Thanks John.
Yes, that does work. I see that Ken Beath posted about a potential problem with
a new framework. I am going to try a different build.
Kevin
--
Kevin E. Thorpe
Head of Biostatistics, Applied Health Research Centre (AHRC)
Li Ka Shing Knowledge Institute of St. Michael’s Hospital
Assistant Professor, Dalla Lana School of Public Health
University of Toronto
email: kevin.tho...@utoronto.ca Tel: 416.864.5776 Fax: 416.864.3016
> On Feb 6, 2023, at 6:32 PM, John H Maindonald <jhmaindon...@gmail.com> wrote:
>
> An ‘interesting’ aside is that in Monterey (12.6.2), a blank window
> appears when I click on ‘PDF’ from within the RStudio help system.
> Within the R GUI, there is not a problem. In either case, typing
> vignette('concordance', package='survival’)
> in the command line window works fine. Kevin, does this work
> for you?
>
> John Maindonald.
>
>> On 7/02/2023, at 12:01, r-sig-mac-requ...@r-project.org wrote:
>>
>> Send R-SIG-Mac mailing list submissions to
>> r-sig-mac@r-project.org
>>
>> To subscribe or unsubscribe via the World Wide Web, visit
>> https://stat.ethz.ch/mailman/listinfo/r-sig-mac
>> or, via email, send a message with subject or body 'help' to
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>> When replying, please edit your Subject line so it is more specific
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>>
>>
>> Today's Topics:
>>
>> 1. Re: Cannot open PDF Vignettes on Ventura (Duncan Murdoch)
>> 2. Re: Cannot open PDF Vignettes on Ventura (Kevin Thorpe)
>> 3. Re: Cannot open PDF Vignettes on Ventura (Simon Urbanek)
>> 4. Re: Cannot open PDF Vignettes on Ventura (Kevin Thorpe)
>>
>> ----------------------------------------------------------------------
>>
>> Message: 1
>> Date: Mon, 6 Feb 2023 15:56:16 -0500
>> From: Duncan Murdoch <murdoch.dun...@gmail.com>
>> To: Kevin Thorpe <kevin.tho...@utoronto.ca>, Simon Urbanek
>> <simon.urba...@r-project.org>
>> Cc: "r-sig-mac@r-project.org" <r-sig-mac@r-project.org>
>> Subject: Re: [R-SIG-Mac] Cannot open PDF Vignettes on Ventura
>> Message-ID: <05a096f4-7590-ea0e-c7fc-a22c9fdf1...@gmail.com>
>> Content-Type: text/plain; charset="utf-8"; Format="flowed"
>>
>> On 06/02/2023 3:47 p.m., Kevin Thorpe wrote:
>>> Simon,
>>>
>>> Preview is my default viewer. In the finder window that came up I tried
>>> selecting Preview as the viewer to use and it still failed. The following
>>> errors went to the Console.
>>>
>>> 2023-02-06 15:43:55.448 R[62964:5174302] +[CATransaction synchronize]
>>> called within transaction
>>> 2023-02-06 15:43:55.568 R[62964:5174302] +[CATransaction synchronize]
>>> called within transaction
>>> 2023-02-06 15:44:03.253 R[62964:5174302] +[CATransaction synchronize]
>>> called within transaction
>>> 2023-02-06 15:44:16.012 R[62964:5174302] +[CATransaction synchronize]
>>> called within transaction
>>>
>>> Kevin
>>>
>>
>> Hi Kevin.
>>
>> If you just run `open some.pdf` in a terminal, does it open properly in
>> Preview?
>>
>> Duncan Murdoch
>>
>>
>>
>>
>> ------------------------------
>>
>> Message: 2
>> Date: Mon, 6 Feb 2023 20:58:17 +0000
>> From: Kevin Thorpe <kevin.tho...@utoronto.ca>
>> To: Duncan Murdoch <murdoch.dun...@gmail.com>
>> Cc: Simon Urbanek <simon.urba...@r-project.org>,
>> "r-sig-mac@r-project.org" <r-sig-mac@r-project.org>
>> Subject: Re: [R-SIG-Mac] Cannot open PDF Vignettes on Ventura
>> Message-ID: <4b85f1eb-a812-4cef-aa1f-d0b2023c6...@utoronto.ca>
>> Content-Type: text/plain; charset="utf-8"
>>
>> Yes, it does.
