On Thu, Jan 2, 2020 at 6:31 PM Fande Kong <fdkong...@gmail.com> wrote:
> > 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 <thompso...@gmail.com> > Date: Tue, Dec 31, 2019 at 9:53 AM > Subject: Moose install troubleshooting help > To: moose-users <moose-us...@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. > It looks like you do not have permissions in the install directory. You may want to run the install command using 'sudo'. Thanks, Matt > Thank you, > Chris > > -- > You received this message because you are subscribed to the Google Groups > "moose-users" group. > To unsubscribe from this group and stop receiving emails from it, send an > email to moose-users+unsubscr...@googlegroups.com. > To view this discussion on the web visit > https://groups.google.com/d/msgid/moose-users/d7c11fe1-f6aa-4b5f-8746-9ea7bc93de87%40googlegroups.com > <https://groups.google.com/d/msgid/moose-users/d7c11fe1-f6aa-4b5f-8746-9ea7bc93de87%40googlegroups.com?utm_medium=email&utm_source=footer> > . > -- 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 https://www.cse.buffalo.edu/~knepley/ <http://www.cse.buffalo.edu/~knepley/>
