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201 changes: 201 additions & 0 deletions LICENSE
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21 changes: 15 additions & 6 deletions cime_config/cam_autogen.py
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Expand Up @@ -435,22 +435,31 @@ def generate_physics_suites(build_cache, preproc_defs, host_name,
if not os.path.exists(physics_blddir):
os.makedirs(physics_blddir)
# End if
# Collect all source directories
atm_phys_src_dir = os.path.join(atm_root, "src", "physics", "ncar_ccpp")
source_search = [source_mods_dir, atm_phys_src_dir]
# Find all metadata files, organize by scheme name
# Set top-level CCPP physics directory
atm_phys_top_dir = os.path.join(atm_root, "src", "physics", "ncar_ccpp")
# Collect all possible Suite Definition File (SDF) locations
atm_suites_path = os.path.join(atm_phys_top_dir, "suites")
atm_test_suites_path = os.path.join(atm_phys_top_dir, "test", "test_suites")
suite_search = [source_mods_dir, atm_suites_path, atm_test_suites_path]
# Find all scheme metadata files, organized by scheme name
atm_schemes_path = os.path.join(atm_phys_top_dir, "schemes")
source_search = [source_mods_dir, atm_schemes_path]
all_scheme_files = _find_metadata_files(source_search, find_scheme_names)

# Find the SDFs specified for this model build
sdfs = []
scheme_files = []
xml_files = {} # key is scheme, value is xml file path
for sdf in phys_suites_str.split(';'):
sdf_path = _find_file(f"suite_{sdf}.xml", source_search)
sdf_path = _find_file(f"suite_{sdf}.xml", suite_search)
if not sdf_path:
emsg = f"ERROR: Unable to find SDF for suite '{sdf}'"
raise CamAutoGenError(emsg)
# End if
if os.path.dirname(os.path.abspath(sdf_path)) == atm_test_suites_path:
#Notify user that a test suite is being used
_LOGGER.info("Using non-standard test suite: %s", sdf)
# End if
sdfs.append(sdf_path)
# Given an SDF, find all the schemes it calls
_, suite = read_xml_file(sdf_path)
Expand Down Expand Up @@ -587,7 +596,7 @@ def generate_physics_suites(build_cache, preproc_defs, host_name,
# there to the bld directory:
if do_gen_ccpp:
# Set CCPP physics "utilities" path
atm_phys_util_dir = os.path.join(atm_phys_src_dir, "utilities")
atm_phys_util_dir = os.path.join(atm_schemes_path, "utilities")

# Check that directory exists
if not os.path.isdir(atm_phys_util_dir):
Expand Down
10 changes: 4 additions & 6 deletions cime_config/config_component.xml
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Expand Up @@ -159,12 +159,10 @@
<value compset="_CAM\d0%WX.*%SDYN">-nlev 145</value> -->

<!-- Simple models -->
<!-- <value compset="_CAM%HS94" grid="(%ne[0-9])|(%[0-9.]+x)">-analytic_ic</value>
<value compset="_CAM%ADIAB">-phys adiabatic</value>
<value compset="_CAM%DABIP04">-phys adiabatic</value>
<value compset="_CAM%TJ16">-phys tj2016 -analytic_ic</value>
<value compset="_CAM%HS94">-phys held_suarez</value>
<value compset="_CAM%KESSLER">-phys kessler -chem terminator -analytic_ic</value> -->
<!-- <value compset="_CAM%ADIAB">-phys adiabatic</value>
<value compset="_CAM%DABIP04">-phys adiabatic</value> -->
<value compset="_CAM%TJ16">--physics-suites tj2016 --analytic_ic</value>
<!-- <value compset="_CAM%KESSLER">-phys kessler -chem terminator -analytic_ic</value> -->
<value compset="_CAM%KESSLER">--physics-suites kessler --analytic_ic</value>
<value compset="_CAM%HS94">--physics-suites held_suarez_1994 --analytic_ic</value>
<value compset="_CAM%PHYSTEST">--dyn none --physics-suites adiabatic</value>
Expand Down
15 changes: 14 additions & 1 deletion cime_config/namelist_definition_cam.xml
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Expand Up @@ -333,6 +333,19 @@
</values>
</entry>

<!-- Tropopause -->
<entry id="tropopause_climo_file">
<type>char*256</type>
<category>tropopause</category>
<group>tropopause_nl</group>
<desc>
Full pathname of boundary dataset for tropopause climatology.
</desc>
<values>
<value>${DIN_LOC_ROOT}/atm/cam/chem/trop_mozart/ub/clim_p_trop.nc</value>
</values>
</entry>

