Add checks on permissions for input files at buildnml time

[bartgol]

Add checks during buildnml to ensure all input files needed by the case are readable by the current user. Here are some examples of errors when things go wrong:

• input file is not a regular file (e.g., a directory or a socket):

  File "/storage/workdir/scream/scream-src/branch/components/eamxx//cime_config/eamxx_buildnml.py", line 958, in create_input_data_list_file
    raise IsADirectoryError(f"Input file '{file_path}' is a directory, not a regular file.")
IsADirectoryError: Input file '/home/lbertag/workdir/e3sm/e3sm-data/inputdata/atm/scream/init/screami_ne4p4L72_20220823.nc' is a directory, not a regular file.

  File "/storage/workdir/scream/scream-src/branch/components/eamxx//cime_config/eamxx_buildnml.py", line 960, in create_input_data_list_file
    raise OSError(f"Input file '{file_path}' exists but is not a regular file.")
OSError: Input file '/home/lbertag/workdir/e3sm/e3sm-data/inputdata/atm/scream/init/screami_ne4p4L72_20220823.nc' exists but is not a regular file.

• input file is not readable by current user:

   File "/storage/workdir/scream/scream-src/branch/components/eamxx//cime_config/eamxx_buildnml.py", line 980, in create_input_data_list_file
    raise PermissionError ("Input file exists but it is not readable for current user\n"
PermissionError: Input file exists but it is not readable for current user
 - file name: /home/lbertag/workdir/e3sm/e3sm-data/inputdata/atm/scream/init/screami_ne4p4L72_20220823.nc
 - file owner: e3sm-jenkins
 - file group: lbertag
 - permissions: -rw-------
 - current user: lbertag
 - current user groups: ['lbertag', 'wheel', 'wg-azure-openai-web-chat-pilot-REQ', 'wg-azure-openai-web-chat-pilot', 'wg-sierrap9v100-snl-users', 'wg-trilinos-stakeholders', 'wg-cldera-sim-pathways', 'wg-haaps-users-caraway', 'wg-trilinos-cnflnc-lic', 'wg-haaps-users-weaver', 'wg-jenkins-create-son', 'wg-trilinos-documents', 'wg-1400-site-authors', 'wg-trilinos-announce', 'wg-haaps-ohpc-users', 'wg-test-large-group', 'wg-trilinos-nightly', 'wg-01446-TierBoard', 'wg-cee-srn-hw-hpws', 'wg-ent-fido2-users', 'wg-gitlab-ex-users', 'wg-sems-confluence', 'wg-sems-users-1400', 'wg-dice-customers', 'wg-e3sm-ecosystem', 'wg-sems-users-son', 'wg-sems-users-srn', 'wg-cee-hw-stdsmp', 'wg-flight-cldera', 'wg-sems-at-users', 'wg-cmdv-hommexx', 'wg-flight-users', 'wg-boca-cldera', 'wg-sandia-acme', 'wg-vpn-otp-all', 'wg-VPNwithOPT', 'wg-boca-users', 'wg-ihpc-users', 'wg-sems-users', 'wg-0144X-US', 'wg-1400-all', 'wg-trilinos', 'wg-ACESCOP', 'wg-hommexx', 'wg-CLDERA', 'wg-SC-BER', 'wg-SC-PIs', 'wg-ai4esp', 'wg-albany', 'wg-EEx', 'wg-ASCR', 'wg-ccsm']
(bartgol) lbertag@s1007989:[SMS.ne4pg2_ne4pg2.F2010-SCREAMv1.groppello_gnu.20240918_091519_ye0jmx]

Closes #3000

[bartgol]

I'm going to merge, since I already verified that things work on my workstation. If nightlies disagree with me, I'll fix in the morning.