update git-fleximod to 0.9.3

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

@@ -2,27 +2,31 @@
 import argparse
 from git_fleximod import utils
 
-__version__ = "0.9.2"
+__version__ = "0.9.3"
 
 def find_root_dir(filename=".gitmodules"):
     """ finds the highest directory in tree
     which contains a file called filename """
-    d = Path.cwd()
-    root = Path(d.root)
-    dirlist = []
-    dl = d
-    while dl != root:
-        dirlist.append(dl)
-        dl = dl.parent
-    dirlist.append(root)
-    dirlist.reverse()
-
-    for dl in dirlist:
-        attempt = dl / filename
-        if attempt.is_file():
-            return str(dl)
-    return None
-
+    try:
+        root = utils.execute_subprocess(["git","rev-parse", "--show-toplevel"],
+                                        output_to_caller=True ).rstrip()
+    except:
+        d = Path.cwd()
+        root = Path(d.root)
+        dirlist = []
+        dl = d
+        while dl != root:
+            dirlist.append(dl)
+            dl = dl.parent
+        dirlist.append(root)
+        dirlist.reverse()
+
+        for dl in dirlist:
+            attempt = dl / filename
+            if attempt.is_file():
+                return str(dl)
+        return None
+    return Path(root)
 
 def get_parser():
     description = """

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

@@ -342,7 +342,7 @@ def main():
         excludelist=excludelist,
     )
     if not gitmodules.sections():
-        sys.exit("No submodule components found")
+        sys.exit(f"No submodule components found, root_dir={root_dir}")
     retval = 0
     if action == "update":
         submodules_update(gitmodules, root_dir, fxrequired, force)

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

@@ -221,7 +221,7 @@ def sparse_checkout(self):
         if superroot:
             gitroot = superroot.strip()
         else:
-            gitroot = self.root_dir.strip()
+            gitroot = self.root_dir
         # Now need to move the .git dir to the submodule location
         rootdotgit = os.path.join(self.root_dir, ".git")
         while os.path.isfile(rootdotgit):

.lib/git-fleximod/pyproject.toml

@@ -1,6 +1,6 @@
 [tool.poetry]
 name = "git-fleximod"
-version = "0.9.2"
+version = "0.9.3"
 description = "Extended support for git-submodule and git-sparse-checkout"
 authors = ["Jim Edwards <jedwards@ucar.edu>"]
 maintainers = ["Jim Edwards <jedwards@ucar.edu>"]

.lib/git-fleximod/tbump.toml

@@ -2,7 +2,7 @@
 github_url = "https://github.com/jedwards4b/git-fleximod/"
 
 [version]
-current = "0.9.2"
+current = "0.9.3"
 
 # Example of a semver regexp.
 # Make sure this matches current_version before

.lib/git-fleximod/tests/conftest.py

@@ -32,7 +32,7 @@ def logger():
      "submodule_name": "test_optional",
      "status1" : "test_optional MPIserial_2.5.0-3-gd82ce7c is out of sync with .gitmodules MPIserial_2.4.0",
      "status2" : "test_optional at tag MPIserial_2.4.0",
-     "status3" : "test_optional not checked out, out of sync at tag None, expected tag is MPIserial_2.4.0 (optional)",
+     "status3" : "test_optional not checked out, out of sync at tag MPIserial_2.5.1, expected tag is MPIserial_2.4.0 (optional)",
      "status4" : "test_optional at tag MPIserial_2.4.0",
      "gitmodules_content": """
      [submodule "test_optional"]
@@ -46,7 +46,7 @@ def logger():
      "submodule_name": "test_alwaysoptional",
      "status1" : "test_alwaysoptional MPIserial_2.3.0 is out of sync with .gitmodules e5cf35c",
      "status2" : "test_alwaysoptional at hash e5cf35c",
-     "status3" : "out of sync at tag None, expected tag is e5cf35c",
+     "status3" : "out of sync at tag MPIserial_2.5.1, expected tag is e5cf35c",
      "status4" : "test_alwaysoptional at hash e5cf35c",
      "gitmodules_content": """
     [submodule "test_alwaysoptional"]

doc/ChangeLog

@@ -1,8 +1,8 @@
 ===============================================================
 
-Tag name: cam6_4_047
+Tag name: cam6_4_049
 Originator(s): peverwhee
-Date: 12 November 2024
+Date:  November 2024
 One-line Summary: History bugfixes
 Github PR URL: https://github.com/ESCOMP/CAM/pull/1163
 
@@ -12,7 +12,8 @@ Purpose of changes (include the issue number and title text for each relevant Gi
 - Issue #1166: time_bounds array should not be present in history files containing instantaneous output
 - Issue #1167: Time shown in history file names is incorrect for instantaneous data
 - Issue #1183: Suggested improvement for openfile
-- Updates git-fleximod to v0.9.2
+- Update git-fleximod to v0.9.3
+- Update archive_baseline.sh modify read permissions on izumi
 
 Describe any changes made to build system:
 M   bld/namelist_files/use_cases/sd_waccm_sulfur.xml
@@ -66,6 +67,9 @@ M   src/physics/cam7/stochastic_tau_cam.F90
 M   src/utils/cam_pio_utils.F90
  - move filename logging to before pio call
 
+M   test/system/archive_baseline.sh
+ - make all baseline files globally readable on izumi
+
 If there were any failures reported from running test_driver.sh on any test
 platform, and checkin with these failures has been OK'd by the gatekeeper,
 then copy the lines from the td.*.status files for the failed tests to the

test/system/archive_baseline.sh

@@ -68,7 +68,6 @@ case $hostname in
     test_file_list="tests_pretag_izumi_${CAM_FC,,}"
     cam_tag=$1_${CAM_FC,,}
     baselinedir="/fs/cgd/csm/models/atm/cam/pretag_bl/$cam_tag"
-    chmod_cmd="chmod -R a+r ${baselinedir}"
   ;;
 
   de*)
@@ -79,7 +78,6 @@ case $hostname in
     test_file_list="tests_pretag_derecho_${CAM_FC,,}"
     cam_tag=$1_${CAM_FC,,}
     baselinedir="/glade/campaign/cesm/community/amwg/cam_baselines/$cam_tag"
-    chmod_cmd=""
   ;;
 
   * ) echo "ERROR: machine $hostname not currently supported"; exit 1 ;;
@@ -99,7 +97,7 @@ if [ -n "$CESM_TESTDIR" ]; then
     if [ -d $CESM_TESTDIR/baselines ]; then
       echo "Using cp to archive baselines."
       cp -r $CESM_TESTDIR/baselines/. $root_baselinedir/$cam_tag
-      eval ${chmod_cmd}
+      chmod -R a+r ${baselinedir}
     else
       echo "Using bless_test_results to archive baselines."
       ../../cime/CIME/Tools/bless_test_results -p -t '' -c '' -r $CESM_TESTDIR --baseline-root $root_baselinedir -b $cam_tag -f -s