook Pro
>  Model Identifier:MacBookPro13,2
>  Processor Name:  Dual-Core Intel Core i7
>  Processor Speed: 3.3 GHz
>  Number of Processors:1
>  Total Number of Cores:   2
>  L2 Cache (per Core): 256 KB
>  L3 Cache:4 MB
>  Hyper-Threading Technology:  Enabled
>  Memory:  8 GB
> 
>It might help to have some more information. I assume that you're using 
> the most recent versions of R, the Rcmdr package, and other packages, and a 
> recent version of macOS. What Mac do you have, and did you reboot it after 
> installing XQuartz? If you updated R, did you reinstall XQuartz?
> 
>Best,
> John
> 
>  -
>  John Fox, Professor Emeritus
>  McMaster University
>  Hamilton, Ontario, Canada
>  Web: http::/socserv.mcmaster.ca/jfox
> 
>> 
>> Thanks,
>> 
>> Niall Anderson
>> 
>> 
>> 
>> 
>> Dr Niall H. Anderson | Senior Lecturer in Medical Statistics/ Programme 
>> Co-director, MPH (on campus)
>> 
>> Room G113B, Doorway 1
>> Usher Institute, University of Edinburgh
>> Old Medical School, Teviot Place, Edinburgh, EH8 9AG
>> 
>> niall.ander...@ed.ac.uk  | +44 (0)131 650 3212 | Skype = 
>> live:niall.h.anderson
>> 
>> Responses to emails are only expected during your working hours
>> 
>> www.ed.ac.uk/usher | @EdinUniUsher
>> 
>> 
>> 
>> 
>> The University of Edinburgh is a charitable body, registered in Scotland, 
>> with registration number SC005336. 
>> ___
>> R-SIG-Mac mailing list

Re: [R-SIG-Mac] Using XQuartz - any known issues?

[ANDERSON Niall]

Eberhard, Thanks - I'm also  an RStudio user, but am trying to use Rcmdr as a 
gentle introduction to R for a course (building up to RStudio use later).

John, thanks also for responding (not at all an Rcmdr issue, I think - that's 
just what happened to show the problem). Tech details:

MacBook Pro 15 (bought 2019)
Catalina 10.15.4
2.6 GHz 6-core Intel Core i7
16 GB 2400 MHz DDR4 memory
Radeon Pro 555X 4GB & Intel UHD Graphics 360 1536MB graphics.

R 3.6.3, new download of Rcmdr etc (reinstalled everything from scratch before 
realising X11 was the reason Rcmdr wasn't working and downloading XQuartz). I'm 
almost certain I would have rebooted before trying to run this - I saw that 
warning somewhere (CRAN FAQ maybe?). I certainly have since, but perhaps that's 
why it is now appearing to function correctly? I should say that 2-3 students 
have reported the same problem over the last 3-4 days, so it isn't just me.

Thanks again for input. Best wishes to all on the list.

Niall


 
Dr Niall H. Anderson | Senior Lecturer in Medical Statistics/ Programme 
Co-director, MPH (on campus)
Room G113B, Doorway 1
Usher Institute, University of Edinburgh
Old Medical School, Teviot Place, Edinburgh, EH8 9AG
 
niall.ander...@ed.ac.uk  | +44 (0)131 650 3212 | Skype = live:niall.h.anderson
 
Responses to emails are only expected during your working hours

www.ed.ac.uk/usher  | @EdinUniUsher 

 

 
 

On 21/04/2020, 04:55, "Fox, John"  wrote:

Dear Niall,

> On Apr 20, 2020, at 3:42 PM, ANDERSON Niall  
wrote:
> 
> Dear all,
>  
> I’m relatively new to MacOS and have only recently started trying to use 
XQuartz to enable me to run Rcmdr. Are there any common issues/ tips for 
getting good performance out of it (or should it usually run well with default 
settings)?
>  
> On first installation, I found there was a very long lag in menus being 
populated (i.e. the menu shape was generated, but no usable options were 
added), to the extent that Rcmdr was then effectively useless (not Rcmdr’s 
fault, I don’t think). One of my students suggested reducing Output Colors 
option from the default “Millions” setting. That seems to deal with the 
problem, thankfully.
>  
> Is that typical of XQuartz, and is there anything else I should be doing 
to get the best performance from it?

I haven't observed the problem you describe on my Mac, which is a three- or 
four-year-old MacBook Pro (that is, the Rcmdr dialogs display reasonably 
crisply for me), and I haven't done anything special to configure XQuartz. Here 
are the specs for my Mac:

 Model Name:MacBook Pro
  Model Identifier: MacBookPro13,2
  Processor Name:   Dual-Core Intel Core i7
  Processor Speed:  3.3 GHz
  Number of Processors: 1
  Total Number of Cores:2
  L2 Cache (per Core):  256 KB
  L3 Cache: 4 MB
  Hyper-Threading Technology:   Enabled
  Memory:   8 GB
 
It might help to have some more information. I assume that you're using the 
most recent versions of R, the Rcmdr package, and other packages, and a recent 
version of macOS. What Mac do you have, and did you reboot it after installing 
XQuartz? If you updated R, did you reinstall XQuartz?

