Thanks to James Joseph Balamuta and Eberhard W. Lisse. I
followed the 2-step procedure outlined by Balamuta, and it fixed the
problem for all but the jpeg package. I will write the maintainer of
that package. (The one-step would probably have worked, but I didn't
try it.)
Thanks again,
Spencer Graves
On 2019-10-29 16:12, Balamuta, James Joseph wrote:
Greetings and Salutations,
Note that Xcode Command Line Tools is not the same as Xcode IDE. In fact, only
Xcode CLI Tools are required, which are light-weight compared to the IDE.
Regarding your error, this is symptomatic of an Xcode update tied to an OS
point-release. Note in the session information 10.15.1 (the .1 being the bump)
R version 3.6.1 (2019-07-05)
Platform: x86_64-apple-darwin15.6.0 (64-bit)
Running under: macOS Catalina 10.15.1
Both of the commands highlighted are accurate. Though, the order should be
changed to:
sudo xcode-select --reset
sudo xcode-select --install
The reset changes back to using the default command line tools path. This was
needed for Mojave.
Sincerely,
JJB
On 10/29/19, 4:01 PM, "R-SIG-Mac on behalf of Spencer Graves"
<r-sig-mac-boun...@r-project.org on behalf of spencer.gra...@prodsyse.com> wrote:
Hello, All:
"update.packages()" fails for me on packages DescTools, digest,
jpeg, mgcv, openxlsx, rlang, and spam. It first says:
There are binary versions available but the
source versions are later:
binary source needs_compilation
DescTools 0.99.29 0.99.30 TRUE
digest 0.6.21 0.6.22 TRUE
jpeg 0.1-8 0.1-8.1 TRUE
mgcv 1.8-29 1.8-30 TRUE
openxlsx 4.1.0.1 4.1.2 TRUE
rlang 0.4.0 0.4.1 TRUE
spam 2.3-0 2.3-0.2 TRUE
It then asks, "Do you want to install from sources the packages
which need compilation? (Yes/no/cancel)". I reply "y" or "Yes". For
each package, it says it was
... successfully unpacked and MD5 sums checked
** using staged installation
** libs
xcrun: error: invalid active developer path
(/Library/Developer/CommandLineTools), missing xcrun at:
/Library/Developer/CommandLineTools/usr/bin/xcrun
ERROR: compilation failed for package ‘DescTools’
* removing
‘/Library/Frameworks/R.framework/Versions/3.6/Resources/library/DescTools’
* restoring previous
‘/Library/Frameworks/R.framework/Versions/3.6/Resources/library/DescTools’
A web search for "xcrun: error: invalid active developer path"
identified a couple of discussions on StackExchange that say that I need
to have Xcode installed correctly. I think I have everything up to
date: macOS 10.15.1 Catalina with Xcode downloaded and installed via
the App store. RStudio 1.2.5001 with:
sessionInfo()
R version 3.6.1 (2019-07-05)
Platform: x86_64-apple-darwin15.6.0 (64-bit)
Running under: macOS Catalina 10.15.1
Matrix products: default
BLAS:
/System/Library/Frameworks/Accelerate.framework/Versions/A/Frameworks/vecLib.framework/Versions/A/libBLAS.dylib
LAPACK:
/Library/Frameworks/R.framework/Versions/3.6/Resources/lib/libRlapack.dylib
locale:
[1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8
attached base packages:
[1] stats graphics grDevices utils datasets
[6] methods base
loaded via a namespace (and not attached):
[1] compiler_3.6.1 tools_3.6.1
"https://apple.stackexchange.com/questions/254380/why-am-i-getting-an-invalid-active-developer-path-when-attempting-to-use-git-a";
recommends, "xcode-select --install", which to me seems like it should
be equivalent to the install I just did via the App Store. This
StackExchange discussion also said, "If the above alone doesn't do it,
then also run: xcode-select --reset". However, before I do that, I
thought I'd ask here if anyone else is having a problem like this. And
if yes, and if they've fixed it, what did they do to fix it?
Thanks,
Spencer Graves
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