merged to head of cam_development

.github/workflows/fleximod_test.yaml

@@ -4,6 +4,7 @@ jobs:
   fleximod-test:
     runs-on: ubuntu-latest
     strategy:
+      fail-fast: false
       matrix:
         # oldest supported and latest supported
         python-version: ["3.7", "3.x"]
@@ -13,9 +14,16 @@ jobs:
       - id: run-fleximod
         run: |
           $GITHUB_WORKSPACE/bin/git-fleximod update
+          echo
+          echo "Update complete, checking status"
+          echo
           $GITHUB_WORKSPACE/bin/git-fleximod test
+      - id: check-cleanliness
+        run: |
+          echo
+          echo "Checking if git fleximod matches expected externals"
+          echo
+          git diff --exit-code
 #      - name: Setup tmate session
 #        if: ${{ failure() }}
 #        uses: mxschmitt/action-tmate@v3
-
-

.gitmodules

@@ -36,7 +36,7 @@
 [submodule "atmos_phys"]
 	path = src/atmos_phys
 	url = https://github.com/ESCOMP/atmospheric_physics
-        fxtag = atmos_phys0_07_001
+        fxtag = atmos_phys0_09_000
         fxrequired = AlwaysRequired
 	fxDONOTUSEurl = https://github.com/ESCOMP/atmospheric_physics
 
@@ -116,49 +116,49 @@
 [submodule "cism"]
 path = components/cism
 url = https://github.com/ESCOMP/CISM-wrapper
-fxtag = cismwrap_2_2_002
+fxtag = cismwrap_2_2_005
 fxrequired = ToplevelRequired
 fxDONOTUSEurl = https://github.com/ESCOMP/CISM-wrapper
 
 [submodule "rtm"]
 path = components/rtm
 url = https://github.com/ESCOMP/RTM
-fxtag = rtm1_0_80
+fxtag = rtm1_0_84
 fxrequired = ToplevelRequired
 fxDONOTUSEurl = https://github.com/ESCOMP/RTM
 
 [submodule "mosart"]
 path = components/mosart
 url = https://github.com/ESCOMP/MOSART
-fxtag = mosart1.1.02
+fxtag = mosart1.1.07
 fxrequired = ToplevelRequired
 fxDONOTUSEurl = https://github.com/ESCOMP/MOSART
 
 [submodule "mizuRoute"]
 path = components/mizuRoute
 url = https://github.com/ESCOMP/mizuRoute
-fxtag = cesm-coupling.n02_v2.1.3
+fxtag = cesm-coupling.n03_v2.2.0
 fxrequired = ToplevelRequired
 fxDONOTUSEurl = https://github.com/ESCOMP/mizuRoute
 
 [submodule "ccs_config"]
 path = ccs_config
 url = https://github.com/ESMCI/ccs_config_cesm.git
-fxtag = ccs_config_cesm1.0.8
+fxtag = ccs_config_cesm1.0.21 
 fxrequired = ToplevelRequired
 fxDONOTUSEurl = https://github.com/ESMCI/ccs_config_cesm.git
 
 [submodule "cime"]
 path = cime
 url = https://github.com/ESMCI/cime
-fxtag = cime6.1.56
+fxtag = cime6.1.58
 fxrequired = ToplevelRequired
 fxDONOTUSEurl = https://github.com/ESMCI/cime
 
 [submodule "cmeps"]
 path = components/cmeps
 url = https://github.com/ESCOMP/CMEPS.git
-fxtag = cmeps1.0.32
+fxtag = cmeps1.0.33
 fxrequired = ToplevelRequired
 fxDONOTUSEurl = https://github.com/ESCOMP/CMEPS.git
 
@@ -172,7 +172,7 @@ fxDONOTUSEurl = https://github.com/ESCOMP/CDEPS.git
 [submodule "share"]
 path = share
 url = https://github.com/ESCOMP/CESM_share
-fxtag = share1.1.6
+fxtag = share1.1.9
 fxrequired = ToplevelRequired
 fxDONOTUSEurl = https://github.com/ESCOMP/CESM_share
 
@@ -186,14 +186,14 @@ fxDONOTUSEurl = https://github.com/NCAR/ParallelIO
 [submodule "cice"]
 path = components/cice
 url = https://github.com/ESCOMP/CESM_CICE
-fxtag = cesm_cice6_5_0_12
+fxtag = cesm3_cice6_6_0_6
 fxrequired = ToplevelRequired
 fxDONOTUSEurl = https://github.com/ESCOMP/CESM_CICE
 
 [submodule "clm"]
 path = components/clm
 url = https://github.com/ESCOMP/CTSM
-fxtag = ctsm5.3.016
+fxtag = ctsm5.3.017
 fxrequired = ToplevelRequired
 fxDONOTUSEurl = https://github.com/ESCOMP/CTSM
 
@@ -203,3 +203,11 @@ url = https://github.com/ESCOMP/FMS_interface
 fxtag = fi_240828
 fxrequired = ToplevelRequired
 fxDONOTUSEurl = https://github.com/ESCOMP/FMS_interface
+
+[submodule "tools/CUPiD"]
+path = tools/CUPiD
+url = https://github.com/NCAR/CUPiD.git
+fxtag = v0.1.4
+fxrequired = ToplevelRequired
+fxDONOTUSEurl = https://github.com/NCAR/CUPiD.git
+

.lib/git-fleximod/git_fleximod/cli.py

@@ -2,7 +2,7 @@
 import argparse
 from git_fleximod import utils
 
-__version__ = "0.9.3"
+__version__ = "0.9.4"
 
 def find_root_dir(filename=".gitmodules"):
     """ finds the highest directory in tree

.lib/git-fleximod/git_fleximod/git_fleximod.py

@@ -181,6 +181,8 @@ def init_submodule_from_gitmodules(gitmodules, name, root_dir, logger):
     url = gitmodules.get(name, "url")
     assert path and url, f"Malformed .gitmodules file {path} {url}"
     tag = gitmodules.get(name, "fxtag")
+    if not tag:
+        tag = gitmodules.get(name, "hash")
     fxurl = gitmodules.get(name, "fxDONOTUSEurl")
     fxsparse = gitmodules.get(name, "fxsparse")
     fxrequired = gitmodules.get(name, "fxrequired")
@@ -250,7 +252,6 @@ def submodules_update(gitmodules, root_dir, requiredlist, force):
                 newrequiredlist = ["AlwaysRequired"]
                 if optional:
                     newrequiredlist.append("AlwaysOptional")
-
                 submodules_update(gitsubmodules, repodir, newrequiredlist, force=force)
 
 def local_mods_output():

.lib/git-fleximod/pyproject.toml

@@ -1,6 +1,6 @@
 [tool.poetry]
 name = "git-fleximod"
-version = "0.9.3"
+version = "0.9.4"
 description = "Extended support for git-submodule and git-sparse-checkout"
 authors = ["Jim Edwards <[email protected]>"]
 maintainers = ["Jim Edwards <[email protected]>"]

.lib/git-fleximod/tbump.toml

@@ -2,7 +2,7 @@
 github_url = "https://github.com/jedwards4b/git-fleximod/"
 
 [version]
-current = "0.9.3"
+current = "0.9.4"
 
 # Example of a semver regexp.
 # Make sure this matches current_version before