>>
>> Kevin
>>
>> --
>> Kevin E. Thorpe
>> Head of Biostatistics, Applied Health Research Centre (AHRC)
>> Li Ka Shing Knowledge Institute of St. Michael’s Hospital
>> Assistant Professor, Dalla Lana School of Public Health
>> University of Toronto
>> email: kevin.tho...@utoronto.ca Tel: 416.864.5776 Fax: 416.864.3016
>>
>>> On Feb 6, 2023, at 3:56 PM, Duncan Murdoch <murdoch.dun...@gmail.com> wrote:
>>>
>>> On 06/02/2023 3:47 p.m., Kevin Thorpe wrote:
>>>> Simon,
>>>> Preview is my default viewer. In the finder window that came up I tried
>>>> selecting Preview as the viewer to use and it still failed. The following
>>>> errors went to the Console.
>>>> 2023-02-06 15:43:55.448 R[62964:5174302] +[CATransaction synchronize]
>>>> called within transaction
>>>> 2023-02-06 15:43:55.568 R[62964:5174302] +[CATransaction synchronize]
>>>> called within transaction
>>>> 2023-02-06 15:44:03.253 R[62964:5174302] +[CATransaction synchronize]
>>>> called within transaction
>>>> 2023-02-06 15:44:16.012 R[62964:5174302] +[CATransaction synchronize]
>>>> called within transaction
>>>> Kevin
>>>
>>> Hi Kevin.
>>>
>>> If you just run `open some.pdf` in a terminal, does it open properly in
>>> Preview?
>>>
>>> Duncan Murdoch
>>
>>
>>
>> ------------------------------
>>
>> Message: 3
>> Date: Tue, 7 Feb 2023 10:58:16 +1300
>> From: Simon Urbanek <simon.urba...@r-project.org>
>> To: Kevin Thorpe <kevin.tho...@utoronto.ca>
>> Cc: Duncan Murdoch <murdoch.dun...@gmail.com>,
>> "r-sig-mac@r-project.org" <r-sig-mac@r-project.org>
>> Subject: Re: [R-SIG-Mac] Cannot open PDF Vignettes on Ventura
>> Message-ID: <def57cf1-8973-4d26-8b52-6ed142f3c...@r-project.org>
>> Content-Type: text/plain; charset="utf-8"
>>
>> Kevin,
>>
>> can you then describe in more detail what you are taking about? If you open
>> a PDF vignette in R, it simply calls "open" so it will open in Preview (as
>> that is your system viewer). And you have confirmed that it is what happens,
>> so are you taking about something else? If so, please describe every step
>> you make to reproduce whatever issue you are having.
>>
>> Thanks,
>> Simon
>>
>>
>> On Feb 7, 2023, at 9:58 AM, Kevin Thorpe <kevin.tho...@utoronto.ca> wrote:
>>>
>>> Yes, it does.
>>>
>>> Kevin
>>>
>>> --
>>> Kevin E. Thorpe
>>> Head of Biostatistics, Applied Health Research Centre (AHRC)
>>> Li Ka Shing Knowledge Institute of St. Michael’s Hospital
>>> Assistant Professor, Dalla Lana School of Public Health
>>> University of Toronto
>>> email: kevin.tho...@utoronto.ca Tel: 416.864.5776 Fax: 416.864.3016
>>>
>>>> On Feb 6, 2023, at 3:56 PM, Duncan Murdoch <murdoch.dun...@gmail.com>
>>>> wrote:
>>>>
>>>> On 06/02/2023 3:47 p.m., Kevin Thorpe wrote:
>>>>> Simon,
>>>>> Preview is my default viewer. In the finder window that came up I tried
>>>>> selecting Preview as the viewer to use and it still failed. The following
>>>>> errors went to the Console.
>>>>> 2023-02-06 15:43:55.448 R[62964:5174302] +[CATransaction synchronize]
>>>>> called within transaction
>>>>> 2023-02-06 15:43:55.568 R[62964:5174302] +[CATransaction synchronize]
>>>>> called within transaction
>>>>> 2023-02-06 15:44:03.253 R[62964:5174302] +[CATransaction synchronize]
>>>>> called within transaction
>>>>> 2023-02-06 15:44:16.012 R[62964:5174302] +[CATransaction synchronize]
>>>>> called within transaction
>>>>> Kevin
>>>>
>>>> Hi Kevin.
>>>>
>>>> If you just run `open some.pdf` in a terminal, does it open properly in
>>>> Preview?
