[petsc-users] How to configure PETSc with gcc-4.9

[Barry Smith]

   Leave it to run for several hours it could be that gcc-4.9 is just taking a very long time on mpich. 

   Barry

On Apr 24, 2014, at 8:35 PM, Matthew Knepley <knepley at gmail.com> wrote:

> On Thu, Apr 24, 2014 at 9:27 PM, Justin Dong <jsd1 at rice.edu> wrote:
> Hi all,
> 
> I'm trying to configure PETSc on Mac OS X with gcc-4.9. Currently, it's configured with gcc that comes with Xcode, but I want to use gcc-4.9 that I installed myself. I try:
> 
> 
> ./configure --with-cc=gcc-4.9 --with-fc=gfortran --download-f-blas-lapack --download-mpich
> 
> 
> 
> But while configuring MPICH it gets stuck indefinitely. I've included the output below after I terminate the process. I don't have this issue if I just configure with cc=gcc. Any ideas what the problem is here?
> 
> From the stack trace, its just taking a long time. If it overruns the timeout, it should just die. You can try
> running using -useThreads=0 if you suspect the timeout is not working.
> 
>    Matt
>  
> ^CTraceback (most recent call last):
> 
>   File "./configure", line 10, in <module>
> 
>     execfile(os.path.join(os.path.dirname(__file__), 'config', 'configure.py'))
> 
>   File "./config/configure.py", line 372, in <module>
> 
>     petsc_configure([])
> 
>   File "./config/configure.py", line 287, in petsc_configure
> 
>     framework.configure(out = sys.stdout)
> 
>   File "/Users/justindong/Classes/CAAMResearch/petsc-3.4.4/config/BuildSystem/config/framework.py", line 933, in configure
> 
>     child.configure()
> 
>   File "/Users/justindong/Classes/CAAMResearch/petsc-3.4.4/config/BuildSystem/config/package.py", line 558, in configure
> 
>     self.executeTest(self.configureLibrary)
> 
>   File "/Users/justindong/Classes/CAAMResearch/petsc-3.4.4/config/BuildSystem/config/base.py", line 115, in executeTest
> 
>     ret = apply(test, args,kargs)
> 
>   File "/Users/justindong/Classes/CAAMResearch/petsc-3.4.4/config/BuildSystem/config/packages/MPI.py", line 748, in configureLibrary
> 
>     config.package.Package.configureLibrary(self)
> 
>   File "/Users/justindong/Classes/CAAMResearch/petsc-3.4.4/config/BuildSystem/config/package.py", line 486, in configureLibrary
> 
>     for location, directory, lib, incl in self.generateGuesses():
> 
>   File "/Users/justindong/Classes/CAAMResearch/petsc-3.4.4/config/BuildSystem/config/package.py", line 232, in generateGuesses
> 
>     d = self.checkDownload(1)
> 
>   File "/Users/justindong/Classes/CAAMResearch/petsc-3.4.4/config/BuildSystem/config/packages/MPI.py", line 351, in checkDownload
> 
>     return config.package.Package.checkDownload(self, requireDownload)
> 
>   File "/Users/justindong/Classes/CAAMResearch/petsc-3.4.4/config/BuildSystem/config/package.py", line 340, in checkDownload
> 
>     return self.getInstallDir()
> 
>   File "/Users/justindong/Classes/CAAMResearch/petsc-3.4.4/config/BuildSystem/config/package.py", line 187, in getInstallDir
> 
>     return os.path.abspath(self.Install())
> 
>   File "/Users/justindong/Classes/CAAMResearch/petsc-3.4.4/config/BuildSystem/config/packages/MPI.py", line 366, in Install
> 
>     return self.InstallMPICH()
> 
>   File "/Users/justindong/Classes/CAAMResearch/petsc-3.4.4/config/BuildSystem/config/packages/MPI.py", line 544, in InstallMPICH
> 
>     output,err,ret  = config.base.Configure.executeShellCommand('cd '+mpichDir+' && ./configure '+args, timeout=2000, log = self.framework.log)
> 
>   File "/Users/justindong/Classes/CAAMResearch/petsc-3.4.4/config/BuildSystem/script.py", line 254, in executeShellCommand
> 
>     (output, error, status) = runInShell(command, log, cwd)
> 
>   File "/Users/justindong/Classes/CAAMResearch/petsc-3.4.4/config/BuildSystem/script.py", line 243, in runInShell
> 
>     thread.join(timeout)
> 
>   File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/threading.py", line 958, in join
> 
>     self.__block.wait(delay)
> 
>   File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/threading.py", line 358, in wait
> 
>     _sleep(delay)
> 
> 
> KeyboardInterrupt
> 
> 
> 
> 
> 
> Sincerely,
> 
> Justin
> 
> 
> 
> 
> -- 
> What most experimenters take for granted before they begin their experiments is infinitely more interesting than any results to which their experiments lead.
> -- Norbert Wiener