Adding a few JEDI-related aliases into the `fd_ufs.yaml` file+Add option to specify fv3atm history and inline post files output directory #2254 + Bump jinja2 from 3.1.3 to 3.1.4 in /doc/UsersGuide #2270

[fabiolrdiniz]

Commit Queue Requirements:

• [x] Fill out all sections of this template.
• [x] All sub component pull requests have been reviewed by their code managers.
• [x] Run the full Intel+GNU RT suite (compared to current baselines) on either Hera/Derecho/Hercules

• [x] Commit 'test_changes.list' from previous step

  Description:

For the JEDI-UFS integration, several aliases are needed in fd_ufs.yaml. This PR adds the missing aliases.

Add new model_configure option (fv3atm_output_dir) to specify directory in which all history and inline post files will be saved.

Commit Message:

* UFSWM - Add several aliases in `fd_ufs.yaml` needed for JEDI-UFS. Add new model_configure option (fv3atm_output_dir) to specify directory in which all fv3atm history and inline post files will be saved.
  * FV3 -  Add new model_configure option (fv3atm_output_dir) to specify directory in which all history and inline post files will be saved.

Priority:

• Normal

Git Tracking

UFSWM

ISSUES

• Closes #2262
• Closes #2084

  MERGED PR'S

• Closes #2254
• Closes #2270

Sub component Pull Requests:

• FV3: NOAA-EMC/fv3atm#826

UFSWM Blocking Dependencies:

• None

  Changes

  Regression Test Changes (Please commit test_changes.list):

• No Baseline Changes.

Input data Changes:

• None.

Library Changes/Upgrades:

• No Updates

---

Testing Log:

• RDHPCS
  • [x] Hera
  • [x] Orion
  • [x] Hercules
  • [x] Jet
  • [x] Gaea
  • [x] Derecho
• WCOSS2
  • [x] Dogwood/Cactus
  • [x] Acorn
• [x] CI
• [ ] opnReqTest (complete task if unnecessary)

[climbfuji]

@jkbk2004 JCSDA needs this PR - I can pick it up where it is and get it ready. Can we add this to the commit queue for tomorrow's meeting?

[climbfuji]

@jkbk2004 I ran rt.sh for this PR on Derecho for the latest commit (https://github.com/ufs-community/ufs-weather-model/pull/2215/commits/9299932bbda8eaa0acfd2f4e7d7be0f9101a5b9e) - which is up to date with develop - and all regression tests passed against the existing baseline. test_changes.list submitted as requested. PR is ready!

[jkbk2004]

@fabiolrdiniz can you sync up the branch one more time? We can start working on this pr. Note that we are considering to combine in #2253 and #2254.

[jkbk2004]

@DusanJovic-NOAA I combined in #2254 to this pr.

[zach1221]

I'll do a prelim test of the combined PR on hercules.

Tests all passed. RegressionTests_hercules.log

[zach1221]

@FernandoAndrade-NOAA @BrianCurtis-NOAA I think we can begin testing here.

[zach1221]

Regression testing is complete. We can proceed with merging process.

[BrianCurtis-NOAA]

The template is incomplete. We're probably not using that commit message. When we merge many PR's into one it's important to make sure the template is also updated.

[zach1221]

The template is incomplete. We're probably not using that commit message. When we merge many PR's into one it's important to make sure the template is also updated.

Commit message is updated.

[DusanJovic-NOAA]

The template is incomplete. We're probably not using that commit message. When we merge many PR's into one it's important to make sure the template is also updated.

Commit message is updated.

Please do not use ampersand sign in commit message

[BrianCurtis-NOAA]

The template is incomplete. We're probably not using that commit message. When we merge many PR's into one it's important to make sure the template is also updated.

Commit message is updated.

I've made edits, it should look more like this. we don't need all the extra information. I had to bring in issues we're closing with this PR from other PR's