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OF 1.9 (aka OF 2.1) on Mac OS X

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Old   August 23, 2012, 11:58
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  #101
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Quote:
Originally Posted by gpeng View Post
I did every steps before building the openfoam, but the compiling job has been running for the whole day and still not finish....is that normal?
Depends on your machine .... Is it still "moving" (occasional messages of the compiler) and is still using CPU?
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Old   August 24, 2012, 09:23
Default Mountain Lion 10.8
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Thanks once again Bernhard for the patches. (Almost) everything works like a charm on Mountain Lion 10.8.

For some reason however, I don't see Gcc46 being used while compiling openmpi-1.5.3 (and later on, ptscotch and the gang, and ultimately Pstream). Maybe it was something I did (applied both gcc42/46 patches), but I kept getting this a lot:

Code:
+ Pstream/Allwmake
+ wmake libso dummy
+ case "$WM_MPLIB" in
+ set +x
make[2]: mpicc: No such file or directory
In file included from PstreamGlobals.C:26:0:
PstreamGlobals.H:39:17: fatal error: mpi.h: No such file or directoryUOPwrite.C:29:17: fatal error: mpi.h: No such file or directory

compilation terminated.
compilation terminated.
UIPread.C:29:17: fatal error: mpi.h: No such file or directory
compilation terminated.
UPstream.C:26:17: fatal error: mpi.h: No such file or directory
compilation terminated.
make: *** [Make/darwinIntel64GccDPOptOPENMPI/UPstream.o] Error 1
make: *** Waiting for unfinished jobs....
make: *** [Make/darwinIntel64GccDPOptOPENMPI/PstreamGlobals.o] Error 1
make: *** [Make/darwinIntel64GccDPOptOPENMPI/UIPread.o] Error 1
make: *** [Make/darwinIntel64GccDPOptOPENMPI/UOPwrite.o] Error 1
For those who get this (remember there is no system MPICC from the days of OS X 10.7), it can be worked around by manually doing a configure/make/make install within the openmpi-1.5.3 folder, make sure you copy the configure arguments from the ThirdParty Allwmake script. This time for me the configure script picked up gcc-mp-46. I also removed the --disable-mpi-cxx for something else (did that do it? )

For reference, I did not do anything with gcc_select or port select gcc or the like. Clean slate.

Anyway, the only things that fail to build are multiphaseEulerFoam and R (utilities/postProcessing/turbulence), guessing due to a change in the sourcecode after the patches were released.
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Old   August 25, 2012, 05:46
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Greetings to all!

Quote:
Originally Posted by sushant View Post
For some reason however, I don't see Gcc46 being used while compiling openmpi-1.5.3 (and later on, ptscotch and the gang, and ultimately Pstream).
Did you add this to the end of OpenFOAM's "etc/bashrc"?
Code:
export WM_CC='gcc-mp-4.6'
export WM_CXX='g++-mp-4.6'
This was on step #3 in at http://openfoamwiki.net/index.php/Ho...hes_and_tweaks

And mpicc is missing apparently because Open-MPI wasn't built properly You can confirm by running these commands:
  • Check if mpicc exists:
    Code:
    which mpicc
  • Check if any binary exists where Open-MPI is meant to be installed:
    Code:
    ls -l $MPI_ARCH_PATH
  • Check where mpirun is located:
    Code:
    which mpirun

Best regards,
Bruno
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Old   August 25, 2012, 08:54
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Quote:
Originally Posted by gschaider View Post
Depends on your machine .... Is it still "moving" (occasional messages of the compiler) and is still using CPU?
Yeah, it was and I waited for like 24hrs lol anyway, it's all good now...but another problem arises, I don't know how to edit the file ~/.alias, could you please explain in detail?

Is it just typing ~/.alias in the terminal? I tried but nothing happened..

Thanks again for helping.
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Old   August 25, 2012, 16:08
Wink Help
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Hi and greetings to all

This thread has been great and helped with a lot of the errors I have faced but I have now been going round in circles for over a week.

I am pretty new to Unix and could do with some pointers in the right direction.

