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perf(qwen3-next): nested scan over hybrid attention with per-layer remat - #4964

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perf(qwen3-next): nested scan over hybrid attention with per-layer remat#4964
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chengnuojin-bharatgen-scan

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@NuojCheng NuojCheng commented Aug 21, 2026

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Description

Qwen3-Next has a hybrid decoder stack: each period of
inhomogeneous_layer_cycle_interval (4) layers is three linear-attention
(GatedDeltaNet) layers followed by one full-attention layer. Qwen3NextScannableBlock
instantiated those four heterogeneous sub-layers flat (layer_0layer_3) and ran
them in a Python loop, so the whole block was rematerialized as a single unit and all
four sub-layers' activations were live at once.

This PR restructures the block along the same lines as Gemma4ScannableBlock:

  • the three linear-attention layers are homogeneous, so they are stacked and run
    through nnx_scan.apply_scanned_layers;
  • the single full-attention layer runs inside a trip-count-one jax.lax.scan, which
    acts as an XLA scheduling barrier
    (skip-simplify-while-loops_trip-count-one);
  • each sub-layer is rematerialized on its own (apply_internal_remat=True), so the
    outer apply passes skip_block_remat=True and nothing is rematerialized twice.

A second, independent fix in nnx_scan.apply_scanned_layers: the scan body returned
nnx.state(current_layer) — the full state, parameters included. jax.lax.scan
stacks every per-iteration output, so returning parameters made XLA materialize a
second copy of the stacked layer weights on every call. The body now returns only the
state that was not fed in as a scan input.

Dropping every nnx.Param would be too blunt. Qwix materializes LoRA adapters while
tracing the scan body, and nnx.LoRAParam is an nnx.Param subclass, so they would go
out with the carried weights and LoRA setup would fail with LoRA module path matched target modules, but nnx.LoRAParam is still missing. Diffing against the parameter
paths that went in keeps the memory saving and still lets anything the body creates
out.

External (vLLM) KV caches arrive as a flat list with one entry per decoder layer, but
the NNX scan runs over blocks, so _apply_qwen3_next_scanned_blocks regroups them
into per-block tuples and writes them back afterwards — the same
prepare_kv_caches_for_scan / update_kv_caches_after_scan pair Gemma4 uses. That
keeps skip_block_remat=True on the KV-cache path instead of falling back to the
generic, block-rematerialized branch. Qwen3NextScannableBlock now also threads one
cache per sub-layer and returns the updated ones; previously the block handed the same
cache object to all four sub-layers and dropped the updates. The Linen Decoder
already did the equivalent regrouping and is unchanged in this respect.

Finally, full_attention_layer_offset selects where the full-attention layer sits
within each cycle. It defaults to -1 (last in the cycle), which reproduces the
existing (layer_idx + 1) % cycle == 0 schedule, so no current config changes
behavior.

Checkpoint conversion

The new layout needs matching conversion support, so that HF Qwen3-Next checkpoints
still load into MaxText and still save back out. This follows #4530, which did the same
for Gemma4.

The scanned branch of QWEN3_NEXT_MAXTEXT_TO_HF_PARAM_MAPPING, and its hook map, now
describe the nested layout instead of the old layer_{0..3} keys. Writing psa for
param_scan_axis, a parameter lands in one of four shapes:

MaxText key HF keys nest as stacked axes
global_layer-* [block] psa
local_layers-* [block][local] psa, psa + 1
global_layer-…-routed_experts-w* [expert][block] 0, 1
local_layers-…-routed_experts-w* [expert][block][local] 0, psa, psa + 1

Only the last row needed new machinery. Routed experts are expert-stacked inside the
nested local scan, so they take a third stacked axis, and the conversion helpers only
handled two. _build_multi_axis_stacked_tensor (to_maxtext) and its inverse in
process_maxtext_param (to_huggingface) are generalized from two axes to N, and the
axis placement moves into a shared stacked_axes helper in tensor_handling.py,
next to nesting_depth and slice_shape. Nested-scan detection widens from
scanned_blocks-local_layers, which is Gemma4's module name, to -local_layers, so
Qwen3-Next's layers-local_layers matches as well; mt_key is threaded through the
load_dynamic lazy path so it makes the same choice.

