So just a reflection, since I have updated my OS and Xcode installation, is it not strange that I seem to have downgraded my c++ compiler?
I used the exact same installation procedure before upgrading my OS without running into the "Testing C++11 support: Not present” CPPTRAJ error, so this used to work. Wonder why it stoped working,
Best regards
// Gustaf
> On 8 Oct 2018, at 10:04, Gustaf Olsson <gustaf.olsson.lnu.se> wrote:
>
> Good morning
>
> In an effort to cause myself the maximum amount of headache I decided to update my Apple machine to Mojave OS X version 10.14 realising that this would likely break several things and to the shock of no-one, it did. Using Homebrew and trying to use the parameters set by “brew” i am compiling using the Mac clang compiler and the “brew” gfortran compiler. This has worked well for a good long while now.
>
> Trying to compile I got an error regarding files missing and some other things, though I found this email in my inbox posted to the list by Andrew Schaub:
>
> I just thought I would mention this on the listserv in case anyone else has
> similar issues. When trying to install on Mojave, I was getting the
> following error message:
>
> ld: library not found for -lmc
>
> It turns out it the compiler was looking for the /usr/include folder which
> no longer exists with the most recent version of XCode Developer Tools and
> Mojave. In order to get the installation to work, just install the include
> folder from the following link instructions:
> https://developer.apple.com/documentation/xcode_release_notes/xcode_10_release_notes
>
> There is a .pkg file (
> https://developer.apple.com/documentation/xcode_release_notes/xcode_10_release_notes)
> which will install the include folder into the /usr/ folder like previous
> versions of MacOS and XCode.
>
> Afterwards I was able to get AMBER to work, using gcc5
> ./configure -macAccelerate gnu
>
> Best Regards,
>
> Andrew
>
> What this means is running:
>
> open /Library/Developer/CommandLineTools/Packages/macOS_SDK_headers_for_macOS_10.14.pkg
>
> Since the PKG is already downloaded. However, this feature will go away and needs a modification on the developer side. This did, however, not solve the compilation issues using clang! I received the following logged message from CPPTRAJ during configuration:
>
> Testing C++11 support: Not present
>
> So this did not work using the "./configure -macAccelerate clang” configuration. I then forced a switch to using the Homebrew gcc-8 version and configuring using "./configure -macAccelerate gnu”, configuration went fine but compilation broke with error:
>
> ld: symbol(s) not found for architecture x86_64
> collect2: error: ld returned 1 exit status
> make[2]: *** [/Users/guolaa/SOFTWARE/amber18//bin/sander] Error 1
> make[1]: *** [serial] Error 2
> make: *** [install] Error 2
>
> So as it is looking right now, there is no easy way to compile amber on OS X Mojave using the Homebrew package manager using either GCC or CLANG. I’ll keep trying to get a version to compile or just wait until an update of CPPTRAJ fixes the compiler issue.
>
> Best regards
> // Gustaf
>
>
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Received on Mon Oct 08 2018 - 23:00:04 PDT
