> On 7/07/2023, at 10:15 AM, Spencer Graves <spencer.gra...@prodsyse.com> wrote:
>
> Hi, Simon:
>
>
> Thanks for this. I have more questions:
>
>
> On 7/6/23 4:52 PM, Simon Urbanek wrote:
>> In the shell:
>> PATH=/opt/gfortran/bin:$PATH R CMD INSTALL ...
>
>
> Please excuse my ignorance, but I don't understand this. I
> previously tried "PATH=/bin:/sbin:/user/bin:/user/sbin:/system/Library/
> export PATH", recommended on a page associated with support.apple.com, as
> mentioned below. That did not seem to work for me.
>
That one sets the specified fixed path and then exports it. Setting a fixed
PATH by hand is typically a bad idea since it removes all existing entries -
and the one you listed didn't even have gfortran on it. Exporting is another
alternative if you want to set the PATH for all subsequent commands.
The line I sent just prepends the /opt/gfortran/bin to the PATH for the one R
CMD command, but doesn't affect anything else. I would recommend reading a
basic tutorial on unix shell if you really want to know more (actually a good
idea if you ever want to use the Terminal and not kill your machine).
> How is this different? What did I do wrong before that this would
> fix? [Or feel free to ignore this question: My immediate problem seems to
> be fixed, and I'm not eager to do more experimentation with this now ;-]
>
>> in R if using install.packages()
>> Sys.setenv(PATH=paste0("/opt/gfortran/bin:", Sys.getenv("PATH")))
>
>
> If I set this in RStudio, will it affect what I do in "Terminal" on
> my Mac and vice versa?
>
No, it is only valid for the current R session (and I don't know about RStudio
- it's not R so sometimes R rules don't apply), that's why I said it's for the
case where you run install.packages() in the R session.
Note that another alternative is to simply symlink gfortran to your
/usr/local/bin since that is on the PATH on macOS by default, i.e., you only
need to run this in the Terminal once (requires admin access):
sudo ln -sfn /opt/gfortran/bin/gfortran /usr/local/bin/gfortran
Cheers,
Simon
>
> This looks like a potentially similar thing to do from what I did. Is
> the effect of this different? If so, how? [Again, please feel free to ignore
> this question. I'm not eager to practice my "do-it-myself lobotomy" skills
> ;-]
>
>
> Thanks,
> Spencer Graves>
>>> On Jul 7, 2023, at 5:58 AM, Spencer Graves <spencer.gra...@prodsyse.com>
>>> wrote:
>>>
>>> 1. I need to apologize to Simon: I failed to see his reply to the
>>> original post. Then I found the instructions and installed
>>> gfortran-12.2-universal.pkg, as indicated there, but it still didn't work.
>>>
>>>
>>> 2. I'm not finding clear instructions on how to update the path on macOS
>>> 11.7.8, which is the latest version available for my 2014 MacBook Pro with
>>> a 2.8 GHz Quad-Core Intel Core i7. I found several pages with differing
>>> instructions. I found one in "support.apple.com" that recommended
>>> something that didn't work.[2]
>>>
>>>
>>> Further suggestions?
>>>
>>>
>>> Thanks again very much.
>>> Spencer Graves
>>>
>>>
>>> [2] "support.apple.com" recommended
>>> "PATH=/bin:/sbin:/user/bin:/user/sbin:/system/Library/ export PATH", then
>>> "env". I did "env" to get the current path, than appended
>>> ":/opt/gfortran/bin" to that and executed the revised
>>> "PATH=...:/opt/gfortran/bin export PATH". However, when I checked with
>>> "env" again, the change was not displayed. I rebooted with the same result.
>>>
>>>
>>> https://support.apple.com/guide/terminal/use-environment-variables-apd382cc5fa-4f58-4449-b20a-41c53c006f8f/mac
>>>
>>>
>>> On 7/6/23 11:01 AM, Simon Urbanek wrote:
>>>> AFACT he didn't say so, there was no response, just double-posting of the
>>>> same question after is was answered.
>>>> The installer says:
>>>> The resulting compiler will live in /opt/gfortran and can be called with
>>>> /opt/gfortran/bin/gfortran
>>>> so it's advisable to have /opt/gfortran/bin on the PATH.
>>>> (Side note: the arm64 build of R uses the full path, but some people have
>>>> been objecting to that since they wanted to use other compilers for the
>>>> legacy Intel builds, but as I suspected that causes other issues, so I'll
>>>> change that for the next release).
>>>> Cheers,
>>>> Simon
>>>>> On Jul 6, 2023, at 11:45 PM, Peter Dalgaard <pda...@gmail.com
>>>>> <mailto:pda...@gmail.com>> wrote:
>>>>>
>>>>> AFAICT, Spencer followed the implied instructions and it still didn't
>>>>> work.
>>>>>
>>>>> There may also be a PATH issue when upgrading to 4.3.x, /usr/local ->
>>>>> /opt/R/<arch> Does gfortran 12.2 install to /opt/R/.../bin ?
