[R-SIG-Mac] Xcode 10.3 and header flles

[Simon Urbanek]

Ok, mystery solved: you will get the error if you override the provided CRAN flags with flags that remove the SDK. So the issue doesn't exist in released R unless you modify the flags yourself. So please don't do that - don't set CPPFLAGS or if you really have to, make sure you include at least what the released CRAN R uses:

$ R CMD config CPPFLAGS
-isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include

Cheers,
Simon


> On Jul 23, 2019, at 2:50 PM, Roy Mendelssohn - NOAA Federal via R-SIG-Mac <r-sig-mac using r-project.org> wrote:
> 
> Hi Simon:
> 
> I am using CRAN release,  recommended CRAN compilers.  Yesterday morning one updated package needed to be installed from source,  worked.  Yesterday afternoon did the update of Xcode (and OSX).  This morning installing a package update from source failed,  couldn't find header files (gee I have seen this before).  Ran the command I put below,  everybody was happy.  It does appear that the update literally deleted the headers.
> 
> HTH,
> 
> Roy
> 
> PS - not trying to build R from source,  just source updates of some packages
> 
>> On Jul 23, 2019, at 11:17 AM, Simon Urbanek <simon.urbanek using R-project.org> wrote:
>> 
>> Roy,
>> 
>> that shouldn't be necessary if you use the CRAN release since it specifically points to the SDK. If you are compiling your own R you may want to add
>> CPPFLAGS='-isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include'
>> which is what the CRAN build uses. FWIW you can always check the current flags at
>> https://svn.r-project.org/R-dev-web/trunk/QA/Simon/R-build/conf.el-capitan-x86_64
>> 
>> If the above doesn't address the issue you're seeing, please provide details.
>> 
>> Thanks,
>> Simon
>> 
>> 
>>> On Jul 23, 2019, at 12:47 PM, Roy Mendelssohn - NOAA Federal via R-SIG-Mac <r-sig-mac using r-project.org> wrote:
>>> 
>>> If like me you updated to Xcode 10.3,  in Apple's infinite wisdom the install again wipes out the header files.  So if you did the update and install from source remember to re-install the headers:
>>> 
>>>> open  /Library/Developer/CommandLineTools/Packages/macOS_SDK_headers_for_macOS_10.14.pkg
>>> 
>>> -Roy
>>> 
>>> **********************
>>> "The contents of this message do not reflect any position of the U.S. Government or NOAA."
>>> **********************
>>> Roy Mendelssohn
>>> Supervisory Operations Research Analyst
>>> NOAA/NMFS
>>> Environmental Research Division
>>> Southwest Fisheries Science Center
>>> ***Note new street address***
>>> 110 McAllister Way
>>> Santa Cruz, CA 95060
>>> Phone: (831)-420-3666
>>> Fax: (831) 420-3980
>>> e-mail: Roy.Mendelssohn using noaa.gov www: http://www.pfeg.noaa.gov/
>>> 
>>> "Old age and treachery will overcome youth and skill."
>>> "From those who have been given much, much will be expected" 
>>> "the arc of the moral universe is long, but it bends toward justice" -MLK Jr.
>>> 
>>> _______________________________________________
>>> R-SIG-Mac mailing list
>>> R-SIG-Mac using r-project.org
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>>> 
>> 
> 
> **********************
> "The contents of this message do not reflect any position of the U.S. Government or NOAA."
> **********************
> Roy Mendelssohn
> Supervisory Operations Research Analyst
> NOAA/NMFS
> Environmental Research Division
> Southwest Fisheries Science Center
> ***Note new street address***
> 110 McAllister Way
> Santa Cruz, CA 95060
> Phone: (831)-420-3666
> Fax: (831) 420-3980
> e-mail: Roy.Mendelssohn using noaa.gov www: http://www.pfeg.noaa.gov/
> 
> "Old age and treachery will overcome youth and skill."
> "From those who have been given much, much will be expected" 
> "the arc of the moral universe is long, but it bends toward justice" -MLK Jr.
> 
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