Cesm3.0 alpha02b

.github/workflows/fleximod_test.yaml

@@ -0,0 +1,24 @@
+on:
+  push:
+    branches: [ master ]
+  pull_request:
+    branches: [ master ]
+jobs:
+  fleximod-test:
+    runs-on: ubuntu-latest
+    strategy:
+      matrix:
+        # oldest supported and latest supported
+        python-version: ["3.7", "3.x"]
+    steps:
+      - id: checkout-CESM
+        uses: actions/checkout@v4
+      - id: run-fleximod
+        run: |
+          $GITHUB_WORKSPACE/bin/git-fleximod update
+          $GITHUB_WORKSPACE/bin/git-fleximod test
+#      - name: Setup tmate session
+#        if: ${{ failure() }}
+#        uses: mxschmitt/action-tmate@v3
+
+

.gitmodules

@@ -38,7 +38,7 @@
 	path = share
 	url = https://github.com/ESCOMP/CESM_share
 	fxDONOTUSEurl = https://github.com/ESCOMP/CESM_share
-        fxtag = share1.0.19
+        fxtag = share1.1.2
         fxrequired = ToplevelRequired
 
 [submodule "cime"]
@@ -48,13 +48,6 @@
         fxtag = cime6.0.246
         fxrequired = ToplevelRequired
 
-[submodule "mct"]
-	path = libraries/mct
-	url = https://github.com/MCSclimate/MCT
-	fxDONOTUSEurl = https://github.com/MCSclimate/MCT
-        fxrequired = ToplevelRequired
-        fxtag = MCT_2.11.0
-
 [submodule "mpi-serial"]
 	path = libraries/mpi-serial
 	url = https://github.com/ESMCI/mpi-serial
@@ -66,7 +59,7 @@
 	path = components/cam
 	url = https://www.github.com/ESCOMP/CAM
 	fxDONOTUSEurl = https://www.github.com/ESCOMP/CAM
-        fxtag = cam6_3_162
+        fxtag = cam6_4_001
         fxrequired = ToplevelRequired
 
 [submodule "ww3"]
@@ -81,7 +74,7 @@
 	url = https://github.com/ESCOMP/RTM
 	fxDONOTUSEurl = https://github.com/ESCOMP/RTM
         fxrequired = ToplevelRequired
-        fxtag = rtm1_0_79 
+        fxtag = rtm1_0_80
 
 [submodule "pysect"]
 	path = tools/statistical_ensemble_test/pyCECT
@@ -95,14 +88,14 @@
 	url = https://github.com/ESCOMP/MOSART
 	fxDONOTUSEurl = https://github.com/ESCOMP/MOSART
         fxrequired = ToplevelRequired
-        fxtag = mosart1_0_49
+        fxtag = mosart1.1.02
 
 [submodule "mizuroute"]
 	path = components/mizuroute
 	url = https://github.com/ESCOMP/mizuRoute
 	fxDONOTUSEurl = https://github.com/ESCOMP/mizuRoute
         fxrequired = ToplevelRequired
-        fxtag = cesm-coupling.n02_v2.1.2
+        fxtag = cesm-coupling.n02_v2.1.3
 
 [submodule "fms"]
 	path = libraries/FMS
@@ -123,14 +116,14 @@
 	url = https://github.com/ESCOMP/CDEPS
 	fxDONOTUSEurl = https://github.com/ESCOMP/CDEPS
         fxrequired = ToplevelRequired
-        fxtag = cdeps1.0.37
+        fxtag = cdeps1.0.43
 
 [submodule "cmeps"]
 	path = components/cmeps
 	url = https://github.com/ESCOMP/CMEPS.git
 	fxDONOTUSEurl = https://github.com/ESCOMP/CMEPS.git
         fxrequired = ToplevelRequired
-        fxtag = cmeps0.14.63
+        fxtag = cmeps1.0.0
 
