[petsc-users] Fwd: Moose install troubleshooting help

[Fande Kong]

Satish,

Do you have any suggestions for this?

Chris,

It may be helpful if you could share the petsc configuration log file with
us?



Fande,

---------- Forwarded message ---------
From: Chris Thompson <thompsoc91 at gmail.com>
Date: Tue, Dec 31, 2019 at 9:53 AM
Subject: Moose install troubleshooting help
To: moose-users <moose-users at googlegroups.com>


Dear All,
I could use some help or a pointer in the right direction.

I have been following the directions at
https://mooseframework.inl.gov/getting_started/installation/hpc_install_moose.html
All was going well until "make PETSC_DIR=$STACK_SRC/petsc-3.11.4
PETSC_ARCH=linux-opt install".  I tried running "make --debug=v
PETSC_DIR=$STACK_SRC/petsc-3.11.4 PETSC_ARCH=linux-opt install", but that
didn't produce any more helpful information.

This on a CentOS system running 7.6

Here is the error / output I am getting.

rogue /usr/local/neapps/moose/stack_temp/petsc-3.11.4 926$ make --debug=v
PETSC_DIR=/usr/local/neapps/moose/stack_temp/petsc-3.11.4
PETSC_ARCH=linux-opt install
GNU Make 3.82
Built for x86_64-redhat-linux-gnu
Copyright (C) 2010  Free Software Foundation, Inc.
License GPLv3+: GNU GPL version 3 or later <http://gnu.org/licenses/gpl.html
>
This is free software: you are free to change and redistribute it.
There is NO WARRANTY, to the extent permitted by law.
Reading makefiles...
Reading makefile `makefile'...
Reading makefile `linux-opt/lib/petsc/conf/petscvariables' (search path)
(no ~ expansion)...
Reading makefile
`/usr/local/neapps/moose/stack_temp/petsc-3.11.4/lib/petsc/conf/variables'
(search path) (no ~ expansion)...
Reading makefile
`/usr/local/neapps/moose/stack_temp/petsc-3.11.4/linux-opt/lib/petsc/conf/petscvariables'
(search path) (no ~ expansion)...
Reading makefile
`/usr/local/neapps/moose/stack_temp/petsc-3.11.4/lib/petsc/conf/rules'
(search path) (no ~ expansion)...
Reading makefile
`/usr/local/neapps/moose/stack_temp/petsc-3.11.4/linux-opt/lib/petsc/conf/petscrules'
(search path) (no ~ expansion)...
Reading makefile
`/usr/local/neapps/moose/stack_temp/petsc-3.11.4/lib/petsc/conf/test.common'
(search path) (no ~ expansion)...
Updating goal targets....
Considering target file `install'.
File `install' does not exist.
 Finished prerequisites of target file `install'.
Must remake target `install'.
Invoking recipe from makefile:250 to update target `install'.
*** Using PETSC_DIR=/usr/local/neapps/moose/stack_temp/petsc-3.11.4
PETSC_ARCH=linux-opt ***
*** Installing PETSc at prefix location:
/usr/local/neapps/moose/petsc-3.11.4  ***
Traceback (most recent call last):
  File "./config/install.py", line 434, in <module>
    Installer(sys.argv[1:]).run()
  File "./config/install.py", line 428, in run
    self.runcopy()
  File "./config/install.py", line 407, in runcopy
    self.installIncludes()
  File "./config/install.py", line 305, in installIncludes
    self.copies.extend(self.copytree(self.rootIncludeDir,
self.destIncludeDir,exclude = exclude))
  File "./config/install.py", line 246, in copytree
    raise shutil.Error(errors)
shutil.Error:
['/usr/local/neapps/moose/stack_temp/petsc-3.11.4/include/petsc',
'/usr/local/neapps/moose/petsc-3.11.4/include/petsc',
 '[\'/usr/local/neapps/moose/stack_temp/petsc-3.11.4/include/petsc/private\',
\'/usr/local/neapps/moose/petsc-3.11.4/include/petsc/private\',
 \'[\\\'/usr/local/neapps/moose/stack_temp/petsc-3.11.4/include/petsc/private/kernels\\\',
 \\\'/usr/local/neapps/moose/petsc-3.11.4/include/petsc/private/kernels\\\',
 \\\'[\\\\\\\'/usr/local/neapps/moose/stack_temp/petsc-3.11.4/include/petsc/private/kernels\\\\\\\',
 \\\\\\\'/usr/local/neapps/moose/petsc-3.11.4/include/petsc/private/kernels\\\\\\\',
 "[Errno 1] Operation not permitted:
\\\\\\\'/usr/local/neapps/moose/petsc-3.11.4/include/petsc/private/kernels\\\\\\\'"]\\\',
 \\\'/usr/local/neapps/moose/stack_temp/petsc-3.11.4/include/petsc/private\\\',
\\\'/usr/local/neapps/moose/petsc-3.11.4/include/petsc/private\\\',
 "[Errno 1] Operation not permitted:
\\\'/usr/local/neapps/moose/petsc-3.11.4/include/petsc/private\\\'"]\',
 \'/usr/local/neapps/moose/stack_temp/petsc-3.11.4/include/petsc/finclude\',
\'/usr/local/neapps/moose/petsc-3.11.4/include/petsc/finclude\',
 \'[\\\'/usr/local/neapps/moose/stack_temp/petsc-3.11.4/include/petsc/finclude\\\',
\\\'/usr/local/neapps/moose/petsc-3.11.4/include/petsc/finclude\\\',
 "[Errno 1] Operation not permitted:
\\\'/usr/local/neapps/moose/petsc-3.11.4/include/petsc/finclude\\\'"]\',
\'/usr/local/neapps/moose/stack_temp/petsc-3.11.4/include/petsc\',
 \'/usr/local/neapps/moose/petsc-3.11.4/include/petsc\', "[Errno 1]
Operation not permitted:
\'/usr/local/neapps/moose/petsc-3.11.4/include/petsc\'"]',
 '/usr/local/neapps/moose/stack_temp/petsc-3.11.4/include',
'/usr/local/neapps/moose/petsc-3.11.4/include', "[Errno 1] Operation not
permitted: '/usr/local/neapps/moose/petsc-3.11.4/include'"]
make: *** [install] Error 1

I'm not sure how to proceed with this error.

Thank you,
Chris

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