The errors I am seeing are like the following

gcc=mp-4.6 -O3 -DCOMMON_FILE_COMPRESS_GZ -DCOMMON_RANDOM_FIXED_SEED -DSCOTCH_RENAME -DSCOTCH_RENAME_PARSER -Drestrict=__restrict -DSCOTCH_VERSION=5 -DSCOTCH_RELEASE=1 -DSCOTCH_PATCHLEVEL=10 dummysizes.c -o dummysizes -lz -lm -lrt

mpicc -O3 -DCOMMON_FILE_COMPRESS_GZ -DCOMMON_RANDOM_FIXED_SEED -DSCOTCH_RENAME -DSCOTCH_RENAME_PARSER -Drestrict=__restrict -DSCOTCH_PTSCOTCH -DSCOTCH_VERSION=5 -DSCOTCH_RELEASE=1 -DSCOTCH_PATCHLEVEL=10 dummysizes.c -o dummysizes -lz -lm -lrt
Cannot open configuration file /Users/davidyoung/OpenFOAM/ThirdParty-2.1.0/platforms/darwinIntel64Gcc46/openmpi-1.5.3/share/openmpi/mpicc-wrapper-data.txt
Error parsing data file mpicc: Not found

Log file attached. Any

Any help would be appreciated
Attached Files
File Type: gz make.log.tar.gz (6.1 KB, 3 views)
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Old   August 26, 2012, 07:20
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@gpeng:
Quote:
Originally Posted by gpeng View Post
Yeah, it was and I waited for like 24hrs lol anyway, it's all good now...but another problem arises, I don't know how to edit the file ~/.alias, could you please explain in detail?
I've updated this section: http://openfoamwiki.net/index.php/Ho...using_ParaView
Quote:
Edit the file ~/.alias (e. g. Text Wrangler, pico or nano) and add the following two lines:
Code:
alias paraview="/Applications/ParaView\ 3.14.0-RC2.app/Contents/MacOS/paraview"
alias parax="touch case.foam && paraview --data=case.foam &"
Note: Adapt the first line to the real path of your ParaView installation!
Underlined is the example I've copy-pasted from a previous occurrence in that wiki page.




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@discodave:
Quote:
Originally Posted by discodave View Post
This thread has been great and helped with a lot of the errors I have faced but I have now been going round in circles for over a week.

I am pretty new to Unix and could do with some pointers in the right direction.

The errors I am seeing are like the following

gcc=mp-4.6 -O3 -DCOMMON_FILE_COMPRESS_GZ -DCOMMON_RANDOM_FIXED_SEED -DSCOTCH_RENAME -DSCOTCH_RENAME_PARSER -Drestrict=__restrict -DSCOTCH_VERSION=5 -DSCOTCH_RELEASE=1 -DSCOTCH_PATCHLEVEL=10 dummysizes.c -o dummysizes -lz -lm -lrt
Edit the file "OpenFOAM-2.1.0/etc/bashrc" and check if you have these two lines:
Code:
export WM_CC='gcc-mp-4.6'
export WM_CXX='g++-mp-4.6'
Because according to the output you've got, it looks like you have this instead:
Code:
export WM_CC='mp-4.6'
export WM_CXX='mp-4.6'
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Old   August 26, 2012, 17:51
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Quote:
Originally Posted by discodave View Post
Hi and greetings to all

This thread has been great and helped with a lot of the errors I have faced but I have now been going round in circles for over a week.

I am pretty new to Unix and could do with some pointers in the right direction.

The errors I am seeing are like the following

gcc=mp-4.6 -O3 -DCOMMON_FILE_COMPRESS_GZ -DCOMMON_RANDOM_FIXED_SEED -DSCOTCH_RENAME -DSCOTCH_RENAME_PARSER -Drestrict=__restrict -DSCOTCH_VERSION=5 -DSCOTCH_RELEASE=1 -DSCOTCH_PATCHLEVEL=10 dummysizes.c -o dummysizes -lz -lm -lrt

mpicc -O3 -DCOMMON_FILE_COMPRESS_GZ -DCOMMON_RANDOM_FIXED_SEED -DSCOTCH_RENAME -DSCOTCH_RENAME_PARSER -Drestrict=__restrict -DSCOTCH_PTSCOTCH -DSCOTCH_VERSION=5 -DSCOTCH_RELEASE=1 -DSCOTCH_PATCHLEVEL=10 dummysizes.c -o dummysizes -lz -lm -lrt
Cannot open configuration file /Users/davidyoung/OpenFOAM/ThirdParty-2.1.0/platforms/darwinIntel64Gcc46/openmpi-1.5.3/share/openmpi/mpicc-wrapper-data.txt
Error parsing data file mpicc: Not found

Log file attached. Any

Any help would be appreciated
You're using a selfcompiled version of OpenMPI (the one in ThirdParty) right? Seems like that one is faulty. Try running mpicc on its own on some regular C-source and see what the problem is.

Can't reproduce the problem myself as I'm using the openmpi from MacPorts
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Old   August 27, 2012, 11:17
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Thanks Bernard,

I had an error in the bashrc but I have corrected this and still see the same errors.

