Update phenology file

[blimlim]

Closes preindustrial half of #109 (AMIP changes to follow).

This PR points the configuration to the updated phenology file, allowing the number of phenology types to be read from the file rather than hardcoded.

Also includes changes to input manifests which were skipped in #131.

[blimlim]

!test repro

[github-actions]

✅ The Bitwise Reproducibility Check Succeeded ✅

When comparing:

• 109-PI-phenology-file (checksums created using commit 9da3d22), against
• dev-preindustrial+concentrations (checksums in commit 8331316)

Further information

The experiment can be found on Gadi at /scratch/tm70/repro-ci/experiments/access-esm1.6-configs/9da3d2298f31c9414a5584b8de7623299bda7308, and the test results at https://github.com/ACCESS-NRI/access-esm1.6-configs/runs/43850988668.

The checksums generated by this !test command are found in the testing/checksum directory of https://github.com/ACCESS-NRI/access-esm1.6-configs/actions/runs/15572393067/artifacts/3301150284.

The checksums compared against are found here https://github.com/ACCESS-NRI/access-esm1.6-configs/tree/83313162b68adca6e53d51e5d7a9dce050af6113/testing/checksum

[JhanSrbinovsky]

LGTM

[access-hive-bot]

This pull request has been mentioned on ACCESS Hive Community Forum. There might be relevant details there:

https://forum.access-hive.org.au/t/coordinating-development-threads-for-next-phase-of-control-experiment/4523/1