[Users] Thank you!

Tue Apr 13 16:37:26 CDT 2021

Hi Roland,

The toolkit is still building, but it looks like things are working
properly and I want to thank you again for your help!

As you suggested, I added a .hostname file and ran ./simfactory/bin/sim
build --clean --reconfig .  I'm past the -fopenmp issue which plagued me
for days! Thank you.

While I was trying to get around the -fopenmp problem, I edited the file
/Users/murray/Cactus/configs/sim/OptionList . I'm not sure if that file is
input or output. It's input, but it might be both. I changed the version
name (added a '_' at the end of the version string); set the compiler and
preprocessor directives to use gcc-10, etc.; and turned the OpenMP options
off.

When I did the reconfig, the options I set were retained. And it looks like
the toolkit is building properly!

I'm going to see if I can build again while turning OpenMP back on, but
I'll wait until this build is complete. It's taking a lot longer to build
than I expected (my Macbook Pro is old -- early 2015), so I won't know
until tomorrow.

Again, thanks so much!

Yours,

Murray

On Tue, Apr 13, 2021 at 11:50 AM Roland Haas <rhaas at illinois.edu> wrote:

> Hello Murray,
>
> ok. Good to hear that.
>
> My initial email was a send a bit off the cuff since I had not quite
> realized that you were already using the notebook.
>
> OSX is a bit tricky for the ET to support for the reasons that you
> outlined.
>
> When you run "./simfactory/bin/sim setup-silent" simulation factory will
> find the gcc-10 compiler and creates a set of of make options for your
> laptop (there's explicit code in simfactory to recongnize OSX). So
> running this command is essential.
>
> You should not have to adjust anything (though given that the last test
> with Catalina rather than BigSur was about a year ago that may not be
> true anymore if HomeBrew changed too much).
>
> This set of options is tied to your laptop's hostname as reported by
> "hostname -f". Unfortunately this hostname is not "stable" in the
> sense that it may change with time since it can be derived from your
> laptop's IP address obtained from the wireless network. Eg on my test
> laptop it currently reads:
>
> wirelessprvnat-172-16-210-128.near.illinois.edu
>
> So you may have to check that
>
> "./simfactory/bin/sim whoami"
>
> returns the expected machine name and run "./simfactory/bin/sim
> setup-silent" again if it reports an unknown machine.
>
> You can also create a file $HOME/.hostname and add a name that you
> would like simfactory to use for your laptop eg:
>
> echo >$HOME/.hostname "murrays-laptop"
>
> (no spaces allowed).
>
> Yours,
> Roland
>
> > Hi Roland,
> >
> > Thanks so much for your response! I've been struggling with the -fopenmp
> > issue for a couple of days now. I'll try your suggestions and let you
> know
> > if it works. It's encouraging to know that the ET works with Catalina:
> that
> > gives me hope I'll get it to work eventually.
> >
> > I'm using the notebook CactusTutorial.ipynb, and I certainly don't want
> to
> > use clang. But the Mac makes using gcc instead of clang tricky. On my
> > machine, gcc gets clang; you need to enter gcc-10 to get gcc.
> >
> > I verified that gcc (gcc-10) accepts the -fopenmp flag properly. So both
> > gcc and OpenMP seem to work properly on my machine. My problem is
> > convincing ET to use gcc instead of clang! BTW, I'm using brew. It's
> > possible that MacPorts would work better, but I think brew and MacPorts
> are
> > incompatible.
> >
> > Again, thank you and I'll let you know my progress later today.
> >
> > Yours,
> >
> > Murray
> >
> > On Tue, Apr 13, 2021 at 9:55 AM Roland Haas <rhaas at illinois.edu> wrote:
> >
> > > Hello Murray,
> > >
> > > thinking about this a bit more.
> > >
> > > The notebook currently (as of last week) lets me compile and run the ET
> > > using Homebrew (and worked on Catalina in the past).
> > >
> > > One thing to keep in mind is that the various CC/CXX and other
> > > exported env variables are only used the *first* time you attempt to
> > > build and not afterwards.
> > >
> > > You may have more luck having the options be respected by using:
> > >
> > > ./simfactory/bin/sim build --clean --reconfig
> > >
> > > which will recompile from scratch and re-run the configuration stage or
> > > even by manually removing the "configs/sim" directory completely.
> > >
> > > Did you run "simfactory/bin/sim setup-silent" before trying to compile?
> > >
> > > Yours,
> > > Roland
> > >
> > > > Hello Murray,
> > > >
> > > > clang (in particular Apple's version delivered in OSX) is not fully
> > > > supported by the ET (due to, at least historically, no OpenMP
> support,
> > > > no paired Fortran compiler).
> > > >
> > > > Please see the initial section of:
> > > >
> > > >
