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Name: Bob Yantosca
Institution: Harvard + GCST

Describe the update

This PR seeks to merge the release/14.5.2 branch into main in anticipation of the GCHP 14.5.2 release.

The release/14.5.2 branch contains

  • Commits from the dev/no-diff-to-benchmark
  • ReadTheDoc updates for GCHP 14.5.2
  • Updated version numbers to 14.5.2 in the usual places.

Expected changes

This is a no-diff-to-benchmark update

Tagging @msulprizio @lizziel

yantosca and others added 16 commits January 16, 2025 14:23
docs/requirements.txt
- Bumped jinja2 to version 3.1.5, as suggested by GitHub Dependabot.
  This is a security fix.

CHANGELOG.md
- Updated accordingly

Signed-off-by: Bob Yantosca <[email protected]>
This merge brings PR #469 (Bump jinja2 to 3.1.5 as suggested by
Dependabot, by @yantosca) into the GCClassic "no-diff-to-benchmark"
development stream.

This PR updates a Python package used by ReadTheDocs to implement
a security fix.  This was suggested by GitHub Dependabot.

Signed-off-by: Bob Yantosca <[email protected]>
This commit informs the GCHP superproject about the following
commits that were pushed to the GitHub geoschem/geos-chem repository:

255a13d88 Merge PR #2690 (Add .zenodo.json to auto-populate DOI fields)

and to the GitHub geoschem/HEMCO repository:

9cf873a Merge PR #304 (Add .zenodo.json; Update jinja2 to 3.1.5)

Signed-off-by: Bob Yantosca <[email protected]>
This commit informs the GCClassic superproject about the following
commits that were pushed to the GitHub geoschem/geos-chem repository:

a3e623f7e Merge PR #2684 (Fix CO2 weekly scale factors in GCHP)

This PR fixes a typo in the ExtData.rc.carbon file so that the
CO2 weekly scale factors are read and applied properly.

Signed-off-by: Bob Yantosca <[email protected]>
This commit informs the GCHP superproject about the following
commits that were pushed to the geos-chem-shared-docs repository:

acf07e2 Updated GEOS-Chem Input Data doc to say download is free

Also updated the CHANGELOG.md accordingly

Signed-off-by: Bob Yantosca <[email protected]>
Submodule src/GCHP_GridComp/GEOSChem_GridComp/geos-chem 6b056e0..8ea94bc:
  > Merge pull request #2692 from geoschem/feature/updated_cluster_env_and_run_scripts
  > Merge pull request #2616 from yuanjianz/feature/geosit_preprocessed_cs

Submodule src/MAPL 9ad63ae..6207fd0:
  > Merge pull request #38 from geoschem/bugfix/intel_build_error_in_AbstractComponent

Signed-off-by: Lizzie Lundgren <[email protected]>
CMakeScripts/GC-ConfigureClassic.cmake
- Added boolean cache variable KPPSA and print its value

src/CMakeLists.txt
- Only execute the block where KPPSA_FILE_NAME is defined as a target
  if the KPPSA boolean variable is true.  This will only build the
  KPP-Standalone executable when -DKPPSA=y is passed from the cmd line.

src/GCHP_GridComp/GEOSChem_GridComp/CMakeLists.txt
- Added boolean cache variable KPPSA

CHANGELOG.md
- Updated accordingly

TODO: Update KPP-Standalone documentation accordingly in ReadTheDocs,
which is located in the geos-chem-shared-docs submodule

Signed-off-by: Bob Yantosca <[email protected]>
This commit informs the GCHP superproject about the following
commits that were pushed to the GitHub geoschem/geos-chem repository:

60381876d  Merge PR #2712 (Only build KPP-Standalone upon request)

This PR now asks the user if they wish to build the KPP-Standalone
executable at run directory creation time.  A reminder will be
printed to configure with -DKPPSA=y, and the kpp_standalone_interface.yml
file will be copies to the run directory.

Signed-off-by: Bob Yantosca <[email protected]>
This merge brings PR #473 (Do not build KPP-Standalone executable unless
specifically requested at compile time, by @yantosca) into the GEOS-Chem
"no-diff-to-benchmark" development stream.

This PR adds updates to the CMake files so that the KPP-Standalone will
only be built if the user configures with -DKPPSA=y.

Signed-off-by: Bob Yantosca <[email protected]>
This commit informs the GCClassic superproject about the following
commits that were pushed to the GitHub geos-chem-shared-docs repository:

02c4c26 Update KPP-Standalone guide for on-request build

Signed-off-by: Bob Yantosca <[email protected]>
docs/source/user-guide/rundir-init.rst
- Add a section explaining that the user will be prompted
  if they wish to build the KPP-Standalone Box Model.  Also provide
  a link to the KPP-Standalone supplemental guide.

CHANGELOG.md
- Updated accordingly

Signed-off-by: Bob Yantosca <[email protected]>
This commit informs the GCHP superproject about the following
commits that were pushed to the GitHub geoschem/geos-chem repository:

aeeb8e9 Add link to KPP-Standalone documentation on GCPy ReadTheDocs

This PR adds a paragraph to the KPP-Standalone documentation
stating that plotting scripts are available on GCPy (with link to
documentation).

Signed-off-by: Bob Yantosca <[email protected]>
CHANGELOG.md
CMakeLists.txt
docs/source/conf.py
- Updated version numbers to 14.5.2

src/GEOS-Chem
- Now points to GEOS-Chem (sci codebase) 14.5.2 release commit

src/HEMCO
- Points to HEMCO 3.10.1 release
    Signed-off-by: Bob Yantosca <[email protected]>

Signed-off-by: Bob Yantosca <[email protected]>
We have merged the most recent documentation updates for
GCHP into the release/14.5.2 branch.

Signed-off-by: Bob Yantosca <[email protected]>
@yantosca yantosca added category: Feature Request New feature or request no-diff-to-benchmark This update will not change the results of fullchem benchmark simulations labels Feb 12, 2025
@yantosca yantosca requested a review from msulprizio February 12, 2025 17:20
@yantosca yantosca self-assigned this Feb 12, 2025
@yantosca yantosca merged commit 59fcade into main Feb 12, 2025
@yantosca yantosca deleted the release/14.5.2 branch February 12, 2025 19:29
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4 participants