The Linen Decoder needed a fix first. _apply_qwen3_next_scanned_blocks still had a
broadcast-arg spec copied from Gemma4, which no longer matched
Qwen3NextScannableBlock.__call__ and passed 12 positional args to a 10-argument
signature, and it named the scanned module scanned_blocks where the pure-NNX decoder
uses layers. With both corrected the two decoders emit byte-identical parameter names
and shapes, so a single mapping serves both.

Results

Activation memory drops by roughly 45–60%. Every row below is the same command on
both sides, changing only the checkout.

AOT compile, real qwen3-next-80b-a3b, compile_topology=v5p-256,
per_device_batch_size=1, max_target_length=2048, remat_policy=full,
attention=flash, dtype=bfloat16:

CompiledMemoryStats main this PR change
temp_size_in_bytes 30.25 GB 16.10 GB −46.8%
argument_size_in_bytes 7.49 GB 7.49 GB
generated_code_size_in_bytes 312 MB 153 MB −50.9%
total (args + temp) 37.74 GB 23.59 GB −37.5%

Real training runs on a v5p-8 (4 chips, ici_fsdp_parallelism=4), scaled-down
qwen3-next, max_target_length=4096:

main total / temp this PR total / temp temp change
per_device_batch_size=2 26.7 / 22.1 GB 17.0 / 12.3 GB −44.3%
per_device_batch_size=12 116.9 / 112.2 GB 48.2 / 43.6 GB −61.1%

argument_size is byte-identical on both sides in all three experiments, confirming
the two trees are the same architecture with the same parameter count — the saving is
purely activations, which is why the gap widens with batch size.

Step time is unchanged: 1.544 s (main) vs 1.538 s (this PR) at batch 2, and 8.181 s vs
8.130 s at batch 12.

Shortcomings and follow-ups

  • Parameter layout changes. A block's weights move from layer_0…layer_3 to a
    stacked local_layers plus a global_layer. HF checkpoints round-trip through the
    updated conversion, but a MaxText checkpoint saved from the old tree has to be
    re-converted.
  • _build_multi_axis_stacked_tensor exists in three copies, in to_maxtext.py,
    utils/tensor_handling.py and utils/utils.py. The two live ones are updated here.
    The third is unreachable — nothing calls its _get_hf_loading_function — so it is
    left alone; deleting it belongs in its own PR.
  • The full-attention layer must be last in the block, because the local scan runs
    before the global layer. The constructor now raises rather than silently reordering
    the model; a block covering more than one full-attention layer is also rejected.
  • No dense-prefix support. first_num_dense_layers is 0 for stock Qwen3-Next, so
    a scanned dense prefix is left as a follow-up.
  • The NNX path still drops num_decoder_layers % inhomogeneous_layer_cycle_interval
    trailing layers (48 % 4 == 0 for Qwen3-Next, so nothing is dropped today). That is
    unchanged from the generic scanned path this replaces; the Linen Decoder does
    handle the remainder. Worth unifying.
  • Gemma4 and Qwen3-Next now have near-identical block implementations. Factoring out a
    shared hybrid-block base, and unifying nnx_scan.apply_scanned_layers with
    NNXDecoder._apply_layers_sequentially (two appliers with two different state
    write-back conventions), is worth doing separately.

Tests

Six new tests in tests/unit/nnx_decoders_test.py, next to the analogous
TestGemma4ScannableBlock:

TestQwen3NextScannableBlock asserts that the block splits a cycle into a stacked
local scan plus one global layer, that the local params really are stacked along
param_scan_axis, that the nested scans reproduce a plain sequential unroll of the
same weights
to rtol=atol=1e-5, that the external-KV path matches the scanned path
and returns one cache per sub-layer in local…global order, and that a block whose
full-attention layer is not last is rejected.

