[firedrake] Problem with installing FireDrake on cluster

[Cynthia Cornelius]

Greetings,

  I'm trying to install Firedrake software on our cluster.  I cannot use sudo nor apt-get.  We have several users who would love to run this software on the cluster.  Any suggestions that you may have will be most welcome.

Here are the error messages on the screen:
Depending on your platform, PETSc may take an hour or more to build!
Traceback (most recent call last):
  File "firedrake-install", line 1568, in <module>
    install("petsc/")
  File "firedrake-install", line 833, in install
    build_and_install_petsc()
  File "firedrake-install", line 959, in build_and_install_petsc
    check_call([python, "./configure", "PETSC_DIR={}".format(petsc_dir), "PETSC_ARCH={}".format(petsc_arch)] + list(petsc_
options))
  File "firedrake-install", line 614, in check_call
    log.debug(subprocess.check_output(arguments, stderr=subprocess.STDOUT, env=os.environ).decode())
  File "/util/academic/firedrake/20210310-basic/anaconda3/lib/python3.8/subprocess.py", line 411, in check_output
    return run(*popenargs, stdout=PIPE, timeout=timeout, check=True,
  File "/util/academic/firedrake/20210310-basic/anaconda3/lib/python3.8/subprocess.py", line 512, in run
    raise CalledProcessError(retcode, process.args,
subprocess.CalledProcessError: Command '['/util/academic/firedrake/20210310-basic/firedrake/bin/python', './configure', 'P
ETSC_DIR=/util/academic/firedrake/20210310-basic/firedrake/src/petsc', 'PETSC_ARCH=default', '--with-cxx-dialect=C++11', '
--download-hwloc', '--with-shared-libraries=1', '--download-mumps', '--download-netcdf', '--download-scalapack', '--downlo
ad-ptscotch', '--download-hypre', '--download-hdf5', '--download-ml', '--with-c2html=0', '--download-superlu_dist', '--wit
h-debugging=0', '--download-pastix', '--download-metis', '--download-suitesparse', '--download-pnetcdf', '--with-zlib', '-
-with-fortran-bindings=0', '--download-eigen=/util/academic/firedrake/20210310-basic/firedrake/src/eigen-3.3.3.tgz ', '--d
ownload-chaco', '--download-mpich']' returned non-zero exit status 1.
Install log saved in /util/academic/firedrake/20210310-basic/firedrake-install.log


Here are the error messages from the firedrake-install.log:
make[2]: Leaving directory `/util/academic/firedrake/20210310-basic/firedrake/src/petsc/default/externalpackages/git.ptscotc
h/src/libscotch'
make[1]: Leaving directory `/util/academic/firedrake/20210310-basic/firedrake/src/petsc/default/externalpackages/git.ptscotc
h/src/libscotch'In file included from /usr/include/sys/wait.h:30:0,
                 from common.h:130,
                 from common_string.c:57:
/petsc'
2021-03-10 13:37:20,781 DEBUG  New path '/util/academic/firedrake/20210310-basic/firedrake/src'
2021-03-10 13:37:20,791 INFO
Install log saved in /util/academic/firedrake/20210310-basic/firedrake-install.log

Details of the environment for the build:
cmake/3.17.1

Anaconda Python 3.8
[cdc at vortex2:/util/academic/firedrake/20210310-basic]$ python
Python 3.8.5 (default, Sep  4 2020, 07:30:14)
[GCC 7.3.0] :: Anaconda, Inc. on linux
Type "help", "copyright", "credits" or "license" for more information.
>>> quit()

[cdc at vortex2:/util/academic/firedrake/20210310-basic]$ which gcc
/usr/bin/gcc
[cdc at vortex2:/util/academic/firedrake/20210310-basic]$ gcc --version
gcc (GCC) 4.8.5 20150623 (Red Hat 4.8.5-44)

[cdc at vortex2:/util/academic/firedrake/20210310-basic]$ cat /etc/redhat-release
CentOS Linux release 7.9.2009 (Core)
[cdc at vortex2:/util/academic/firedrake/20210310-basic]$ uname -a
Linux srv-p22-13.cbls.ccr.buffalo.edu 3.10.0-1160.15.2.el7.x86_64 #1 SMP Wed Feb 3 15:06:38 UTC 2021 x86_64 x86_64 x86_64 GN
U/Linux

[cdc at vortex2:/util/academic/firedrake/20210310-basic]$ rpm -qf /usr/include/sys/wait.h
glibc-headers-2.17-323.el7_9.x86_64

Best regards,
  Cynthia

Cynthia Cornelius
HPC Systems Analyst
Center for Computational Research
University at Buffalo
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