How to install on M2 Mac?

ogawa · April 6, 2023, 6:28am

I installed Freefemv4.12 on my m2 mac and got the following error.
Are there any libraries that need to be pre-installed?

filerc : .zprofile
./Install-app.sh: line 48: 1446 Killed: 9 /Applications/FreeFem++.app/Contents/ff-$ver/bin/FreeFem++ /Applications/FreeFem++.app/Contents/ff-$ver/share/FreeFEM/$ver/examples/tutorial/Laplace.edp
Create Link of example and Doc

/Users/iberico
Error missing install missing lib ??

prj · April 6, 2023, 6:29am

You should compile from the sources: GitHub - FreeFem/FreeFem-sources: FreeFEM source code. The success rate is higher.

ogawa · April 7, 2023, 2:21am

I have tried compiling from source code.
However, the Automatic configuration part did not work.
It says to enter “autoreconf -i” but I could not figure out how to install autoconf.
Is it different from autoconf?

prj · April 7, 2023, 4:58am

If you are using Homebrew, you could use brew install automake.

ogawa · April 7, 2023, 7:13am

I was able to install automake from homebrew.
In addition, the installation was performed including PETSc.
Sudo make install has also been executed.

However, when I ran “test.edp”, I got a segmentation fault and could not calculate.

I typed “FreeFem++ test.edp” and ran it.

If there are any additional options please let me know.

prj · April 7, 2023, 11:27am

If you go into examples/hpddm and type make check, what do you get?

ogawa · April 8, 2023, 6:59am

EXAMPLE was executed.
The result was that all 106 files were SKIP.
Since this is not an error, does this mean that the installation is working correctly?

prj · April 8, 2023, 7:03am

No, they should not be skipped, they should pass. Did you properly followed all steps from README.md that I sent earlier?

ogawa · April 10, 2023, 12:32am

I understand.
What is the address to send it to?

prj · April 10, 2023, 5:46am

I’m sorry, I don’t understand your question.

ogawa · April 11, 2023, 1:49am

I’m sorry.
I want to send you the README.md file, please let me know the email address to send it to.

prj · April 11, 2023, 4:38am

I’m not sure I understand why you’d want me to send this file, it’s available on GitHub for everyone.

ogawa · April 12, 2023, 12:54am

The command was executed again from the beginning.
As a result, I ran “make check” on “examples/hpddm” and got “XFAIL” on all 106 files.

Should I erase all files and start over?
I have done up to make install, but how do I uninstall if necessary?

prj · April 12, 2023, 4:28am

Sorry for all the trouble, I think this is not specific to your machine.
For good measure, could you please try the following.

$ cd examples/tutorial
$ ../../src/nw/FreeFem++-nw Laplace.edp -v

Do you have a segmentation fault running this?
If so, could you please try to start from scratch and do the following.

$ rm -rf FreeFem-sources
$ git clone -b develop https://github.com/FreeFem/FreeFem-sources
$ cd FreeFem-sources
$ autoreconf -i
$ ./configure  --disable-optim
$ make
$ cd examples/tutorial
$ ../../src/nw/FreeFem++-nw Laplace.edp -v

If you don’t have a segmentation fault anymore, do the following.

$ cd ../../
$ cd 3rdparty/ff-petsc
$ make petsc-slepc
$ cd ../../
$ ./reconfigure
$ make
$ cd examples/hpddm
$ make check

Do you still get either XFAIL or SKIP then?

ogawa · April 12, 2023, 5:03am

An error occurred at the following location.

       UNABLE to CONFIGURE with GIVEN OPTIONS (see configure.log for details):

                              Error running make on  MMG

PETSc installation has failed.
The preceding “Laplace.edp” was executed successfully.

prj · April 12, 2023, 5:07am

Could you please rm -rf 3rdparty/ff-petsc/petsc-3* and also delete the previous ff-petsc folder (presumably in /usr/local/ if you didn’t configure with a --prefix) and try again? If it still fails, please send 3rdparty/ff-petsc/petsc-3*/configure.log).

ogawa · April 12, 2023, 5:24am

I send you the contents of “configure.log” because of the error.
The following is the result.

Executing: uname -s

stdout: Darwin

=============================================================================================

Configuring PETSc to compile on your system

=============================================================================================

================================================================================

Starting configure run at Wed, 12 Apr 2023 14:20:35 +0900

Configure Options: --configModules=PETSc.Configure --optionsModule=config.compilerOptions --prefix=/usr/local/ff-petsc/r --with-debugging=0 COPTFLAGS=“-O3 -mtune=native” CXXOPTFLAGS=“-O3 -mtune=native” FOPTFLAGS=“-O3 -mtune=native” --with-ssl=0 --with-x=0 --with-fortran-bindings=0 --with-cudac=0 --with-tau-perfstubs=0 --download-slepc --download-hpddm --download-slepc-commit=4aa7bc16b5f5adead49296eedfacc504ccc5cb71 --with-cc=/usr/local/ff-petsc/r/bin/mpicc --with-cxx=/usr/local/ff-petsc/r/bin/mpicxx --with-fc=/usr/local/ff-petsc/r/bin/mpif90 --with-scalar-type=real --with-blaslapack-include= --with-blaslapack-lib=“-framework Accelerate” --download-metis --download-ptscotch --download-hypre --download-parmetis --download-superlu --download-suitesparse --download-tetgen --download-mmg --download-parmmg --download-slepc-configure-arguments=–download-arpack --download-scalapack --download-mumps PETSC_ARCH=fr