TestNNXDecoderQwen3Next feeds the decoder a flat per-layer cache list with a distinct
sentinel per layer and checks each one comes back on its own layer — this fails on the
pre-fix code, where block i received kv_caches[i] instead of its four-cache group.

tests/unit/param_mapping_test.py gains three round-trip tests, modelled on #4530's
test_gemma4_local_layers_stack_unstack_roundtrip: stacking HF weights into the
MaxText layout and un-stacking them back has to be the identity. They cover the
two-axis [block][local] case, the three-axis [expert][block][local] case, and the
global layer's plain leading-axis MoE case. test_qwen3_next_mapping_scanned is
rewritten for the new layout.

The mapping is also checked against the model itself. For a scanned
qwen3-next-80b-a3b, its key set matches get_maxtext_model_info's parameter tree
exactly, with nothing missing and nothing extra, and every key's nesting depth matches
the real tensor shape at the axes stacked_axes picks — on both decoders, which now
produce identical trees.

pytest tests/unit/nnx_decoders_test.py tests/unit/nnx_scan_test.py \
       tests/unit/nnx_decoder_test.py tests/unit/maxtext_utils_nnx_test.py \
       tests/unit/param_mapping_test.py tests/unit/checkpointing_test.py
# 109 passed, 2 skipped

pytest tests/post_training/integration/lora_e2e_nnx_test.py
# 3 passed

End-to-end on a v5p-8, 8 steps of synthetic data with fixed seeds. Losses track main
to within 0.002 at every step despite the two trees drawing init RNG differently:

step 0 1 2 3 4 5 6 7
main 9.505 9.016 8.585 8.228 7.956 7.771 7.660 7.600
this PR 9.499 9.013 8.583 8.228 7.957 7.771 7.660 7.601

Reproduce (drop override_model_config and the size overrides to run the real 80B):

python3 -m maxtext.trainers.pre_train.train src/maxtext/configs/base.yml \
  model_name=qwen3-next-80b-a3b override_model_config=True \
  base_output_directory=/tmp/run_out run_name=scan_check dataset_type=synthetic \
  enable_checkpointing=False steps=8 data_shuffle_seed=1234 init_weights_seed=1234 \
  base_emb_dim=2048 base_num_decoder_layers=12 base_num_query_heads=16 \
  base_num_kv_heads=2 head_dim=256 base_mlp_dim=4096 base_moe_mlp_dim=512 \
  num_experts=32 num_experts_per_tok=8 vocab_size=8192 \
  per_device_batch_size=2 max_target_length=4096 dtype=bfloat16 attention=flash \
  remat_policy=full sparse_matmul=True megablox=False ici_fsdp_parallelism=4

AOT numbers come from Memory analysis: {compiled.memory_analysis()} in
train_compile.py:

python3 -m maxtext.trainers.pre_train.train_compile src/maxtext/configs/base.yml \
  model_name=qwen3-next-80b-a3b compile_topology=v5p-256 compile_topology_num_slices=1 \
  base_output_directory=/tmp/aot_out run_name=aot dataset_type=synthetic \
  enable_checkpointing=False skip_jax_distributed_system=True steps=3 \
  per_device_batch_size=1 max_target_length=2048 dtype=bfloat16 attention=flash \
  remat_policy=full sparse_matmul=True megablox=False

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.

Qwen3-Next's scannable block instantiated its four heterogeneous sub-layers
flat and ran them in a Python loop, so the whole block was rematerialized as a
unit and all four sub-layers' activations were live together.

Restructure it along the same lines as Gemma4: stack the three linear-attention
(GatedDeltaNet) layers and run them through nnx_scan.apply_scanned_layers, and
run the single full-attention layer inside a trip-count-one jax.lax.scan that
acts as an XLA scheduling barrier. Each sub-layer is now rematerialized on its
own, so the outer apply skips block-level remat.

Also stop apply_scanned_layers from returning parameters out of its scan body:
lax.scan stacks every carry output, so returning full state made XLA
materialize a second copy of the stacked layer weights on every call.

Add full_attention_layer_offset to place the full-attention layer within each
cycle; it defaults to -1 (last in the cycle), reproducing the previous
(layer_idx + 1) % cycle == 0 schedule.
Asserts the block splits a cycle into a stacked local scan plus one global
layer, that the local params really are stacked along param_scan_axis, that
the nested scans reproduce a sequential unroll of the same weights, and that a
block whose full-attention layer is not last is rejected.

