Updates from ESCOMP/CAM

Incorporate updates from NCAR between cam6_3_158 and cam6_4_041.
Update protected files with selected changes from NCAR
Convert from manage_externals to git-fleximod

.gitmodules

@@ -1,96 +1,164 @@
-[submodule "chem_proc"]
-	path = chem_proc
-	url = https://github.com/ESCOMP/CHEM_PREPROCESSOR.git
+# This is a git submodule file with additional support for
+# git-fleximod (https://github.com/ESMCI/git-fleximod)
+#
+# The additional flags supported by git-fleximod are
+# fxtag - the tag associated with the submodule, this tag can be tested for
+#         consistancy with the submodule hash using git-fleximod status
+#         the hash can be updated to the tag using git-fleximod update
+#
+# fxrequired - indicates if a given submodule should be checked out on install
+#              submoudules can be toplevel or internal and required or optional
+#              toplevel means that the submodule should only be checked out if the
+#              module is the toplevel of the git repo (is not a submodule itself)
+#              internal means that the submodule is needed by the component whether
+#              the component is toplevel or the submodule of another repo
+#              required means that the submodule should always be checked out
+#              optional means that the submodule should only be checked out if the
+#              optional flag is provided to git-fleximod or the submodule name is
+#              explicitly listed on the git-fleximod command line.
+#
+# fxsparse -   this is a path to a git sparse checkout file indicating that the
+#              submodule should be checked out in sparse mode
+#
+# fxDONOTUSEurl    -   this field is used by git-fleximod test to insure that the url is pointing
+#              to the official url of the repo and not to an unofficial fork.
+#              It is intended for use of github workflows to test commits to protected
+#              repository branches.
+#
+
+#-----------------------------
+# Required CAM externals
+#-----------------------------
+
+[submodule "atmos_phys"]
+	path = src/atmos_phys
+	url = https://github.com/ESCOMP/atmospheric_physics
+	fxtag = atmos_phys0_06_009
+	fxrequired = AlwaysRequired
+	fxDONOTUSEurl = https://github.com/ESCOMP/atmospheric_physics
+
+[submodule "camnor_phys"]
+	path = src/physics/camnor_phys
+	url = https://github.com/NorESMhub/CAM-Nor-physics
+	fxtag = camnor_noresm_v0.0.5
         fxrequired = AlwaysRequired
-        fxtag = chem_proc5_0_06
-	fxDONOTUSEurl = https://github.com/ESCOMP/CHEM_PREPROCESSOR.git
+        fxDONOTUSEurl = https://github.com/CAM-Nor-physics.git
 
 [submodule "carma"]
 	path = src/physics/carma/base
 	url = https://github.com/ESCOMP/CARMA_base.git
-        fxrequired = AlwaysRequired
-        fxtag = carma4_01
-        fxDONOTUSEurl = https://github.com/ESCOMP/CARMA_base.git
+	fxtag = carma4_01
+	fxrequired = AlwaysRequired
+	fxDONOTUSEurl = https://github.com/ESCOMP/CARMA_base.git
+
+[submodule "chem_proc"]
+	path = chem_proc
+	url = https://github.com/ESCOMP/CHEM_PREPROCESSOR.git
+	fxtag = chem_proc5_0_06
+	fxrequired = AlwaysRequired
+	fxDONOTUSEurl = https://github.com/ESCOMP/CHEM_PREPROCESSOR.git
+
+[submodule "clubb"]
+	path = src/physics/clubb
+	url = https://github.com/larson-group/clubb_release
+	fxtag = clubb_4ncar_20240605_73d60f6_gpufixes_posinf
+	fxsparse = ../.clubb_sparse_checkout
+	fxrequired = AlwaysRequired
+	fxDONOTUSEurl = https://github.com/larson-group/clubb_release
+
+[submodule "cosp2"]
+	path = src/physics/cosp2/src
+	url = https://github.com/CFMIP/COSPv2.0
+	fxtag = v2.1.4cesm
+	fxsparse = ../.cosp_sparse_checkout
+	fxrequired = AlwaysRequired
+	fxDONOTUSEurl = https://github.com/CFMIP/COSPv2.0
+
+[submodule "hemco"]
+	path = src/hemco
+	url = https://github.com/ESCOMP/HEMCO_CESM.git
+	fxtag = hemco-cesm2_0_hemco3_9_0
+	fxrequired = AlwaysRequired
+	fxDONOTUSEurl = https://github.com/ESCOMP/HEMCO_CESM.git
+
+[submodule "oslo_aero"]
+	path = src/chemistry/oslo_aero
+	url = https://github.com/NorESMhub/OSLO_AERO
+	fxtag = noresm_oslo_aero_v3
+	fxrequired = AlwaysRequired
+	fxDONOTUSEurl = https://github.com/NorESMhub/OSLO_AERO.git
 