 [submodule "cice"]
 	path = components/cice
@@ -143,15 +136,15 @@
 	path = components/cism
 	url = https://github.com/ESCOMP/cism-wrapper.git
 	fxDONOTUSEurl = https://github.com/ESCOMP/cism-wrapper.git
-        fxtag = cismwrap_2_2_001
+        fxtag = cismwrap_2_2_002
         fxrequired = ToplevelRequired
 
 [submodule "clm"]
 	path = components/clm
 	url = https://github.com/ESCOMP/CTSM
 	fxDONOTUSEurl = https://github.com/ESCOMP/CTSM
         fxrequired = ToplevelRequired
-        fxtag = ctsm5.2.007
+        fxtag = ctsm5.2.008
 
 [submodule "mom"]
 	path = components/mom

.lib/git-fleximod/CODE_OF_CONDUCT.md

@@ -0,0 +1,107 @@
+# Contributor Code of Conduct
+_The Contributor Code of Conduct is for participants in our software projects and community._
+
+## Our Pledge
+We, as contributors, creators, stewards, and maintainers (participants), of **git-fleximod** pledge to make participation in
+our software, system or hardware project and community a safe, productive, welcoming and inclusive experience for everyone.
+All participants are required to abide by this Code of Conduct.
+This includes respectful treatment of everyone regardless of age, body size, disability, ethnicity, gender identity or expression,
+level of experience, nationality, political affiliation, veteran status, pregnancy, genetic information, physical appearance, race,
+religion, or sexual orientation, as well as any other characteristic protected under applicable US federal or state law.
+
+## Our Standards
+Examples of behaviors that contribute to a positive environment include:
+
+* All participants are treated with respect and consideration, valuing a diversity of views and opinions
+* Be considerate, respectful, and collaborative
+* Communicate openly with respect for others, critiquing ideas rather than individuals and gracefully accepting criticism
+* Acknowledging the contributions of others
+* Avoid personal attacks directed toward other participants
+* Be mindful of your surroundings and of your fellow participants 
+* Alert UCAR staff and suppliers/vendors if you notice a dangerous situation or someone in distress
+* Respect the rules and policies of the project and venue
+
+Examples of unacceptable behavior include, but are not limited to:
+
+* Harassment, intimidation, or discrimination in any form
+* Physical, verbal, or written abuse by anyone to anyone, including repeated use of pronouns other than those requested
+* Unwelcome sexual attention or advances
+* Personal attacks directed at other guests, members, participants, etc.
+* Publishing others' private information, such as a physical or electronic address, without explicit permission
+* Alarming, intimidating, threatening, or hostile comments or conduct
+* Inappropriate use of nudity and/or sexual images 
+* Threatening or stalking anyone, including a participant
+* Other conduct which could reasonably be considered inappropriate in a professional setting
+
+## Scope
+This Code of Conduct applies to all spaces managed by the Project whether they be physical, online or face-to-face.
+This includes project code, code repository, associated web pages, documentation, mailing lists, project websites and wiki pages,
+issue tracker, meetings, telecons, events, project social media accounts, and any other forums created by the project team which the
+community uses for communication.
+In addition, violations of this Code of Conduct outside these spaces may affect a person's ability to participate within them.
+Representation of a project may be further defined and clarified by project maintainers.
+
+## Community Responsibilities
+Everyone in the community is empowered to respond to people who are showing unacceptable behavior.
+They can talk to them privately or publicly.
+Anyone requested to stop unacceptable behavior is expected to comply immediately.
+If the behavior continues concerns may be brought to the project administrators or to any other party listed in the
+[Reporting](#reporting) section below.
+
+## Project Administrator Responsibilities
+Project administrators are responsible for clarifying the standards of acceptable behavior and are encouraged to model appropriate
+behavior and provide support when people in the community point out inappropriate behavior.
+Project administrator(s) are normally the ones that would be tasked to carry out the actions in the [Consequences](#consequences)
+section below.
+