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Code Review

This pull request adds support for Qwen3-Next scanned decoder blocks using hierarchical nested scans, separating linear-attention layers from the global full-attention layer to optimize rematerialization. It also refactors NNX scanning to avoid stacking read-only parameters. The review feedback correctly identifies that when kv_caches is provided, the implementation falls back to the default path and causes double rematerialization. To resolve this, the reviewer suggests updating _apply_qwen3_next_scanned_blocks to accept and pass kv_caches directly to _apply_layers_sequentially while keeping block-level rematerialization disabled.

Comment thread src/maxtext/layers/nnx_decoders.py Outdated
Comment on lines +1885 to +1886
elif self.is_qwen3_next and kv_caches is None:
y = self._apply_qwen3_next_scanned_blocks(y, layer_args, layer_kwargs)

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high

When kv_caches is not None (e.g., during inference or evaluation), the else block is executed, which calls _apply_layers_sequentially with skip_block_remat=False (the default). This causes double rematerialization for Qwen3-Next because Qwen3NextScannableBlock already handles its own internal rematerialization. We should update _apply_qwen3_next_scanned_blocks to accept kv_caches and call it whenever self.is_qwen3_next is True.

Suggested change
elif self.is_qwen3_next and kv_caches is None:
y = self._apply_qwen3_next_scanned_blocks(y, layer_args, layer_kwargs)
elif self.is_qwen3_next:
y = self._apply_qwen3_next_scanned_blocks(y, layer_args, layer_kwargs, kv_caches=kv_caches)

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Good catch on the double-remat — fixed in 0857e11.

I didn't take the suggestion verbatim, though: the scan runs over blocks, not layers, while kv_caches is a flat list with one entry per decoder layer. Passing it straight through as kv_caches_stacked would hand block i only kv_caches[i] (a single layer's cache) instead of its four-cache group, and the block would then index into that single object.

So _apply_qwen3_next_scanned_blocks now does what _apply_gemma4_scanned_blocks does:

grouped_kv_caches = maxtext_utils.prepare_kv_caches_for_scan(kv_caches, scan_length, block_length, stack=False)
y, self.layers, _ = self._apply_layers_sequentially(
    self.layers, y, *layer_args,
    length=scan_length, kv_caches_stacked=grouped_kv_caches, skip_block_remat=True, **layer_kwargs,
)
maxtext_utils.update_kv_caches_after_scan(kv_caches, grouped_kv_caches, scan_length, block_length, stacked=False)

and the dispatch is now elif self.is_qwen3_next: with kv_caches=kv_caches, as suggested.

Two tests cover this. TestNNXDecoderQwen3Next.test_decoder_regroups_flat_kv_caches_per_block passes a distinct sentinel per layer and checks each comes back on its own layer — it fails on the pre-fix code. TestQwen3NextScannableBlock.test_external_kv_cache_matches_scanned_path checks the block's external-KV path matches the scanned path numerically and returns one cache per sub-layer in local…global order.

Training is unaffected: with kv_caches=None both helpers pass None through, so that path is byte-identical to before and the memory numbers in the description still stand.

Comment thread src/maxtext/layers/nnx_decoders.py Outdated

return y

def _apply_qwen3_next_scanned_blocks(self, y, layer_args, layer_kwargs):

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high

Update _apply_qwen3_next_scanned_blocks to accept kv_caches and pass it to _apply_layers_sequentially as kv_caches_stacked to ensure that block-level rematerialization is skipped even when kv_caches is provided.

Suggested change
def _apply_qwen3_next_scanned_blocks(self, y, layer_args, layer_kwargs):
def _apply_qwen3_next_scanned_blocks(self, y, layer_args, layer_kwargs, kv_caches=None):

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Addressed in 0857e11 — see the reply on the dispatch thread. Short version: kv_caches is flat per-layer while the scan is per-block, so it is regrouped with prepare_kv_caches_for_scan / update_kv_caches_after_scan (as Gemma4 does) rather than passed through directly, and skip_block_remat=True now holds on this path too.