Working directory: /Users/iberico/my_program/02_Freefem/FreeFem-sources/3rdparty/ff-petsc/petsc-3.19.0

Machine platform:

uname_result(system=‘Darwin’, node=‘ibericonoMac-mini.local’, release=‘22.4.0’, version=‘Darwin Kernel Version 22.4.0: Mon Mar 6 20:59:58 PST 2023; root:xnu-8796.101.5~3/RELEASE_ARM64_T6020’, machine=‘arm64’)

Python version:

3.9.6 (default, Mar 10 2023, 20:16:38)

[Clang 14.0.3 (clang-1403.0.22.14.1)]

================================================================================

Environmental variables

MANPATH=/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/share/man:/Library/Developer/CommandLineTools/usr/share/man:/Library/Developer/CommandLineTools/Toolchains/XcodeDefault.xctoolchain/usr/share/man:/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/share/man:/Library/Developer/CommandLineTools/usr/share/man:/Library/Developer/CommandLineTools/Toolchains/XcodeDefault.xctoolchain/usr/share/man:

TERM=xterm-256color

SHELL=/bin/sh

USER=root

SUDO_USER=iberico

SUDO_UID=501

SSH_AUTH_SOCK=/private/tmp/com.apple.launchd.2taFNXOxvG/Listeners

__CF_USER_TEXT_ENCODING=0x0:1:14

MAKELEVEL=1

MFLAGS=

MAIL=/var/mail/root

PATH=/Applications/FreeFem++.app/Contents/ff-4.12/bin:/opt/homebrew/bin:/opt/homebrew/sbin:/usr/local/bin:/System/Cryptexes/App/usr/bin:/usr/bin:/bin:/usr/sbin:/sbin:/Library/TeX/texbin:/Library/Apple/usr/bin:/var/run/com.apple.security.cryptexd/codex.system/bootstrap/usr/local/bin:/var/run/com.apple.security.cryptexd/codex.system/bootstrap/usr/bin:/var/run/com.apple.security.cryptexd/codex.system/bootstrap/usr/appleinternal/bin

PWD=/Users/iberico/my_program/02_Freefem/FreeFem-sources/3rdparty/ff-petsc/petsc-3.19.0

LANG=en_US.UTF-8

SHLVL=1

HOME=/Users/iberico

SUDO_COMMAND=/usr/bin/make petsc-slepc

LOGNAME=root

SUDO_GID=20

OLDPWD=/Users/iberico/my_program/02_Freefem/FreeFem-sources/3rdparty/ff-petsc

_=./configure

SDKROOT=/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk

CPATH=/usr/local/include

LIBRARY_PATH=/usr/local/lib

Files in path provided by default path

Warning accessing /Applications/FreeFem++.app/Contents/ff-4.12/bin gives errors: [Errno 2] No such file or directory: ‘/Applications/FreeFem++.app/Contents/ff-4.12/bin’

prj · April 12, 2023, 5:32am

You need to attach the file. But first, please, try to tidy up your machine.

Why is there a reference to /Applications/FreeFem++.app? Remove that.
Remove /Users/iberico/my_program/02_Freefem/FreeFem-sources.
Remove /usr/local/ff-petsc.

Then, restart from scratch.

$ git clone -b develop https://github.com/FreeFem/FreeFem-sources
$ cd FreeFem-sources
$ autoreconf -i
$ ./configure  --disable-optim
$ cd 3rdparty/ff-petsc
$ make petsc-slepc
$ cd ../../
$ ./reconfigure
$ make
$ cd examples/hpddm
$ make check

ogawa · April 12, 2023, 7:00am

It was as follows.
PASS: 94
SKIP: 9
XFAIL: 4

XFAIL:
stokes-fieldsplit-2d-PETSc.edp
laplace-adapt-3d-PETSc.edp
transfer.edp
helmholtz-mg-2d-PETSc-complex.edp

SKIP:
Schur-complement-PETSc.edp
distributed-parmmg.edp
laplace-adapt-dist-3d-PETSc.edp
maxwell-mg-3d-PETSc-complex.edp
helmholtz-3d-surf-PETSc-complex.edp
helmholtz-3d-line-PETSc-complex.edp
helmholtz-coupled-2d-PETSc-complex.edp
helmholtz-dense-3d-line-PETSc-complex.edp
maxwell-3d-surf-PETSc-complex.edp

prj · April 12, 2023, 7:10am

Much better! I wouldn’t worry too much about those failures.

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How to install on M2 Mac?

filerc : .zprofile ./Install-app.sh: line 48: 1446 Killed: 9 /Applications/FreeFem++.app/Contents/ff-$ver/bin/FreeFem++ /Applications/FreeFem++.app/Contents/ff-$ver/share/FreeFEM/$ver/examples/tutorial/Laplace.edp Create Link of example and Doc

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filerc : .zprofile
./Install-app.sh: line 48: 1446 Killed: 9 /Applications/FreeFem++.app/Contents/ff-$ver/bin/FreeFem++ /Applications/FreeFem++.app/Contents/ff-$ver/share/FreeFEM/$ver/examples/tutorial/Laplace.edp
Create Link of example and Doc