>>>>
>>>> Duncan Murdoch
>>>
>>
>>
>>
>>
>> ------------------------------
>>
>> Message: 4
>> Date: Mon, 6 Feb 2023 23:01:19 +0000
>> From: Kevin Thorpe <kevin.tho...@utoronto.ca>
>> To: Simon Urbanek <simon.urba...@r-project.org>
>> Cc: Duncan Murdoch <murdoch.dun...@gmail.com>,
>> "r-sig-mac@r-project.org" <r-sig-mac@r-project.org>
>> Subject: Re: [R-SIG-Mac] Cannot open PDF Vignettes on Ventura
>> Message-ID: <043e8348-fc53-4bf0-977d-05633fec4...@utoronto.ca>
>> Content-Type: text/plain; charset="utf-8"
>>
>> When I try to open a PDF vignette (say a vignette from the survival
>> package)from the help system in R it does not open Preview. I cannot
>> actually open any PDF vignettes. All I get is a finder window with the error
>> I previously described. It asks me to select an appropriate viewer.
>> Selecting Preview opens nothing and more errors are thrown to the Console. I
>> could send you and Duncan screenshots off-list, since I know that theses
>> lists are picky about attachments.
>>
>> The steps I take are:
>>
>> 1. Open the R app.
>> 2. Start the Help system.
>> 3. Navigate to the survival package vignettes.
>> 4. Click the PDF link for the The survival package
>>
>> Then the errors happen.
>>
>> I will send a screenshot of the result off list.
>>
>> Kevin
>>
>> --
>> Kevin E. Thorpe
>> Head of Biostatistics, Applied Health Research Centre (AHRC)
>> Li Ka Shing Knowledge Institute of St. Michael’s Hospital
>> Assistant Professor, Dalla Lana School of Public Health
>> University of Toronto
>> email: kevin.tho...@utoronto.ca Tel: 416.864.5776 Fax: 416.864.3016
>>
>>> On Feb 6, 2023, at 4:58 PM, Simon Urbanek <simon.urba...@r-project.org>
>>> wrote:
>>>
>>> Kevin,
>>>
>>> can you then describe in more detail what you are taking about? If you open
>>> a PDF vignette in R, it simply calls "open" so it will open in Preview (as
>>> that is your system viewer). And you have confirmed that it is what
>>> happens, so are you taking about something else? If so, please describe
>>> every step you make to reproduce whatever issue you are having.
>>>
>>> Thanks,
>>> Simon
>>>
>>>
>>> On Feb 7, 2023, at 9:58 AM, Kevin Thorpe <kevin.tho...@utoronto.ca> wrote:
>>>>
>>>> Yes, it does.
>>>>
>>>> Kevin
>>>>
>>>> --
>>>> Kevin E. Thorpe
>>>> Head of Biostatistics, Applied Health Research Centre (AHRC)
>>>> Li Ka Shing Knowledge Institute of St. Michael’s Hospital
>>>> Assistant Professor, Dalla Lana School of Public Health
>>>> University of Toronto
>>>> email: kevin.tho...@utoronto.ca Tel: 416.864.5776 Fax: 416.864.3016
>>>>
>>>>> On Feb 6, 2023, at 3:56 PM, Duncan Murdoch <murdoch.dun...@gmail.com>
>>>>> wrote:
>>>>>
>>>>> On 06/02/2023 3:47 p.m., Kevin Thorpe wrote:
>>>>>> Simon,
>>>>>> Preview is my default viewer. In the finder window that came up I tried
>>>>>> selecting Preview as the viewer to use and it still failed. The
>>>>>> following errors went to the Console.
>>>>>> 2023-02-06 15:43:55.448 R[62964:5174302] +[CATransaction synchronize]
>>>>>> called within transaction
>>>>>> 2023-02-06 15:43:55.568 R[62964:5174302] +[CATransaction synchronize]
>>>>>> called within transaction
>>>>>> 2023-02-06 15:44:03.253 R[62964:5174302] +[CATransaction synchronize]
>>>>>> called within transaction
>>>>>> 2023-02-06 15:44:16.012 R[62964:5174302] +[CATransaction synchronize]
>>>>>> called within transaction
>>>>>> Kevin
>>>>>
>>>>> Hi Kevin.
>>>>>
>>>>> If you just run `open some.pdf` in a terminal, does it open properly in
>>>>> Preview?
>>>>>
>>>>> Duncan Murdoch
>>>>
>>>
>>
>>
>>
>> ------------------------------
>>
>> Subject: Digest Footer
>>
>> _______________________________________________
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>> ------------------------------
>>
>> End of R-SIG-Mac Digest, Vol 239, Issue 4
>> *****************************************
>
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