Comment on lines +2180 to +2187
y, self.layers, _ = self._apply_layers_sequentially(
self.layers,
y,
*layer_args,
length=scan_length,
skip_block_remat=True,
**layer_kwargs,
)

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high

Pass kv_caches as kv_caches_stacked to _apply_layers_sequentially to support inference with external KV caches while skipping block-level rematerialization.

Suggested change
y, self.layers, _ = self._apply_layers_sequentially(
self.layers,
y,
*layer_args,
length=scan_length,
skip_block_remat=True,
**layer_kwargs,
)
y, self.layers, _ = self._apply_layers_sequentially(
self.layers,
y,
*layer_args,
length=scan_length,
skip_block_remat=True,
kv_caches_stacked=kv_caches,
**layer_kwargs,
)

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Addressed in 0857e11 — see the reply on the dispatch thread. Short version: kv_caches is flat per-layer while the scan is per-block, so it is regrouped with prepare_kv_caches_for_scan / update_kv_caches_after_scan (as Gemma4 does) rather than passed through directly, and skip_block_remat=True now holds on this path too.

The scanned-block apply was guarded on `kv_caches is None`, so an inference
call fell through to the generic branch and rematerialized the whole block on
top of the block's own per-layer remat.

Route Qwen3-Next through `_apply_qwen3_next_scanned_blocks` unconditionally and
regroup the flat per-layer cache list into per-block tuples before the scan,
writing it back afterwards -- the `prepare_kv_caches_for_scan` /
`update_kv_caches_after_scan` pair Gemma4 already uses. The scan runs over
blocks, so the flat list would otherwise hand block i only `kv_caches[i]`.

Training (kv_caches=None) is unaffected: the grouping helpers pass None
through, so that path is byte-identical to before.

Move the scannable-block tests out of their own file into
tests/unit/nnx_decoders_test.py alongside TestGemma4ScannableBlock, and add
coverage for both halves of the KV path.
@NuojCheng

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Pushed 0857e11 addressing the review — the KV-cache path now keeps skip_block_remat=True and regroups the flat per-layer cache list into per-block tuples (details in the thread replies above). Tests moved into tests/unit/nnx_decoders_test.py next to TestGemma4ScannableBlock, with new coverage for both halves of the KV path.

/gemini review

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Code Review

This pull request adds support for Qwen3-Next scanned decoder blocks in MaxText, implementing hierarchical nested scans (local linear-attention layers and a global full-attention layer) and adding corresponding unit tests. The feedback suggests grouping the jax.experimental.xla_metadata import with other third-party imports in qwen3.py to comply with PEP 8, and optimizing the external KV cache path in qwen3.py to avoid processing read-only parameters, mirroring the optimization made in nnx_scan.py.

Comment thread src/maxtext/models/qwen3.py Outdated
Comment on lines +46 to +47
from maxtext.layers import nnx_scan
from jax.experimental import xla_metadata

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medium

According to PEP 8, imports should be grouped in the following order:

  1. Standard library imports.
  2. Related third party imports.
  3. Local application/library specific imports.

The third-party import from jax.experimental import xla_metadata is currently placed within the local maxtext imports group. It should be moved to the top of the file and grouped with the other jax imports (around lines 24-29).

Suggested change
from maxtext.layers import nnx_scan
from jax.experimental import xla_metadata
from maxtext.layers import nnx_scan
References
  1. PEP 8: Imports should be grouped: 1. Standard library imports. 2. Related third party imports. 3. Local application/library specific imports. You should put a blank line between each group of imports. (link)

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Done in 99cbb62 — moved up next to from jax.ad_checkpoint import checkpoint_name so it sits in the jax group rather than at the top of the file, keeping that group alphabetical.

Comment thread src/maxtext/models/qwen3.py Outdated
Comment on lines +1381 to +1388
per_layer_states.append(nnx.state(layer))

stacked_state = jax.tree.map(lambda *xs: jnp.stack(xs), *per_layer_states)
if scan_axis != 0:
stacked_params, stacked_other = stacked_state.split(nnx.Param, ...)
stacked_params = jax.tree.map(lambda x: jnp.moveaxis(x, 0, scan_axis), stacked_params)
stacked_state = nnx.State.merge(stacked_params, stacked_other)
nnx.update(self.local_layers, stacked_state)

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medium

Similar to the optimization introduced in nnx_scan.py, we can avoid returning, stacking, and moving the axes of the read-only Param variables in the external KV cache path as well. Since parameters are never modified during the forward pass, we only need to collect and update the non-Param state (rest) back into self.local_layers.

