ColabFold / data /beta /mapping.patch
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--- /content/alphafold_old/alphafold/model/mapping.py 2022-09-06 22:48:51.735105962 +0000
+++ /content/alphafold/alphafold/model/mapping.py 2022-09-06 22:55:15.646553551 +0000
@@ -46,11 +46,11 @@
def _expand_axes(axes, values, name='sharded_apply'):
- values_tree_def = jax.tree_flatten(values)[1]
+ values_tree_def = jax.tree_util.tree_flatten(values)[1]
flat_axes = jax.api_util.flatten_axes(name, values_tree_def, axes)
# Replace None's with PROXY
flat_axes = [PROXY if x is None else x for x in flat_axes]
- return jax.tree_unflatten(values_tree_def, flat_axes)
+ return jax.tree_util.tree_unflatten(values_tree_def, flat_axes)
def sharded_map(
@@ -120,8 +120,8 @@
# Expand in axes and Determine Loop range
in_axes_ = _expand_axes(in_axes, args)
- in_sizes = jax.tree_multimap(_maybe_get_size, args, in_axes_)
- flat_sizes = jax.tree_flatten(in_sizes)[0]
+ in_sizes = jax.tree_map(_maybe_get_size, args, in_axes_)
+ flat_sizes = jax.tree_util.tree_flatten(in_sizes)[0]
in_size = max(flat_sizes)
assert all(i in {in_size, -1} for i in flat_sizes)
@@ -132,7 +132,7 @@
last_shard_size = shard_size if last_shard_size == 0 else last_shard_size
def apply_fun_to_slice(slice_start, slice_size):
- input_slice = jax.tree_multimap(
+ input_slice = jax.tree_map(
lambda array, axis: _maybe_slice(array, slice_start, slice_size, axis
), args, in_axes_)
return fun(*input_slice)
@@ -153,7 +153,7 @@
shard_shape[axis] * num_extra_shards +
remainder_shape[axis],) + shard_shape[axis + 1:]
- out_shapes = jax.tree_multimap(make_output_shape, out_axes_, shard_shapes,
+ out_shapes = jax.tree_map(make_output_shape, out_axes_, shard_shapes,
out_shapes)
# Calls dynamic Update slice with different argument order
@@ -165,7 +165,7 @@
slice_out = apply_fun_to_slice(slice_start, slice_size)
update_slice = partial(
dynamic_update_slice_in_dim, i=slice_start)
- return jax.tree_multimap(update_slice, outputs, slice_out, out_axes_)
+ return jax.tree_map(update_slice, outputs, slice_out, out_axes_)
def scan_iteration(outputs, i):
new_outputs = compute_shard(outputs, i, shard_size)
@@ -176,7 +176,7 @@
def allocate_buffer(dtype, shape):
return jnp.zeros(shape, dtype=dtype)
- outputs = jax.tree_multimap(allocate_buffer, out_dtypes, out_shapes)
+ outputs = jax.tree_map(allocate_buffer, out_dtypes, out_shapes)
if slice_starts.shape[0] > 0:
outputs, _ = hk.scan(scan_iteration, outputs, slice_starts)