[Mesa-users] diff cannot configure

Sun Sep 23 11:40:03 EDT 2018

Hi Jing --

I think I now understand your problem. On OSX, the SDK must be installed in the /Applications directory -- otherwise it won't work. Obviously, in your case this is a problem because you're not able to write into the /Applications directory.

I'll see if I can come up with a workaround.

Best wishes,

Rich

> On Sep 23, 2018, at 10:36 AM, Jing Luan <jingluan.xw at gmail.com> wrote:
> 
> Hi Rich,
> 
> Thank you so much for your help. Below I show what I did within the same terminal window. I first set up mesasdk, then set up the path to gyre, then do 'echo $PATH', then go to $GYRE_DIR, then do 'make'. And I got some error message. All are shown below. It seems like it still tries to look for something under /Applications. Everything that I install is under /nethome/jingluan/Applications or /nethome/jingluan . Some idea on what might cause the problem please? Many thanks!
> 
> Sincerely,
> Jing
> 
> imac229:gyre-5.2 jingluan$ export MESASDK_ROOT=/nethome/jingluan/Applications/mesasdk
> imac229:gyre-5.2 jingluan$ source $MESASDK_ROOT/bin/mesasdk_init.sh
> imac229:gyre-5.2 jingluan$ export GYRE_DIR=/nethome/jingluan/gyre-5.2
> imac229:gyre-5.2 jingluan$ echo $PATH
> /nethome/jingluan/Applications/mesasdk/bin:/nethome/jingluan/Applications/mesasdk/bin:/usr/local/bin:/usr/bin:/bin:/usr/sbin:/sbin:/Library/TeX/texbin:/usr/local/MacGPG2/bin:/opt/X11/bin
> imac229:gyre-5.2 jingluan$ cd $GYRE_DIR
> imac229:gyre-5.2 jingluan$ make
> FC core_kinds.f90
> dyld: Library not loaded: /Applications/mesasdk/lib/libmpc.3.dylib
>   Referenced from: /nethome/jingluan/Applications/mesasdk/bin/../libexec/gcc/x86_64-apple-darwin17.3.0/7.2.0/f951
>   Reason: image not found
> gfortran.exec: internal compiler error: Abort trap: 6 (program f951)
> Please submit a full bug report,
> with preprocessed source if appropriate.
> See <https://gcc.gnu.org/bugs/> for instructions.
> make[2]: *** [core_kinds.o] Error 4
> 
> On Sat, Sep 22, 2018 at 9:03 PM RICHARD H D TOWNSEND <townsend at astro.wisc.edu> wrote:
> Hi Jing --
> 
> The SDK appears to be properly initialized, but then for some reason stops working when you try to compile something.
> 
> Can you try compiling GYRE straight after your echo $PATH command?
> 
> cheers,
> 
> Rich
> 
> 
> > On Sep 22, 2018, at 5:55 PM, Jing Luan <jingluan.xw at gmail.com> wrote:
> > 
> > Hi Rich,
> > 
> > Thank you so much for your help. Below is the output for 'which ndiff' and 'echo $PATH'.
> > 
> > imac229:~ jingluan$ export MESASDK_ROOT=/nethome/jingluan/Applications/mesasdk
> > imac229:~ jingluan$ source $MESASDK_ROOT/bin/mesasdk_init.sh
> > imac229:~ jingluan$ which ndiff
> > /nethome/jingluan/Applications/mesasdk/bin/ndiff
> > imac229:~ jingluan$ echo $PATH
> > /nethome/jingluan/Applications/mesasdk/bin:/usr/local/bin:/usr/bin:/bin:/usr/sbin:/sbin:/Library/TeX/texbin:/usr/local/MacGPG2/bin:/opt/X11/bin
> > 
> > I also encounter a problem when compling gyre by the following err message. I do not have root permission. Does the message mean that I shall ask our computing center to add something to /bin/sh? Thank you so much. 
> > 
> > Determining dependencies 
> > /bin/sh: fpx3_deps: command not found 
> > /bin/sh: fpx3: command not found 
> > make[2]: *** [gyre.f90] Error 127 
> > 
> > Many thanks!
> > 
> > Sincerely,
> > Jing
> > 
> > 
> > 
> > 
> > On Sat, Sep 22, 2018 at 2:41 PM RICHARD H D TOWNSEND <townsend at astro.wisc.edu> wrote:
> > Hi Jing --
> > 
> > After initializing the SDK, what happens when you type 'which ndiff"? 
> > 
> > And, can you post the output from 'echo $PATH'?
> > 
> > cheers,
> > 
> > Rich
> > 
> > > On Sep 22, 2018, at 12:34 PM, Jing Luan via Mesa-users <mesa-users at lists.mesastar.org> wrote:
> > > 
> > > Hi Francis,
> > > 
> > > Thank you so much for your quick response. Yes, I did all the required environment set-up for mesasdk and mesa. To be specific, I input the following lines in my terminal.
> > > export MESA_DIR=/nethome/jingluan/Dropbox/mesa-r10398
> > > export OMP_NUM_THREADS=4
> > > export MESASDK_ROOT=/nethome/jingluan/Applications/mesasdk
> > > source $MESASDK_ROOT/bin/mesasdk_init.sh
> > > 
> > > I get the following message after doing 'gfortran --version'. But I still get the err message in my original email when configuring ndiff. Any suggestions please? Many thanks :-)
> > > 
> > > GNU Fortran (GCC) 7.2.0
> > > Copyright (C) 2017 Free Software Foundation, Inc.
> > > This is free software; see the source for copying conditions.  There is NO
> > > warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
> > > 
> > > On Sat, Sep 22, 2018 at 1:20 PM Francis Timmes <fxt44 at mac.com> wrote:
> > > hi jing,
> > > 
> > > you may not have followed all of the installation instructions at 
> > > http://www.astro.wisc.edu/~townsend/static.php?ref=mesasdk
> > > 
> > > specifically, did you set the environment variable MESASDK_ROOT
> > > and then source $MESASDK_ROOT/bin/mesasdk_init.csh ?
> > > 
> > > if you do a 
> > > 
> > > % gfortran --version
> > > 
> > > the first line should be GNU Fortran (GCC) 7.2.0
> > > indicating the the mesasdk supplied complier is being used.
> > > 
> > > fxt
> > > 
> > > 
> > > 
> > > 
> > > 
> > > 
> > > > On Sep 22, 2018, at 10:06 AM, Jing Luan via Mesa-users <mesa-users at lists.mesastar.org> wrote:
> > > > 
> > > > Dear mesa-users:
> > > > 
> > > > I successfully install mesasdk. Then I move on to install mesa. Then I got a message asking me to install ndiff. I get the following err message when I did ./configure under the ndiff directory. Any suggestions about why might went wrong please? Many thanks. Note that I am trying to install mesa on an institute owned iMac, and I do not have administrator permission.
> > > > 
> > > > Sincerely,
> > > > Jing
> > > > 
> > > > loading cache ./config.cache
> > > > checking for gcc... gcc
> > > > checking whether the C compiler (gcc  ) works... no
> > > > configure: error: installation or configuration problem: C compiler cannot create executables.
> > > > 
> > > >  
> > > > _______________________________________________
> > > > mesa-users at lists.mesastar.org
> > > > https://lists.mesastar.org/mailman/listinfo/mesa-users
> > > > 
> > > 
> > > _______________________________________________
> > > mesa-users at lists.mesastar.org
> > > https://lists.mesastar.org/mailman/listinfo/mesa-users
> > > 
> > 
> 