        _, _, current_rest = nnx.split(layer, nnx.Param, ...)
        per_layer_states.append(current_rest)

      stacked_state = jax.tree.map(lambda *xs: jnp.stack(xs), *per_layer_states)
      nnx.update(self.local_layers, stacked_state)

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Agreed, and applied in 99cbb62.

Worth spelling out why the param_scan_axis round-trip disappears along with the stacking, since it looks like a separate change: nnx_scan.create_scanned_layers only puts Params on param_scan_axis (add_scan_metadata(stacked_params, param_scan_axis)); non-Param state gets axis 0 (add_scan_metadata(stacked_rest, 0)). The state read at the top of this method is therefore already axis-0 and sliced as such, so once Params are out of per_layer_states the stack goes straight back on axis 0 — matching what apply_scanned_layers does with scanned_rest. Net effect here:

        _, _, updated_state = nnx.split(layer, nnx.Param, ...)
        per_layer_states.append(updated_state)

      nnx.update(self.local_layers, jax.tree.map(lambda *xs: jnp.stack(xs), *per_layer_states))

Qwen3NextScannableBlock tests still pass (6/6), and the four NNX suites are at 71 passed / 2 skipped.

One note for anyone following up: Gemma4ScannableBlock._forward_with_external_kv_cache (gemma4.py:633) still has the original nnx.state(layer) + moveaxis version, so it keeps the extra param copy. I left it alone to keep this PR scoped to Qwen3-Next, but the same fix applies verbatim.

…path

Parameters are read-only in the forward pass, so stacking them back into
self.local_layers allocated a second copy of every layer weight. Collect only
the non-Param state, which also removes the param_scan_axis round-trip: unlike
Params, non-Param state is stacked on axis 0 by
nnx_scan.create_scanned_layers.

Same reasoning as the scan-body change in nnx_scan.apply_scanned_layers,
applied to the static-unroll path.

Also move the xla_metadata import into the jax group (PEP 8).
`apply_scanned_layers` dropped every `nnx.Param` from the scan output to
avoid materializing a second copy of the stacked layer weights. That also
discarded parameters created *while tracing the body*, most notably the
`nnx.LoRAParam` adapters Qwix materializes, which are an `nnx.Param`
subclass -- LoRA setup then failed with "LoRA module path matched target
modules, but nnx.LoRAParam is still missing".

Only drop the params that were fed in as scan inputs; anything else the
body produces still leaves the scan.
… layout

The scannable-block rewrite replaced the per-cycle-position `layer_{i}`
params with a nested layout -- `layers-local_layers-*` (an inner scan over
the linear-attention layers, nested in the block scan) and
`layers-global_layer-*` (the block scan only). The HF param mapping still
described the old layout, so conversion produced keys the model does not
have. Rewrite the scanned branch of the qwen3-next mapping (and its hooks)
for the new layout.

Routed-expert weights are expert-stacked *inside* the nested scan, giving
`[expert][block][local]` -- a third stacked axis, which the conversion
helpers did not support. Generalize `_build_multi_axis_stacked_tensor` and
the inverse in `process_maxtext_param` from two axes to N, with the axis
placement factored into a shared `stacked_axes` helper, and broaden the
nested-scan detection from `scanned_blocks-local_layers` (gemma4's module
name) to `-local_layers` so qwen3-next's `layers-local_layers` matches too.

Also fix the Linen `_apply_qwen3_next_scanned_blocks`: its broadcast-arg
spec had been copied from gemma4 and no longer matched
`Qwen3NextScannableBlock.__call__`, and it named the scanned module
`scanned_blocks` where the pure-NNX decoder uses `layers`. Both decoder
paths now emit byte-identical parameter names and shapes, so one mapping
serves both.
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