Hello,
I am trying to install deal.II (v. 9.2.0) using candi on Fedora v. 35 (a
virtual machine). I have edited the candi.cfg file to only install the
following packages: hdf5, p4est, petsc and dealii.
I installed all the packages suggested for the OS, loaded the openmpi
module, and set the compiler environment variables
However, I am getting the following error:
*Unpacking petsc-lite-3.13.1.tar.gzBuilding petsc
3.13.1===============================================================================
Configuring PETSc to compile on your system
===============================================================================TESTING:
checkCCompiler from
config.setCompilers(config/BuildSystem/config/setCompilers.py:630)
*******************************************************************************
CONFIGURATION CRASH (Please send configure.log to
petsc-ma...@mcs.anl.gov
<petsc-ma...@mcs.anl.gov>)*******************************************************************************Failure
with exit status: 1
Exit
message: petsc ./configure failed*
Here is the end of the *configure.log* file:
*Executing: mpicc -o /tmp/petsc-a93r8y8f/config.setCompilers/conftest
/tmp/petsc-a93r8y8f/config.setCompilers/conftest.o Testing executable
/tmp/petsc-a93r8y8f/config.setCompilers/conftest to see if it can be
runExecuting: /tmp/petsc-a93r8y8f/config.setCompilers/conftestRunning
Executable with threads to time it out at 60Executing:
/tmp/petsc-a93r8y8f/config.setCompilers/conftest*******************************************************************************
CONFIGURATION CRASH (Please send configure.log to
petsc-ma...@mcs.anl.gov
<petsc-ma...@mcs.anl.gov>)*******************************************************************************'InShell'
object has no attribute 'isAlive' File
"/home/mse596/dealii-candi/tmp/build/petsc-lite-3.13.1/config/configure.py",
line 440, in petsc_configure framework.configure(out = sys.stdout) File
"/home/mse596/dealii-candi/tmp/build/petsc-lite-3.13.1/config/BuildSystem/config/framework.py",
line 1229, in configure self.processChildren() File
"/home/mse596/dealii-candi/tmp/build/petsc-lite-3.13.1/config/BuildSystem/config/framework.py",
line 1218, in processChildren self.serialEvaluation(self.childGraph)
File
"/home/mse596/dealii-candi/tmp/build/petsc-lite-3.13.1/config/BuildSystem/config/framework.py",
line 1193, in serialEvaluation child.configure() File
"/home/mse596/dealii-candi/tmp/build/petsc-lite-3.13.1/config/BuildSystem/config/setCompilers.py",
line 1789, in configure self.executeTest(self.checkCCompiler) File
"/home/mse596/dealii-candi/tmp/build/petsc-lite-3.13.1/config/BuildSystem/config/base.py",
line 139, in executeTest ret = test(*args,**kargs) File
"/home/mse596/dealii-candi/tmp/build/petsc-lite-3.13.1/config/BuildSystem/config/setCompilers.py",
line 638, in checkCCompiler self.checkCompiler('C') File
"/home/mse596/dealii-candi/tmp/build/petsc-lite-3.13.1/config/BuildSystem/config/setCompilers.py",
line 504, in checkCompiler if not
self.checkRun(linkLanguage=linkLanguage): File
"/home/mse596/dealii-candi/tmp/build/petsc-lite-3.13.1/config/BuildSystem/config/base.py",
line 681, in checkRun (output, returnCode) = self.outputRun(includes,
body, cleanup, defaultArg, executor,linkLanguage=linkLanguage, timeout =
timeout, threads = threads) File
"/home/mse596/dealii-candi/tmp/build/petsc-lite-3.13.1/config/BuildSystem/config/base.py",
line 662, in outputRun (output, error, status) =
Configure.executeShellCommand(command, log = self.log, timeout = timeout,
threads = threads) File
"/home/mse596/dealii-candi/tmp/build/petsc-lite-3.13.1/config/BuildSystem/script.py",
line 200, in executeShellCommand return
Script.executeShellCommandSeq([command], checkCommand=checkCommand,
timeout=timeout, log=log, lineLimit=lineLimit, cwd=cwd,logOutputflg =
logOutputflg, threads = threads) File
"/home/mse596/dealii-candi/tmp/build/petsc-lite-3.13.1/config/BuildSystem/script.py",
line 249, in executeShellCommandSeq (output, error, status) =
runInShell(commandseq, log, cwd) File
"/home/mse596/dealii-candi/tmp/build/petsc-lite-3.13.1/config/BuildSystem/script.py",
line 239, in runInShell if
thread.isAlive():================================================================================Finishing
configure run at Mon, 17 Jan 2022 12:06:23
-0500================================================================================*
I hope someone can help.
Thank you!
David
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