> https://urldefense.com/v3/__https://github.com/nds-org/jupyter-et/blob/master/CactusTutorial.ipynb__;!!DZ3fjg!vBkInm5NFkd2yeuitJ1Bdg6aPGIDCDXMQZsV-k7fG50QV1uy1SqxbWDXQTfC3_p7$
> > > >
> > > > for how to use the ET on OSX using homebrew or macports.
> > > >
> > > > If you have a Fortran compiler installed you can try disabling openmp
> > > > by setting OPENMP=no in your option list. I strongly advise
> consulting
> > > > the link I provided above and following the (tested and
> > > > verified) instructions there in particular if this is your first time
> > > > using the toolkit.
> > > >
> > > > Yours,
> > > > Roland
> > > >
> > > > > Hi All,
> > > > >
> > > > > Thanks so much for making the Einstein Toolkit software available!
> > > > >
> > > > > I'm using the CactusTutorial.ipynb that I got from your site. I'm
> > > trying to
> > > > > build ET on my 2015 Macbook Pro running OS 10.15.7.
> > > > >
> > > > > I'm stuck at the cell (after) *Building the Einstein Toolkit* .
> > > > > I modified that cell to get past issues with zlib . The cell now
> looks
> > > like:
> > > > >
> > > > > %%bash
> > > > > export ZLIB_DIR=/usr/local/opt/zlib/lib
> > > > > export LDFLAGS="-L/usr/local/opt/zlib/lib"
> > > > > export CPPFLAGS="-I/usr/local/opt/zlib/include"
> > > > > export PKG_CONFIG_PATH="/usr/local/opt/zlib/lib/pkgconfig"
> > > > > ./simfactory/bin/sim build -j2 --thornlist ../einsteintoolkit.th
> > > > >
> > > > > Running that cell eventually stops with the errors
> > > > >
> > > > > COMPILING CactusBase/CoordBase/src/Domain.c
> > > > > COMPILING
> configs/sim/bindings/build/ADMCoupling/cctk_ThornBindings.c
> > > > > clang: error: unsupported option '-fopenmp'
> > > > > make[3]: *** [Domain.c.o] Error 1
> > > > > make[2]: *** [make.checked] Error 2
> > > > > make[1]: ***
> > > [/Users/murray/Cactus/configs/sim/lib/libthorn_CoordBase.a] Error 2
> > > > > make[1]: *** Waiting for unfinished jobs....
> > > > > clang: error: unsupported option '-fopenmp'
> > > > > make[3]: *** [cctk_ThornBindings.c.o] Error 1
> > > > > make[2]: *** [cctk_Bindings/make.checked] Error 2
> > > > > make[1]: ***
> > > [/Users/murray/Cactus/configs/sim/lib/libthorn_ADMCoupling.a]
> > > > > Error 2
> > > > > make: *** [sim] Error 2
> > > > >
> > > > >
> > > > > Can you help? I'm confused by the error message coming from
> clang,
> > > since
> > > > > the ET seems to use gcc, but my attempt to force gcc, by including
> the
> > > > > exports below, made no difference:
> > > > >
> > > > > export CC=gcc-10
> > > > > export CXX=gcc-10
> > > > >
> > > > > I really appreciate any help you are able to provide!
> > > > >
> > > > > Thank you.
> > > > >
> > > > > Murray (Wolinsky)
> > > > > ______________________________________________________
> > > > >
> > > > > Additional (likely irrelevant) notes:
> > > > >
> > > > > I used brew to install the prerequisites. It seemed to have gone
> > > > > more-or-less ok.
> > > > >
> > > > > Brew did issue a somewhat concerning message regarding hdf5:
> > > > >
> > > > > ==> Pouring hdf5-1.12.0_1.catalina.bottle.1.tar.gz
> > > > >
> > > > > Warning: hdf5 dependency gcc was built with a different C++
> standard
> > > > >
> > > > > library (libstdc++ from clang). This may cause problems at runtime.
> > > > >
> > > > >
> > > > > But it didn't provide any guidance into fixing the potential
> problem.
> > > Itried
> > > > >
> > > > >
> > > > > brew reinstall hdf5
> > > > >
> > > > >
> > > > > and brew no longer complains.
> > > > >
> > > > >
> > > > > I also had some issues with the subversion installation. But I
> don't
> > > think
> > > > > they're responsible for my current problem.
> > > > >
> > > > >
> > > > > Also, when I did the step *Configuring SimFactory for your
> machine*, I
> > > got
> > > > > the output:
> > > > >
> > > > > Here we will define some necessary Simulation Factory defaults.
> > > > >
> > > > > Determining local machine name: mw-3.local
> > > > >
> > > > > --------------------SUMMARY--------------------:
> > > > >
> > > > >
> > > > > [default]
> > > > > user            = murray
> > > > > email           = murray
> > > > > allocation      = NO_ALLOCATION
> > > > >
> > > > > ------------------END SUMMARY------------------:
> > > > >
> > > > > Contents successfully written to
> > > > > /Users/murray/Cactus/repos/simfactory2/etc/defs.local.ini
> > > > >
> > > > >
> > > > > which looks OK, but the NO_ALLOCATION message seems like it might
> be
> > > of concern?
> > > >
> > > >
> > >
> > >
> > > --
> > > My email is as private as my paper mail. I therefore support encrypting
> > > and signing email messages. Get my PGP key from
> https://urldefense.com/v3/__http://pgp.mit.edu__;!!DZ3fjg!vBkInm5NFkd2yeuitJ1Bdg6aPGIDCDXMQZsV-k7fG50QV1uy1SqxbWDXQUQagYP8$
> .
> > >
>
>
> --
> My email is as private as my paper mail. I therefore support encrypting
> and signing email messages. Get my PGP key from http://pgp.mit.edu .
>
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