+Project administrators are also expected to keep this Code of Conduct updated with the main one housed at UCAR, as listed below in
+the [Attribution](#attribution) section.
+
+## Reporting
+Instances of unacceptable behavior can be brought to the attention of the project administrator(s) who may take any action as
+outlined in the [Consequences](#consequences) section below.
+However, making a report to a project administrator is not considered an 'official report' to UCAR. 
+
+Instances of unacceptable behavior may also be reported directly to UCAR pursuant to [UCAR's Harassment Reporting and Complaint
+Procedure](https://www2.fin.ucar.edu/procedures/hr/harassment-reporting-and-complaint-procedure), or anonymously through [UCAR's
+EthicsPoint Hotline](https://www2.fin.ucar.edu/ethics/anonymous-reporting).
+
+Complaints received by UCAR will be handled pursuant to the procedures outlined in UCAR's Harassment Reporting and Complaint
+Procedure.
+Complaints to UCAR will be held as confidential as practicable under the circumstances, and retaliation against a person who
+initiates a complaint or an inquiry about inappropriate behavior will not be tolerated.
+
+Any Contributor can use these reporting methods even if they are not directly affiliated with UCAR.
+The Frequently Asked Questions (FAQ) page for reporting is [here](https://www2.fin.ucar.edu/procedures/hr/reporting-faqs).
+
+## Consequences
+Upon receipt of a complaint, the project administrator(s) may take any action deemed necessary and appropriate under the
+circumstances.
+Such action can include things such as: removing, editing, or rejecting comments, commits, code, wiki edits, email, issues, and
+other contributions that are not aligned to this Code of Conduct, or banning temporarily or permanently any contributor for other
+behaviors that are deemed inappropriate, threatening, offensive, or harmful.
+Project administrators also have the right to report violations to UCAR HR and/or UCAR's Office of Diversity, Equity and Inclusion
+(ODEI), as well as a participant's home institution and/or law enforcement.
+In the event an incident is reported to UCAR, UCAR will follow its Harassment Reporting and Complaint Procedure.
+
+## Process for Changes
+All UCAR managed projects are required to adopt this Contributor Code of Conduct.
+Adoption is assumed even if not expressly stated in the repository.
+Projects should fill in sections where prompted with project-specific information, including, project name and adoption date.
+
+Projects that adopt this Code of Conduct need to stay up to date with UCAR's Contributor Code of Conduct, linked with a DOI in the
+[Attribution](#attribution) section below.
+Projects can make limited substantive changes to the Code of Conduct, however, the changes must be limited in scope and may not
+contradict the UCAR Contributor Code of Conduct.
+
+## Attribution
+This Code of Conduct was originally adapted from the [Contributor Covenant](http://contributor-covenant.org/version/1/4), version
+1.4.
+We then aligned it with the UCAR Participant Code of Conduct, which also borrows from the American Geophysical Union (AGU) Code of
+Conduct.
+The UCAR Participant Code of Conduct applies to both UCAR employees as well as participants in activities run by UCAR.
+The original version of this for all software projects that have strong management from UCAR or UCAR staff is available on the UCAR
+website at https://doi.org/10.5065/6w2c-a132.
+The date that it was adopted by this project was **Feb/13/2018**.
+When responding to complaints, UCAR HR and ODEI will do so based on the latest published version.
+Therefore, any project-specific changes should follow the [Process for Changes](#process-for-changes) section above.

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

@@ -2,7 +2,7 @@
 import argparse
 from git_fleximod import utils
 
-__version__ = "0.7.8"
+__version__ = "0.7.9"
 
 def find_root_dir(filename=".gitmodules"):
     """ finds the highest directory in tree

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

@@ -547,7 +547,7 @@ def submodules_test(gitmodules, root_dir):
     # and that sparse checkout files exist
     for name in gitmodules.sections():
         url = gitmodules.get(name, "url")
-        fxurl = gitmodules.get(name, "fxDONOTMODIFYurl")
+        fxurl = gitmodules.get(name, "fxDONOTUSEurl")
         fxsparse = gitmodules.get(name, "fxsparse")
         path = gitmodules.get(name, "path")
         fxurl = fxurl[:-4] if fxurl.endswith(".git") else fxurl