I will try your suggestion and let you know how I get on.

Thank you for your support


David
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Old   August 29, 2012, 17:05
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Hello,

I just uploaded the disk image (dmg file) of OpenFOAM-2.1.0 compiled on my macbookpro running lion (os 10.7).
Maybe someone having difficulty to compile or want to save some time can just use it.

http://bit.ly/QzxHFG

I think after mounting the disk image, one can try to source the bashrc and run the foamInstallationTest to see if it works on your mac.
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Old   September 9, 2012, 11:53
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For future reference and to complement qzt's post, I think the following instructions should help people use this image (personally I haven't tested them ):
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Old   September 19, 2012, 13:31
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Is it still necessary to install these patches when installing OF 2.1.1 on a Mac 10.6.8?
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Old   September 19, 2012, 16:26
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Bernhard / Bruno,

Sorry for the delay in getting back to you.

After trying many things and still failing and getting errors I installed mountain lion, latest version of Xcode and started again.

I am happy to say following all the instruction on this thread I now have a functional version of OpenFOAM.

Thank you for your help.
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Old   September 19, 2012, 16:30
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Quote:
Originally Posted by BCD View Post
Is it still necessary to install these patches when installing OF 2.1.1 on a Mac 10.6.8?
I'd think so. Yes (unless Mac support crept into the official release). They basically fix issues where headers are located differently on the Mac, the completely different dynamic linker and the completely different ABI (to allow tracebacks)
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Old   September 24, 2012, 02:19
Default blockMesh but no icoFOAM
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So, I've tried compiling a few times now with increasing success but something is still eluding me.
I can run blockMesh on a copy of a tutorial case but the icoFOAM command is not found.
Does any of this make you laugh?
Thanks.

here's what I've done so far:

Running Mac 10.6.8
OpenFOAM 2.1.1
ThirdParty 2.1.1
gcc4.2.1
Open MPI 1.5.3

I've edited the patch name to
ThirdParty-2.1.1-Mac.patch
and deleted the seven lines at the end preceding the
\ No newline at end of file
and applied it within the ThirdParty-2.1.1 directory

And applied these within the OpenFOAM-2.1.1 directory
OpenFOAM-2.1.x-Mac.patch
OpenFOAM-2.1.x-Mac-gcc46.patch

and finally I've edited the OpenFOAM-2.1.1>etc>bashrc file with:
export WM_COMPILER=Gcc46
ulimit -n 1024
export WM_NCOMPPROCS=2
and
just before the #-------- end of File
added
export WM_CC='gcc-mp-4.6'
export WM_CXX='g++-mp-4.6'
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Old   September 24, 2012, 10:13
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Did you check if gcc 4.6 is visible?
Code:
which gcc-mp-4.6
which g++-mp-4.6
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Old   September 24, 2012, 10:23
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Thanks Bruno,

from the prompt I get:

$ which gcc-mp-4.6
/opt/local/bin/gcc-mp-4.6


and


$ which g++-mp-4.6
/opt/local/bin/g++-mp-4.6


does this help?
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Old   September 24, 2012, 10:37
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Mmm... OK, so my hunch wasn't correct

OK, then I suggest following the instructions from section "2.6.1 Diagnosing problems ": http://openfoamwiki.net/index.php/Ho...osing_problems
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Old   September 24, 2012, 11:42
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here are some of the first error messages, which I read often hold the clues we need:

mkdir /Users/User7/OpenFOAM/ThirdParty-2.1.1/platforms/darwinIntel64Gcc46/scotch_5.1.11/include/openmpi-1.5.3
cp -f ../bin/[agm]* /Users/User7/OpenFOAM/ThirdParty-2.1.1/platforms/darwinIntel64Gcc46/scotch_5.1.11/bin
cp: ../bin/[agm]*: No such file or directory
make: [install] Error 1 (ignored)


Undefined symbols for architecture x86_64:
"Foam::incompressible::turbulenceModel::typeNa me", referenced from:
Foam::calc(Foam::argList const&, Foam::Time const&, Foam::fvMesh const&) in R.o
ld: symbol(s) not found for architecture x86_64
collect2: ld returned 1 exit status
make[3]: *** [/Users/User7/OpenFOAM/OpenFOAM-2.1.1/platforms/darwinIntel64Gcc46DPOpt/bin/R] Error 1
make[2]: *** [R] Error 2
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Old   September 24, 2012, 11:47
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See post #87: OF 1.9 (aka OF 2.1) on Mac OS X
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Old   September 24, 2012, 12:06
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Thanks Bruno,
I really appreciate your wisdom & tenacity here.

wmake failed, here's the log,
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