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Replace # pytype: disable suppressions with # pyrefly: ignore #118

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Merged
copybara-service merged 1 commit into from
Oct 5, 2026
Merged

Replace # pytype: disable suppressions with # pyrefly: ignore #118

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8 changes: 4 additions & 4 deletions flow_field.py
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Original file line number Diff line number Diff line change
Expand Up @@ -359,7 +359,7 @@ def _masked_mean(source, mask):
+ post_batch.shape[-len(patch_size) :]
) // 2 - 1
return ( # pyrefly: ignore[bad-return]
center_offset, # pytype: disable=bad-return-type # jax-ndarray
center_offset,
masked_xcorr(
pre_batch - pre_mean,
post_batch - post_mean,
Expand Down Expand Up @@ -435,7 +435,7 @@ def batched_xcorr_peaks(
xcorr,
center_offset, # pyrefly: ignore[bad-argument-type]
min_distance,
threshold_rel, # pytype: disable=wrong-arg-types # jax-ndarray
threshold_rel,
peak_radius,
)
return peaks
Expand Down Expand Up @@ -574,15 +574,15 @@ def flow_field(

if pre_mask is not None:
s = geom_utils.query_integral_image(
_integral_image(pre_mask), patch_size, step # pyrefly: ignore[bad-argument-type]
_integral_image(pre_mask), patch_size, step
)
m = (s / np.prod(patch_size) >= max_masked)[out_sel]
selection_mask[m] = False
del s

if post_mask is not None:
s = geom_utils.query_integral_image(
_integral_image(post_mask), post_patch_size, step # pyrefly: ignore[bad-argument-type]
_integral_image(post_mask), post_patch_size, step
)
m = (s / np.prod(post_patch_size) >= max_masked)[out_sel]
selection_mask[m] = False
Expand Down
2 changes: 1 addition & 1 deletion mesh.py
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Original file line number Diff line number Diff line change
Expand Up @@ -276,7 +276,7 @@ def elastic_mesh_3d(
fn = jnp.pad(f, pad_neg)
f_tot -= fn

return f_tot # pytype: disable=bad-return-type # jax-ndarray
return f_tot # pyrefly: ignore[bad-return]


@dataclasses.dataclass(frozen=True)
Expand Down
10 changes: 5 additions & 5 deletions processor/mesh.py
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Original file line number Diff line number Diff line change
Expand Up @@ -220,7 +220,7 @@ def compute_ref_mesh_multiz(
curr_flow[1, ...][~m] = np.nan

curr_flow = np.array(
map_utils.compose_maps_fast( # pytype: disable=wrong-arg-types # jax-ndarray
map_utils.compose_maps_fast(
curr_flow, # pyrefly: ignore[bad-argument-type]
box.start[::-1], # pyrefly: ignore[bad-argument-type]
stride,
Expand Down Expand Up @@ -264,7 +264,7 @@ def compute_ref_mesh(
flow_utils.apply_mask(ref_mesh, mask)

flow = np.array(
map_utils.compose_maps_fast( # pytype: disable=wrong-arg-types # jax-ndarray
map_utils.compose_maps_fast(
flow, # pyrefly: ignore[bad-argument-type]
ref_box.start[::-1], # pyrefly: ignore[bad-argument-type]
stride,
Expand Down Expand Up @@ -459,7 +459,7 @@ def relax_mesh(

logging.info('Starting mesh relaxation with: %r', config)

x, e_kin, num_steps = mesh_lib.relax_mesh(x, prev, integration_config) # pytype: disable=wrong-arg-types # jax-ndarray
x, e_kin, num_steps = mesh_lib.relax_mesh(x, prev, integration_config) # pyrefly: ignore[bad-argument-type, bad-assignment]
x = np.array(x)
orig_x = x.copy()

Expand All @@ -481,7 +481,7 @@ def relax_mesh(
start_x = np.zeros_like(x)
start_x = self.maybe_update_init_state(start_x, prev, config.options)

x, _, prep_steps = mesh_lib.relax_mesh( # pytype: disable=wrong-arg-types # jax-ndarray
x, _, prep_steps = mesh_lib.relax_mesh( # pyrefly: ignore[bad-assignment]
start_x, # pyrefly: ignore[bad-argument-type]
x, # pyrefly: ignore[bad-argument-type]
dataclasses.replace(
Expand All @@ -503,7 +503,7 @@ def relax_mesh(
if mask is not None:
flow_utils.apply_mask(x, mask)

x, e_kin2, reg_steps = mesh_lib.relax_mesh(x, prev, integration_config) # pytype: disable=wrong-arg-types # jax-ndarray
x, e_kin2, reg_steps = mesh_lib.relax_mesh(x, prev, integration_config) # pyrefly: ignore[bad-argument-type, bad-assignment]
x = np.array(x)
return (
x,
Expand Down
4 changes: 2 additions & 2 deletions stitch_elastic.py
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Original file line number Diff line number Diff line change
Expand Up @@ -519,7 +519,7 @@ def _apply_flow(
nbor_flow_3d = nbor_flow[:, None, ...]
nbor_mesh_3d = nbor_mesh[:, None, ...]

update = map_utils.compose_maps_fast( # pytype: disable=wrong-arg-types # jnp-type
update = map_utils.compose_maps_fast(
nbor_flow_3d,
start, # pyrefly: ignore[bad-argument-type]
stride,
Expand Down Expand Up @@ -601,7 +601,7 @@ def _update_mesh(
nbor_mesh = jax.lax.dynamic_index_in_dim(x, nbor_idx, axis=1, keepdims=False)
unused = 1
# pylint: disable=g-long-lambda
return ( # pytype: disable=bad-return-type # jax-ndarray
return ( # pyrefly: ignore[bad-return]
jax.lax.cond(
nbor_idx == -1, # invalid index?
lambda _: mesh, # nothing to update
Expand Down
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