fix(nnx): fix gpt3 paxml checkpoint conversion state map and layout

[hsuan-lun-chiang]

Description

Fix the Errors in b/535891456:

1. Missing RNGs state handling in GPT-3 PaxML checkpoint conversion:
   When executing convert_gpt3_ckpt_from_paxml.py, verification failed with:

AssertionError: ['model']['decoder']['dropout']['rngs']['aqt']['count'].value not found

Cause: Recent NNX updates added dynamic RNG state (such as AQT count) into model variables, which are not present in PaxML checkpoints.

Fix: convert NNX state to linen format before doing the checkpoint conversion, when the rngs will be filtered out .

2. On-disk NNX checkpoint layout mismatch:
   When restoring the converted checkpoint in train.py, loading failed with:

ValueError: Checkpoint does not match the model:
  - 'decoder/decoder_norm/bias': missing
  ...

Cause: convert_gpt3_ckpt_from_paxml.py was saving the raw TrainStateNNX structure directly instead of calling train_state_nnx.to_checkpoint_dict(converted_state) to format it into the standard Linen-interchangeable checkpoint layout.

Fix: Added converted_state = train_state_nnx.to_checkpoint_dict(converted_state) prior to saving when cfg.pure_nnx is active.

Test

Test with convert_gpt3_ckpt_from_paxml.py and train.py as in the DAG.
Logs

Checklist

Before submitting this PR, please make sure (put X in square brackets):

• I have performed a self-review of my code. For an optional AI review, add the gemini-review label.
• I have necessary comments in my code, particularly in hard-to-understand areas.
• I have run end-to-end tests tests and provided workload links above if applicable.
• I have made or will make corresponding changes to the doc if needed, including adding new documentation pages to the relevant Table of Contents (toctree directive) as explained in our documentation.

[codecov]

Codecov Report

❌ Patch coverage is 50.00000% with 6 lines in your changes missing coverage. Please review.

Files with missing lines	Patch %	Lines
src/maxtext/common/checkpointing.py	50.00%	3 Missing and 3 partials ⚠️

📢 Thoughts on this report? Let us know!

[gemini-code-assist]

Caution

The consumer version of Gemini Code Assist on GitHub has been sunset. All code review activity has officially ceased.