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Repeated assignments are independently executed source copies, not additional genuine wells. Candidate-only execution uses observed repeated-source native outputs at their original cardinality; separate projection inputs do not claim newly observed native executions. Any declared timing model is separate from the unchanged native observations. Native timings and output roots were reused from genuine retained observations; their original source and report SHA are recorded separately." +} \ No newline at end of file diff --git a/benchmark/results/normalization_scaling_receiving_20261008/README.md b/benchmark/results/normalization_scaling_receiving_20261008/README.md new file mode 100644 index 0000000000..b7ebaf3cac --- /dev/null +++ b/benchmark/results/normalization_scaling_receiving_20261008/README.md @@ -0,0 +1,16 @@ +# Matched WoundHealing normalization receiving + +Source: `6cbf26d62db0385e88a2138eaac6809d68dc1898`, clean and frozen through receiving. ArrayBridge: merged `31632d8ce31016f0fe6ef28df61f49da397bf3e6`, version 0.3.8. The existing materialization worktree was reused; native extension source matches the sealed qualified baseline. + +Actual fixed twelve-assignment workload, one and four OpenHCS workers on the same owned endpoint, one warm-up plus three measured repetitions per mode. All 96 assignment comparisons passed existing CellProfiler tolerances, with zero database, CSV, image, or declared-output differences. Native CellProfiler was not re-executed: comparison used genuine retained eight-assignment observations at their original cardinality. No native timing projection or native speedup claim is made here. + +| Workers | Full output-complete execution median | Axis execution span median | Compilation median | Complete client operation median | +| --- | ---: | ---: | ---: | ---: | +| 1 | 7.908462 s | 7.839103 s | 0.179042 s | 8.149202 s | +| 4 | 3.199810 s | 3.060829 s | 0.183937 s | 3.443651 s | + +Actual full execution scaling is **2.471542x** using the newly measured one-worker denominator. Full execution includes worker setup, processing, saving, publication, exports and finalization; external server startup and scientific qualification are excluded. Compilation is reported separately. Four-worker full execution decreased from the published prior cohort's 5.207406 s; the new one-worker measurement is 7.908462 s versus the prior 7.754487 s. The minimum 3x thirty-workflow goal remains unfinished. + +The recipe records endpoint incarnation, all server thread affinities, workload and retained-reference arguments. Parent control uses CPUs 2–5; all server threads use CPU 5 for the one-worker mode and CPUs 2–5 for four workers. Numerical thread limits are one. Qualification uses CPUs 0–1 outside the measured processing clock. + +Diagnostics are explicitly separate from production timings. Source reconstruction proves original loaded pixels are reused; source guards were not loosened. A four-fork saved-source replay priced normalization allocation changes, with exact numerical, metadata and producer-immutability controls. The archived P0 phases were collected before the patch and are diagnostic only. Raw reports, all eight receipts and progress streams, and a SHA-256 inventory support the production result above. This bounded receiving does not replace the published full thirty-workflow manuscript figures. diff --git a/benchmark/results/normalization_scaling_receiving_20261008/diagnostics/concurrent-normalization-proof.json b/benchmark/results/normalization_scaling_receiving_20261008/diagnostics/concurrent-normalization-proof.json new file mode 100644 index 0000000000..209a081849 --- /dev/null +++ b/benchmark/results/normalization_scaling_receiving_20261008/diagnostics/concurrent-normalization-proof.json @@ -0,0 +1,316 @@ +{ + "scope": "Saved exact original JPEG uint8 pixels and reconstructed STACK/source scales; preparation proved source reuse; numeric-only four-fork replay, not production pipeline", + "exact_array_metadata_and_source_immutability": true, + "lanes": [ + [ + { + "round": 0, + "algorithm": "original", + "three_assignments_seconds": 1.0899204779416323, + "user_seconds": 0.098233, + "sys_seconds": 0.981675, + "minor_faults": 149231, + "major_faults": 0 + }, + { + "round": 