<!-- Vertical Coordinate -->

<entry id="pver">
Expand Down Expand Up @@ -364,7 +377,7 @@
<group>cam_logfile_nl</group>
<valid_values>0,1,2,3</valid_values>
<desc>
Include exra checks and logging output.
Include extra checks and logging output.
0: No extra checks or output
1: Extra informational output
2: Level 1 plus extra checks and informational output
Expand Down
17 changes: 16 additions & 1 deletion src/control/cam_comp.F90
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Expand Up @@ -23,9 +23,12 @@ module cam_comp
use time_manager, only: timemgr_init, get_step_size
use time_manager, only: get_nstep
use time_manager, only: is_first_step, is_first_restart_step
use time_manager, only: get_curr_calday

use camsrfexch, only: cam_out_t, cam_in_t
use physics_types, only: phys_state, phys_tend, dtime_phys
use physics_types, only: phys_state, phys_tend
use physics_types, only: dtime_phys
use physics_types, only: calday
use dyn_comp, only: dyn_import_t, dyn_export_t

use perf_mod, only: t_barrierf, t_startf, t_stopf
Expand Down Expand Up @@ -97,6 +100,7 @@ subroutine cam_init(caseid, ctitle, model_doi_url, &
use physics_grid, only: columns_on_task
use vert_coord, only: pver
use phys_vars_init_check, only: mark_as_initialized
use tropopause_climo_read, only: tropopause_climo_read_file

! Arguments
character(len=cl), intent(in) :: caseid ! case ID
Expand Down Expand Up @@ -162,11 +166,16 @@ subroutine cam_init(caseid, ctitle, model_doi_url, &

call cam_ctrl_set_orbit(eccen, obliqr, lambm0, mvelpp)


call timemgr_init( &
dtime, calendar, start_ymd, start_tod, ref_ymd, &
ref_tod, stop_ymd, stop_tod, curr_ymd, curr_tod, &
perpetual_run, perpetual_ymd, initial_run_in)

! Get current fractional calendar day. Needs to be updated at every timestep.
calday = get_curr_calday()
call mark_as_initialized('fractional_calendar_days_on_end_of_current_timestep')

! Read CAM namelists.
filein = "atm_in" // trim(inst_suffix)
call read_namelist(filein, single_column, scmlat, scmlon)
Expand Down Expand Up @@ -223,6 +232,9 @@ subroutine cam_init(caseid, ctitle, model_doi_url, &
!!XXgoldyXX: ^ need to import this
end if

! Read tropopause climatology
call tropopause_climo_read_file()

call phys_init()

!!XXgoldyXX: v need to import this
Expand Down Expand Up @@ -267,6 +279,9 @@ subroutine cam_timestep_init()
!
call phys_timestep_init()

! Update current fractional calendar day. Needs to be updated at every timestep.
calday = get_curr_calday()

end subroutine cam_timestep_init
!
!-----------------------------------------------------------------------
Expand Down
3 changes: 3 additions & 0 deletions src/control/runtime_opts.F90
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Original file line number Diff line number Diff line change
Expand Up @@ -44,6 +44,8 @@ subroutine read_namelist(nlfilename, single_column, scmlat, scmlon)
! use cam_diagnostics, only: diag_readnl
use inic_analytic_utils, only: analytic_ic_readnl

use tropopause_climo_read, only: tropopause_climo_readnl

! use tracers, only: tracers_readnl
! use nudging, only: nudging_readnl

Expand Down Expand Up @@ -99,6 +101,7 @@ subroutine read_namelist(nlfilename, single_column, scmlat, scmlon)
! call diag_readnl(nlfilename)
! call check_energy_readnl(nlfilename)
call analytic_ic_readnl(nlfilename)
call tropopause_climo_readnl(nlfilename)
! call scam_readnl(nlfilename, single_column, scmlat, scmlon)
! call nudging_readnl(nlfilename)

Expand Down
5 changes: 3 additions & 2 deletions src/data/generate_registry_data.py
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Original file line number Diff line number Diff line change
Expand Up @@ -26,6 +26,7 @@
sys.path.append(__SPINSCRIPTS)
# end if
_ALL_STRINGS_REGEX = re.compile(r'[A-Za-z][A-Za-z_0-9]+')
_FORTRAN_NUMERIC_REGEX = re.compile(r'^[+-]?(\d+\.?\d*|\.\d+)([eE][+-]?\d+)?(_kind_phys)?$')

# CCPP framework imports
# pylint: disable=wrong-import-position
Expand Down Expand Up @@ -940,9 +941,9 @@ def add_variable(self, newvar):
all_strings = _ALL_STRINGS_REGEX.findall(newvar.initial_value)
init_val_vars = set()
excluded_initializations = {'null', 'nan', 'false', 'true'}
# Exclude NULL and nan variables
# Exclude NULL and nan variables and valid Fortran numeric values that pass the string regex (e.g. 1.e36, -3.2e5)
for var in all_strings:
if var.lower() not in excluded_initializations:
if var.lower() not in excluded_initializations and not _FORTRAN_NUMERIC_REGEX.match(newvar.initial_value):
init_val_vars.add(var)
# end if
# end if
Expand Down
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