 [submodule "pumas"]
 	path = src/physics/pumas
 	url = https://github.com/ESCOMP/PUMAS
-        fxrequired = AlwaysRequired
-        fxtag = pumas_cam-release_v1.36
-        fxDONOTUSEurl = https://github.com/ESCOMP/PUMAS
+	fxtag = pumas_cam-release_v1.36
+	fxrequired = AlwaysRequired
+	fxDONOTUSEurl = https://github.com/ESCOMP/PUMAS
 
 [submodule "pumas-frozen"]
 	path = src/physics/pumas-frozen
 	url = https://github.com/ESCOMP/PUMAS
-        fxrequired = AlwaysRequired
-        fxtag = pumas_cam-release_v1.17_rename
-        fxDONOTUSEurl = https://github.com/ESCOMP/PUMAS
+	fxtag = pumas_cam-release_v1.17_rename
+	fxrequired = AlwaysRequired
+	fxDONOTUSEurl = https://github.com/ESCOMP/PUMAS
+
+[submodule "rrtmgp-data"]
+	path = src/physics/rrtmgp/data
+	url = https://github.com/earth-system-radiation/rrtmgp-data.git
+	fxtag = v1.8
+	fxrequired = AlwaysRequired
+	fxDONOTUSEurl = https://github.com/earth-system-radiation/rrtmgp-data.git
+
+[submodule "rte-rrtmgp"]
+	path = src/physics/rrtmgp/ext
+	url = https://github.com/earth-system-radiation/rte-rrtmgp.git
+	fxtag = v1.7
+	fxrequired = AlwaysRequired
+	fxDONOTUSEurl = https://github.com/earth-system-radiation/rte-rrtmgp.git
+
+#-----------------------------
+# Optional CAM externals
+#-----------------------------
 
 [submodule "ali_arms"]
 	path = src/physics/ali_arms
 	url = https://github.com/ESCOMP/ALI-ARMS
-        fxrequired = AlwaysOptional
-        fxtag = ALI_ARMS_v1.0.1
-        fxDONOTUSEurl = https://github.com/ESCOMP/ALI-ARMS
+	fxtag = ALI_ARMS_v1.0.1
+	fxrequired = AlwaysOptional
+	fxDONOTUSEurl = https://github.com/ESCOMP/ALI-ARMS
 
-[submodule "atmos_phys"]
-	path = src/atmos_phys
-	url = https://github.com/ESCOMP/atmospheric_physics
-        fxtag = atmos_phys0_02_006
-        fxrequired = AlwaysRequired
-	fxDONOTUSEurl = https://github.com/ESCOMP/atmospheric_physics
+[submodule "cloud_j"]
+	path = src/chemistry/cloud_j
+	url = https://github.com/geoschem/cloud-j.git
+	fxtag = 7.7.3
+	fxrequired = AlwaysOptional
+	fxDONOTUSEurl = https://github.com/geoschem/cloud-j.git
 