Best,
 John

  -
  John Fox, Professor Emeritus
  McMaster University
  Hamilton, Ontario, Canada
  Web: http::/socserv.mcmaster.ca/jfox

>  
> Thanks,
>  
> Niall Anderson
>  
>  
> 
>  
> Dr Niall H. Anderson | Senior Lecturer in Medical Statistics/ Programme 
Co-director, MPH (on campus)
> 
> Room G113B, Doorway 1
> Usher Institute, University of Edinburgh
> Old Medical School, Teviot Place, Edinburgh, EH8 9AG
>  
> niall.ander...@ed.ac.uk  | +44 (0)131 650 3212 | Skype = 
live:niall.h.anderson
>  
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> 
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>  
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with registration number SC005336. 
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Re: [R-SIG-Mac] Using XQuartz - any known issues?

[Fox, John]

Dear Niall,

> On Apr 20, 2020, at 3:42 PM, ANDERSON Niall  wrote:
> 
> Dear all,
>  
> I’m relatively new to MacOS and have only recently started trying to use 
> XQuartz to enable me to run Rcmdr. Are there any common issues/ tips for 
> getting good performance out of it (or should it usually run well with 
> default settings)?
>  
> On first installation, I found there was a very long lag in menus being 
> populated (i.e. the menu shape was generated, but no usable options were 
> added), to the extent that Rcmdr was then effectively useless (not Rcmdr’s 
> fault, I don’t think). One of my students suggested reducing Output Colors 
> option from the default “Millions” setting. That seems to deal with the 
> problem, thankfully.
>  
> Is that typical of XQuartz, and is there anything else I should be doing to 
> get the best performance from it?

I haven't observed the problem you describe on my Mac, which is a three- or 
four-year-old MacBook Pro (that is, the Rcmdr dialogs display reasonably 
crisply for me), and I haven't done anything special to configure XQuartz. Here 
are the specs for my Mac:

 Model Name:MacBook Pro
  Model Identifier: MacBookPro13,2
  Processor Name:   Dual-Core Intel Core i7
  Processor Speed:  3.3 GHz
  Number of Processors: 1
  Total Number of Cores:2
  L2 Cache (per Core):  256 KB
  L3 Cache: 4 MB
  Hyper-Threading Technology:   Enabled
  Memory:   8 GB
 
It might help to have some more information. I assume that you're using the 
most recent versions of R, the Rcmdr package, and other packages, and a recent 
version of macOS. What Mac do you have, and did you reboot it after installing 
XQuartz? If you updated R, did you reinstall XQuartz?

Best,
 John

  -
  John Fox, Professor Emeritus
  McMaster University
  Hamilton, Ontario, Canada
  Web: http::/socserv.mcmaster.ca/jfox

>  
> Thanks,
>  
> Niall Anderson
>  
>  
> 
>  
> Dr Niall H. Anderson | Senior Lecturer in Medical Statistics/ Programme 
> Co-director, MPH (on campus)
> 
> Room G113B, Doorway 1
> Usher Institute, University of Edinburgh
> Old Medical School, Teviot Place, Edinburgh, EH8 9AG
>  
> niall.ander...@ed.ac.uk  | +44 (0)131 650 3212 | Skype = live:niall.h.anderson
>  
> Responses to emails are only expected during your working hours
> 
> www.ed.ac.uk/usher | @EdinUniUsher
>  
> 
>  
>  
> The University of Edinburgh is a charitable body, registered in Scotland, 
> with registration number SC005336. 
> ___
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Re: [R-SIG-Mac] Using XQuartz - any known issues?

[Eberhard W Lisse]

Take Rstudio.

el

—
Sent from Dr Lisse’s iPad Mini 5
On 20 Apr 2020, 21:42 +0200, ANDERSON Niall , wrote:
> Dear all,
>
> I’m relatively new to MacOS and have only recently started trying to use 
> XQuartz to enable me to run Rcmdr. Are there any common issues/ tips for 
> getting good performance out of it (or should it usually run well with 
> default settings)?
>
> On first installation, I found there was a very long lag in menus being 
> populated (i.e. the menu shape was generated, but no usable options were 
> added), to the extent that Rcmdr was then effectively useless (not Rcmdr’s 
> fault, I don’t think). One of my students suggested reducing Output Colors 
> option from the default “Millions” setting. That seems to deal with the 
> problem, thankfully.
>
> Is that typical of XQuartz, and is there anything else I should be doing to 
> get the best performance from it?
>
> Thanks,
>
> Niall Anderson
>
>
> 
>
> Dr Niall H. Anderson | Senior Lecturer in Medical Statistics/ Programme 
> Co-director, MPH (on campus)
> Room G113B, Doorway 1
> Usher Institute, University of Edinburgh
> Old Medical School, Teviot Place, Edinburgh, EH8 9AG
>
> niall.ander...@ed.ac.uk  | +44 (0)131 650 3212 | Skype = live:niall.h.anderson
>
> Responses to emails are only expected during your working hours
> 
> www.ed.ac.uk/usher | @EdinUniUsher
>
>
>
> The University of Edinburgh is a charitable body, registered in Scotland, 
> with registration number 
> SC005336.___
> R-SIG-Mac mailing list
> R-SIG-Mac@r-project.org
> https://stat.ethz.ch/mailman/listinfo/r-sig-mac
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