Jacob,
Since the reconfigure scripts are python you'll need to use python
variables to access environmental variables like os.environ['PETSC_DIR']
Barry
> On Aug 2, 2020, at 1:57 PM, Jacob Faibussowitsch <[email protected]> wrote:
>
> 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))
>
>
> <reconfigure-arch-linux-c-debug.py>
>
> Best regards,
>
> Jacob Faibussowitsch
> (Jacob Fai - booss - oh - vitch)
> Cell: (312) 694-3391
>
