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Upgrade ezmsg, replace Collection Input/OutputStream with Input/OutputTopic #140

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Merged
cboulay merged 3 commits into from
Apr 21, 2026
Merged

Upgrade ezmsg, replace Collection Input/OutputStream with Input/OutputTopic #140

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ac5a615
Upgrade ezmsg, replace Collection Input/OutputStream with Input/Outpu…
cboulay Apr 21, 2026
3227a1a
Remove deprecated zero_copy=True
cboulay Apr 21, 2026
42dc1d2
Use absolute tolerance since f_inds is a unitless fractional index — …
cboulay Apr 21, 2026
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2 changes: 1 addition & 1 deletion pyproject.toml
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Original file line number Diff line number Diff line change
Expand Up @@ -13,7 +13,7 @@ requires-python = ">=3.10"
dynamic = ["version"]
dependencies = [
"array-api-compat>=1.11.1",
"ezmsg[axisarray]>=3.7.3",
"ezmsg[axisarray]>=3.9.0",
"ezmsg-baseproc>=1.6.0",
"mlx>=0.18.0; sys_platform == 'darwin' and platform_machine == 'arm64'",
"numba>=0.61.0",
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4 changes: 2 additions & 2 deletions src/ezmsg/sigproc/align.py
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Expand Up @@ -222,7 +222,7 @@ class AlignAlongAxis(ez.Unit):
async def initialize(self) -> None:
self.processor = AlignAlongAxisProcessor(settings=self.SETTINGS)

@ez.subscriber(INPUT_SIGNAL_A, zero_copy=True)
@ez.subscriber(INPUT_SIGNAL_A)
@ez.publisher(OUTPUT_SIGNAL_A)
@ez.publisher(OUTPUT_SIGNAL_B)
async def on_a(self, msg: AxisArray) -> typing.AsyncGenerator:
Expand All @@ -231,7 +231,7 @@ async def on_a(self, msg: AxisArray) -> typing.AsyncGenerator:
yield self.OUTPUT_SIGNAL_A, pair[0]
yield self.OUTPUT_SIGNAL_B, pair[1]

@ez.subscriber(INPUT_SIGNAL_B, zero_copy=True)
@ez.subscriber(INPUT_SIGNAL_B)
@ez.publisher(OUTPUT_SIGNAL_A)
@ez.publisher(OUTPUT_SIGNAL_B)
async def on_b(self, msg: AxisArray) -> typing.AsyncGenerator:
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4 changes: 2 additions & 2 deletions src/ezmsg/sigproc/decimate.py
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Expand Up @@ -44,8 +44,8 @@ class Decimate(ez.Collection):

SETTINGS = DownsampleSettings

INPUT_SIGNAL = ez.InputStream(AxisArray)
OUTPUT_SIGNAL = ez.OutputStream(AxisArray)
INPUT_SIGNAL = ez.InputTopic(AxisArray)
OUTPUT_SIGNAL = ez.OutputTopic(AxisArray)

FILTER = ChebyForDecimate()
DOWNSAMPLE = Downsample()
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6 changes: 3 additions & 3 deletions src/ezmsg/sigproc/merge.py
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Expand Up @@ -105,9 +105,9 @@ class Merge(ez.Collection):

SETTINGS = MergeSettings

INPUT_SIGNAL_A = ez.InputStream(AxisArray)
INPUT_SIGNAL_B = ez.InputStream(AxisArray)
OUTPUT_SIGNAL = ez.OutputStream(AxisArray)
INPUT_SIGNAL_A = ez.InputTopic(AxisArray)
INPUT_SIGNAL_B = ez.InputTopic(AxisArray)
OUTPUT_SIGNAL = ez.OutputTopic(AxisArray)

ALIGN = AlignAlongAxis()
CONCAT = Concat()
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2 changes: 1 addition & 1 deletion src/ezmsg/sigproc/resample.py
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Expand Up @@ -266,7 +266,7 @@ class ResampleUnit(BaseConsumerUnit[ResampleSettings, AxisArray, ResampleProcess
INPUT_REFERENCE = ez.InputStream(AxisArray)
OUTPUT_SIGNAL = ez.OutputStream(AxisArray)

@ez.subscriber(INPUT_REFERENCE, zero_copy=True)
@ez.subscriber(INPUT_REFERENCE)
async def on_reference(self, message: AxisArray):
self.processor.push_reference(message)

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2 changes: 1 addition & 1 deletion src/ezmsg/sigproc/sampler.py
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Expand Up @@ -195,7 +195,7 @@ class Sampler(BaseTransformerUnit[SamplerSettings, AxisArray, AxisArray, Sampler
async def on_trigger(self, msg: SampleTriggerMessage) -> None:
_ = self.processor.push_trigger(msg)

@ez.subscriber(BaseConsumerUnit.INPUT_SIGNAL, zero_copy=True)
@ez.subscriber(BaseConsumerUnit.INPUT_SIGNAL)
@ez.publisher(BaseTransformerUnit.OUTPUT_SIGNAL)
@profile_subpub(trace_oldest=False)
async def on_signal(self, message: AxisArray) -> typing.AsyncGenerator:
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2 changes: 1 addition & 1 deletion src/ezmsg/sigproc/util/axisarray_buffer.py
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Expand Up @@ -192,7 +192,7 @@ def searchsorted(self, values: typing.Union[float, Array], side: str = "left") -
f_inds = (values - self._linear_axis.offset) / self._linear_axis.gain
res = np.ceil(f_inds)
if side == "right":
res[np.isclose(f_inds, res)] += 1
res[np.isclose(f_inds, res, rtol=0, atol=1e-9)] += 1
return res.astype(int)


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2 changes: 1 addition & 1 deletion src/ezmsg/sigproc/window.py
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Expand Up @@ -271,7 +271,7 @@ class Window(BaseTransformerUnit[WindowSettings, AxisArray, AxisArray, WindowTra
INPUT_SIGNAL = ez.InputStream(AxisArray)
OUTPUT_SIGNAL = ez.OutputStream(AxisArray)

@ez.subscriber(INPUT_SIGNAL, zero_copy=True)
@ez.subscriber(INPUT_SIGNAL)
@ez.publisher(OUTPUT_SIGNAL)
@profile_subpub(trace_oldest=False)
async def on_signal(self, message: AxisArray) -> typing.AsyncGenerator:
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