 [submodule "geoschem"]
 	path = src/chemistry/geoschem/geoschem_src
 	url = https://github.com/geoschem/geos-chem.git
-        fxrequired = AlwaysOptional
-        fxtag = 14.1.2
-        fxDONOTUSEurl = https://github.com/geoschem/geos-chem.git
-
-[submodule "hemco"]
-	path = src/hemco
-	url = https://github.com/ESCOMP/HEMCO_CESM.git
-        fxtag = hemco-cesm1_2_1_hemco3_6_3_cesm_rme
-        fxrequired = AlwaysRequired
-	fxDONOTUSEurl = https://github.com/ESCOMP/HEMCO_CESM.git
-
-[submodule "rte-rrtmgp"]
-	path = src/physics/rrtmgp/ext
-	url = https://github.com/earth-system-radiation/rte-rrtmgp.git
-        fxrequired = AlwaysRequired
-        fxtag = v1.7
-        fxDONOTUSEurl = https://github.com/earth-system-radiation/rte-rrtmgp.git
+	fxtag = 14.4.3
+	fxrequired = AlwaysOptional
+	fxDONOTUSEurl = https://github.com/geoschem/geos-chem.git
 
-[submodule "rrtmgp-data"]
-	path = src/physics/rrtmgp/data
-	url = https://github.com/earth-system-radiation/rrtmgp-data.git
-        fxrequired = AlwaysRequired
-        fxtag = v1.8
-        fxDONOTUSEurl = https://github.com/earth-system-radiation/rrtmgp-data.git
+[submodule "hetp"]
+	path = src/chemistry/hetp
+	url = https://github.com/geoschem/heterogeneous-vectorized-or-parallel.git
+	fxtag = geoschem_hetp_1.0
+	fxrequired = AlwaysOptional
+	fxDONOTUSEurl = https://github.com/geoschem/heterogeneous-vectorized-or-parallel.git
 
 [submodule "mpas"]
 	path = src/dynamics/mpas/dycore
 	url = https://github.com/MPAS-Dev/MPAS-Model.git
-        fxrequired = AlwaysOptional
-        fxsparse = ../.mpas_sparse_checkout
-        fxtag = b8c33daa
+	fxtag = v8.2.1
+	fxsparse = ../.mpas_sparse_checkout
+	fxrequired = AlwaysOptional
 	fxDONOTUSEurl = https://github.com/MPAS-Dev/MPAS-Model.git
 
-[submodule "cosp2"]
-	path = src/physics/cosp2/src
-	url = https://github.com/CFMIP/COSPv2.0
-        fxrequired = AlwaysRequired
-        fxsparse = ../.cosp_sparse_checkout
-        fxtag = v2.1.4cesm
-	fxDONOTUSEurl = https://github.com/CFMIP/COSPv2.0
-
-[submodule "clubb"]
-	path = src/physics/clubb
-	url = https://github.com/larson-group/clubb_release
-        fxrequired = AlwaysRequired
-        fxsparse = ../.clubb_sparse_checkout
-        fxtag = clubb_4ncar_20231115_5406350
-        fxDONOTUSEurl = https://github.com/larson-group/clubb_release
+#-----------------------------
+# CESM libraries
+#-----------------------------
 
 [submodule "parallelio"]
 path = libraries/parallelio
@@ -149,7 +217,7 @@ fxDONOTUSEurl = https://github.com/ESCOMP/CDEPS.git
 [submodule "cice6"]
 path = components/cice
 url = https://github.com/NorESMhub/NorESM_CICE
-fxtag = cesm_cice6_5_0_20240702_noresm_v1
+fxtag = cesm_cice6_5_0_20240702_noresm_v2
 fxrequired = ToplevelRequired
 fxDONOTUSEurl = https://github.com/NorESMhub/NorESM_CICE
 
@@ -180,4 +248,3 @@ url = https://github.com/ESCOMP/MOSART
 fxtag = mosart1.1.02
 fxrequired = ToplevelRequired
 fxDONOTUSEurl = https://github.com/ESCOMP/MOSART
-