0, + 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+ 2, + 3, + 4, + 5 + ] + } + } + ] +} \ No newline at end of file diff --git a/benchmark/results/normalization_scaling_receiving_20261008/terminal.json b/benchmark/results/normalization_scaling_receiving_20261008/terminal.json new file mode 100644 index 0000000000..8cbe1180b8 --- /dev/null +++ b/benchmark/results/normalization_scaling_receiving_20261008/terminal.json @@ -0,0 +1,4 @@ +{ + "returncode": 0, + "source_head": "6cbf26d62db0385e88a2138eaac6809d68dc1898" +} \ No newline at end of file diff --git a/external/arraybridge b/external/arraybridge index ee4c0e93d5..31632d8ce3 160000 --- a/external/arraybridge +++ b/external/arraybridge @@ -1 +1 @@ -Subproject commit ee4c0e93d58b6d88bafbcf5168c8db67ca34fade +Subproject commit 31632d8ce31016f0fe6ef28df61f49da397bf3e6 diff --git a/openhcs/core/runtime_image_values.py b/openhcs/core/runtime_image_values.py index 50c51fcc18..2e7466ed4b 100644 --- a/openhcs/core/runtime_image_values.py +++ b/openhcs/core/runtime_image_values.py @@ -249,22 +249,21 @@ def normalize_intensity_payload( "Image intensity scales must match the declared leading plane axis." ) self.require_leading_intensity_axis() - normalized_planes = tuple( - self.normalized_intensity_array( - plane, target_dtype=target_dtype, - scale=self.intensity_scale_for_source_plane(index), + source_dtype = np.dtype(memory_type.canonical_dtype_name(array.dtype)) + scale_proofs = tuple( + self.normalization_scale( + source_dtype, self.intensity_scale_for_source_plane(index), ) - for index, plane in enumerate(array) + for index in range(len(array)) ) metadata = self.replace_fields( unit_interval_intensity=ImageUnitIntervalIntensityMetadata( - source_plane_scales=tuple(proof for _, proof in normalized_planes), + source_plane_scales=tuple(proof for _, proof in scale_proofs), ), ) return metadata.payload_with( - memory_type.stack_arrays( - [plane for plane, _ in normalized_planes], - memory_type.device_id_of(array), + memory_type.normalize_planes( + array, target_dtype, tuple(scale for scale, _ in scale_proofs), ), image_payload_mask(payload), ) @@ -276,6 +275,25 @@ def normalize_intensity_payload( normalized, image_payload_mask(payload), ) + @staticmethod + def normalization_scale( + source_dtype: np.dtype, scale: float | None, + ) -> tuple[float | None, int | None]: + """Admit one current-domain divisor and its integer acquisition proof.""" + if scale is None: + # A promoted float uses its declared source scale, never a range guess. + scale = image_intensity_scale_for_dtype(source_dtype) + if scale is None: + return None, None + if not np.isfinite(scale) or scale <= 0: + raise ValueError("Source intensity scale must be finite and positive.") + proof_scale = ( + int(scale) + if np.issubdtype(source_dtype, np.integer) and float(scale).is_integer() + else None + ) + return scale, proof_scale + @staticmethod def normalized_intensity_array( array: Any, *, target_dtype: np.dtype, scale: float | None, @@ -283,18 +301,12 @@ def normalized_intensity_array( """Apply one numerical recipe without projecting image source identity.""" memory_type = MemoryType(detect_memory_type(array)) source_dtype = np.dtype(memory_type.canonical_dtype_name(array.dtype)) - if scale is None: - # Bare arrays are admitted at this original numerical boundary. A - # promoted float uses its declared source scale, never a range guess. - scale = image_intensity_scale_for_dtype(source_dtype) + scale, proof_scale = ImagePayloadIntensityFields.normalization_scale( + source_dtype, scale, + ) normalized = memory_type.astype(array, target_dtype) - proof_scale = None if scale is not None: - if not np.isfinite(scale) or scale <= 0: - raise ValueError("Source intensity scale must be finite and positive.") normalized = normalized / float(scale) - if np.issubdtype(source_dtype, np.integer) and float(scale).is_integer(): - proof_scale = int(scale) return normalized, proof_scale @classmethod diff --git a/pyproject.toml b/pyproject.toml index eef8e6b0ad..b1063cfe04 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -104,7 +104,7 @@ dependencies = [ "objectstate>=1.3.1,<2", "python-introspect>=0.2.1,<0.3", "metaclass-registry>=0.2.2,<0.3", - "arraybridge>=0.3.7,<0.4", + "arraybridge>=0.3.8,<0.4", "polystore>=0.3.3,<0.4", "pyqt-reactive>=0.3.27,<0.4", ]