[Mesa-users] diff cannot configure

[Jing Luan]

Hi Rich,

Today I asked our computing technician, and she permitted me to install
mesasdk under /Applications. So now both MESA and GYRE have been
successfully installed. Thank you so much for figuring out the problem!

Sincerely,
Jing

On Sun, Sep 23, 2018 at 11:44 AM Jing Luan <jingluan.xw at gmail.com> wrote:

> Hi Rich,
>
> Thank you so so much!
>
> Sincerely,
> Jing
>
> On Sun, Sep 23, 2018 at 11:40 AM RICHARD H D TOWNSEND <
> townsend at astro.wisc.edu> wrote:
>
>> 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
>> > > >
>> > >
>> >
>>
>>
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