>>>>>
>>>>> -pd
>>>>>
>>>>>> On 6 Jul 2023, at 07:42 , Simon Urbanek <simon.urba...@r-project.org
>>>>>> <mailto:simon.urba...@r-project.org>> wrote:
>>>>>>
>>>>>> Already answered to you and on R-pkg-devel [9 mins after you posted
>>>>>> there - now more than 5h ago...]:
>>>>>>
>>>>>> To quote from the page you downloaded R from:
>>>>>>
>>>>>> This release uses Xcode 14.2/14.3 and GNU Fortran 12.2. If you wish to
>>>>>> compile R packages which contain Fortran code, you may need to download
>>>>>> the corresponding GNU Fortran compiler from
>>>>>> https://mac.R-project.org/tools <https://mac.R-project.org/tools>
>>>>>> <https://mac.r-project.org/tools <https://mac.r-project.org/tools>>.
>>>>>>
>>>>>>
>>>>>>
>>>>>>> On Jul 6, 2023, at 5:16 PM, Spencer Graves <spencer.gra...@prodsyse.com
>>>>>>> <mailto:spencer.gra...@prodsyse.com>> wrote:
>>>>>>>
>>>>>>> Hello, All:
>>>>>>>
>>>>>>>
>>>>>>> "R CMD check KFAS" under macOS 11.7.8 (the latest version that will
>>>>>>> run on my aging Mac) complains "gfortran: command not found".
>>>>>>>
>>>>>>>
>>>>>>> I just upgraded to R 4.3.1 and installed "gfortran-12.2-universal.pkg"
>>>>>>> per "https://cran.r-project.org/bin/macosx/tools/
>>>>>>> <https://cran.r-project.org/bin/macosx/tools/>". I expected this to
>>>>>>> solve the problem. It didn't.
>>>>>>>
>>>>>>>
>>>>>>> Suggestions?
>>>>>>> Thanks,
>>>>>>> Spencer Graves
>>>>>>>
>>>>>>>
>>>>>>> p.s. This is my fork of KFAS, available at
>>>>>>> "https://github.com/sbgraves237/KFAS
>>>>>>> <https://github.com/sbgraves237/KFAS>". "sessionInfo()" appears below.
>>>>>>>
>>>>>>>
>>>>>>> ##########
>>>>>>>
>>>>>>>
>>>>>>> sessionInfo()
>>>>>>> R version 4.3.1 (2023-06-16)
>>>>>>> Platform: x86_64-apple-darwin20 (64-bit)
>>>>>>> Running under: macOS Big Sur 11.7.8
>>>>>>>
>>>>>>> Matrix products: default
>>>>>>> BLAS:
>>>>>>> /System/Library/Frameworks/Accelerate.framework/Versions/A/Frameworks/vecLib.framework/Versions/A/libBLAS.dylib
>>>>>>> LAPACK:
>>>>>>> /Library/Frameworks/R.framework/Versions/4.3-x86_64/Resources/lib/libRlapack.dylib;
>>>>>>> LAPACK version 3.11.0
>>>>>>>
>>>>>>> locale:
>>>>>>> [1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8
>>>>>>>
>>>>>>> time zone: America/Chicago
>>>>>>> tzcode source: internal
>>>>>>>
>>>>>>> attached base packages:
>>>>>>> [1] stats graphics grDevices utils datasets methods base
>>>>>>>
>>>>>>> loaded via a namespace (and not attached):
>>>>>>> [1] compiler_4.3.1 R6_2.5.1 magrittr_2.0.3 cli_3.6.1
>>>>>>> [5] tools_4.3.1 glue_1.6.2 rstudioapi_0.14 roxygen2_7.2.3
>>>>>>> [9] xml2_1.3.4 vctrs_0.6.2 stringi_1.7.12 knitr_1.42
>>>>>>> [13] xfun_0.39 stringr_1.5.0 lifecycle_1.0.3 rlang_1.1.1
>>>>>>> [17] purrr_1.0.1
>>>>>>>>
>>>>>>>
>>>>>>> _______________________________________________
>>>>>>> R-SIG-Mac mailing list
>>>>>>> R-SIG-Mac@r-project.org <mailto:R-SIG-Mac@r-project.org>
>>>>>>> https://stat.ethz.ch/mailman/listinfo/r-sig-mac
>>>>>>>
>>>>>>
>>>>>>
>>>>>> [[alternative HTML version deleted]]
>>>>>>
>>>>>> _______________________________________________
>>>>>> R-SIG-Mac mailing list
>>>>>> R-SIG-Mac@r-project.org <mailto:R-SIG-Mac@r-project.org>
>>>>>> https://stat.ethz.ch/mailman/listinfo/r-sig-mac
>>>>>
>>>>> --
>>>>> Peter Dalgaard, Professor,
>>>>> Center for Statistics, Copenhagen Business School
>>>>> Solbjerg Plads 3, 2000 Frederiksberg, Denmark
>>>>> Phone: (+45)38153501
>>>>> Office: A 4.23
>>>>> Email: pd....@cbs.dk <mailto:pd....@cbs.dk> Priv: pda...@gmail.com
>>>>> <mailto:pda...@gmail.com>
>>>>>
>>>
>
_______________________________________________
R-SIG-Mac mailing list
R-SIG-Mac@r-project.org
https://stat.ethz.ch/mailman/listinfo/r-sig-mac
