[petsc-dev] Configure --with-X-dir= Using Relative Path

[Jacob Faibussowitsch]

Hello All,

I am reconfiguring an arch within a docker using the attached reconfigure script. My petsc dir is mounted via the following commands to docker -v ${PETSC_DIR}:/petsc:delegated. I am trying to use the existing arches on my native machine as the install directories for packages compiled within the docker images because SSH keys aren’t persistent in the images and hence git pull’s won’t work. I encountered this odd bug when trying —with-zlib-dir where it prepends the existing $PETSC_DIR to the directory name automatically, but this problem persists for any package. 

There is no configure.log generated since this I guess is early enough in the configure process, so unfortunately the only error output is the wall of error text from terminal. The error indicates that configure is passing ./[COMMAND LINE DIRECTORY] instead of [COMMAND LINE DIRECTORY] to configure.

$ ls ${PETSC_DIR}/master-arch-darwin-c-debug/externalpackages/
Permissions Size User Date Modified Name
drwxrwxr-x    - root  8 Jul 16:07    petsc-pkg-mumps-d1a5c931b762
drwxr-xr-x     - root  3 Jul 21:39    hdf5-1.12.0
drwxrwxr-x    - root  1 Aug 21:34  netcdf-c-4.5.0
drwxr-xr-x     - root  3 Jul 21:38    zlib-1.2.11
drwxr-xr-x     - root 29 Jul 17:43   mpich-3.3.2
drwxr-xr-x     - root  6 Jul 17:06    Chaco-2.2-p2
drwxr-xr-x     - root  1 Aug 21:36  git.ctetgen
drwxr-xr-x     - root  1 Aug 21:34  git.exodusii
drwxr-xr-x     - root  1 Aug 21:31  git.med
drwxr-xr-x     - root  1 Aug 21:31  git.metis
drwxr-xr-x     - root  1 Aug 21:31  git.parmetis
drwxr-xr-x     - root  1 Aug 21:32  git.pnetcdf
drwxr-xr-x     - root  1 Aug 21:35  git.scalapack
drwxr-xr-x     - root  1 Aug 21:31  git.sowing
drwxr-xr-x     - root  1 Aug 21:34  git.triangle

$ echo $PETSC_DIR
/petsc

$./reconfigure-arch-linux-c-debug
===============================================================================
             Configuring PETSc to compile on your system                       
===============================================================================
*******************************************************************************
    TypeError or ValueError possibly related to ERROR in COMMAND LINE ARGUMENT while running ./configure 
-------------------------------------------------------------------------------
Nonexistent directory: /petsc/${PETSC_DIR}/master-arch-darwin-c-debug/externalpackages/zlib-1.2.11 for key with-zlib-dir
*******************************************************************************


  File "/petsc/config/configure.py", line 449, in petsc_configure
    framework = config.framework.Framework(['--configModules=PETSc.Configure','--optionsModule=config.compilerOptions']+sys.argv[1:], loadArgDB = 0)
  File "/petsc/config/BuildSystem/config/framework.py", line 107, in __init__
    self.createChildren()
  File "/petsc/config/BuildSystem/config/framework.py", line 324, in createChildren
    self.getChild(moduleName)
  File "/petsc/config/BuildSystem/config/framework.py", line 309, in getChild
    config.setupDependencies(self)
  File "/petsc/config/PETSc/Configure.py", line 91, in setupDependencies
    obj = self.registerPythonFile(package,'config.packages')
  File "/petsc/config/PETSc/Configure.py", line 49, in registerPythonFile
    utilityObj                             = self.framework.require(directory+utilityName, self)
  File "/petsc/config/BuildSystem/config/framework.py", line 329, in require
    config = self.getChild(moduleName, keywordArgs)
  File "/petsc/config/BuildSystem/config/framework.py", line 309, in getChild
    config.setupDependencies(self)
  File "/petsc/config/BuildSystem/config/packages/ADIOS.py", line 17, in setupDependencies
    self.zlib           = framework.require('config.packages.zlib',self)
  File "/petsc/config/BuildSystem/config/framework.py", line 329, in require
    config = self.getChild(moduleName, keywordArgs)
  File "/petsc/config/BuildSystem/config/framework.py", line 307, in getChild
    config.setup()
  File "/petsc/config/BuildSystem/config/base.py", line 94, in setup
    script.Script.setup(self)
  File "/petsc/config/BuildSystem/script.py", line 108, in setup
    logger.Logger.setup(self)
  File "/petsc/config/BuildSystem/logger.py", line 75, in setup
    args.ArgumentProcessor.setup(self)
  File "/petsc/config/BuildSystem/args.py", line 76, in setup
    self.setupArguments(self.argDB)
  File "/petsc/config/BuildSystem/script.py", line 92, in setupArguments
    self.setupHelp(self.help)
  File "/petsc/config/BuildSystem/config/packages/zlib.py", line 16, in setupHelp
    config.package.Package.setupHelp(self, help)
  File "/petsc/config/BuildSystem/config/package.py", line 156, in setupHelp
    help.addArgument(self.PACKAGE,'-with-'+self.package+'-dir=<dir>',nargs.ArgDir(None,None,'Indicate the root directory of the '+self.name+' installation',mustExist = 1))
  File "/petsc/config/BuildSystem/help.py", line 108, in addArgument
    self.argDB.setType(self.getArgName(name), argType, forceLocal = 1)
  File "/petsc/config/BuildSystem/RDict.py", line 222, in setType
    value.setValue(v.getValue())
  File "/petsc/config/BuildSystem/nargs.py", line 325, in setValue
    raise ValueError('Nonexistent directory: '+str(value)+' for key '+str(self.key))



Best regards,

Jacob Faibussowitsch
(Jacob Fai - booss - oh - vitch)
Cell: (312) 694-3391

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