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Merged
Jammy2211 merged 1 commit into from
Jul 17, 2026
Merged

CTI resurrection Phase 1: Plotter to matplotlib function API #85

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14 changes: 7 additions & 7 deletions AGENTS.md
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Expand Up @@ -22,13 +22,13 @@ stack imports autocti — it is a leaf like PyAutoLens.
This repo was unmaintained for ~2 years and is being brought back into the
ecosystem via the CTI resurrection epic
([PyAutoCTI#82](https://github.com/PyAutoLabs/PyAutoCTI/issues/82)). Phase 0
(importable + unit tests green on the current stack) is complete. **The
visualization layer (`autocti/plot/`, `*/plot/*_plotters.py`,
`*/model/plotter_interface.py`) is quarantined**: it still targets the removed
autoarray Plotter API and is rewritten on the matplotlib function API
(mirroring PyAutoGalaxy) in Phase 1. Until then `autocti.plot` is not
importable, `Analysis` visualization no-ops with a logged warning, and the
plot tests are skipped via `test_autocti/conftest.py`.
(importable + unit tests green on the current stack) and Phase 1 (the
visualization layer rewritten on the matplotlib **function API**, mirroring
PyAutoGalaxy: per-domain `plot/*_plots.py` function modules, config-gated
`model/plotter.py` orchestrators, `autocti/util/plot_utils.py` helpers) are
complete. Remaining: Phase 2 autofit sync (5 aggregator tests skipped pending
the `AnalysisFactor`/`FactorGraphModel` port), Phase 3 CI + ecosystem
plumbing, Phase 4 workspace update, Phase 5 workspace_test rebuild + release.

## arcticpy (read before installing)

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165 changes: 81 additions & 84 deletions autocti/__init__.py
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@@ -1,84 +1,81 @@
from autoconf.dictable import from_dict, from_json, output_to_json, to_dict

from autoarray.mask.mask_1d import Mask1D
from autoarray.layout.region import Region1D
from autoarray.layout.region import Region2D
from autoarray.structures.arrays.uniform_1d import Array1D
from autoarray.structures.arrays.uniform_2d import Array2D
from autoarray.structures.arrays.irregular import ArrayIrregular
from autoarray.structures.header import Header
from autoarray.dataset import preprocess
from autoarray.dataset.imaging.dataset import Imaging

from arcticpy import ROE
from arcticpy import ROEChargeInjection
from arcticpy import CCD
from arcticpy import CCDPhase
from arcticpy import TrapInstantCapture
from arcticpy import TrapSlowCapture
from arcticpy import TrapInstantCaptureContinuum
from arcticpy import TrapSlowCaptureContinuum
from arcticpy import PixelBounce

from .charge_injection.fit import FitImagingCI
from .charge_injection.hyper import HyperCINoiseScalar
from .charge_injection.hyper import HyperCINoiseCollection
from .charge_injection.imaging.imaging import ImagingCI
from .charge_injection.imaging.settings import SettingsImagingCI
from .charge_injection.imaging.simulator import SimulatorImagingCI
from .charge_injection.layout import Layout2DCI
from .cosmics.cosmics import SimulatorCosmicRayMap
from .extract.settings import SettingsExtract
from .extract.two_d.parallel.overscan import Extract2DParallelOverscan
from .extract.two_d.parallel.fpr import Extract2DParallelFPR
from .extract.two_d.parallel.eper import Extract2DParallelEPER
from .extract.two_d.parallel.pre_injection import Extract2DParallelPreInjection
from .extract.two_d.parallel.pedestal import Extract2DParallelPedestal
from .extract.two_d.serial.prescan import Extract2DSerialPrescan
from .extract.two_d.serial.overscan import Extract2DSerialOverscan
from .extract.two_d.serial.overscan_no_eper import Extract2DSerialOverscanNoEPER
from .extract.two_d.serial.fpr import Extract2DSerialFPR
from .extract.two_d.serial.eper import Extract2DSerialEPER
from .extract.two_d.parallel.calibration import Extract2DParallelCalibration
from .extract.two_d.serial.calibration import Extract2DSerialCalibration
from .extract.two_d.master import Extract2DMaster
from .instruments import euclid
from .instruments import acs
from .charge_injection.fit import FitImagingCI
from .charge_injection.imaging.readout_persistence import ReadoutPersistence
from .mask.mask_2d import Mask2D
from .mask.mask_2d import SettingsMask2D
from .mask.mask_1d import Mask1D
from .mask.mask_1d import SettingsMask1D
from .extract.one_d.overscan import Extract1DOverscan
from .extract.one_d.fpr import Extract1DFPR
from .extract.one_d.eper import Extract1DEPER
from .extract.one_d.master import Extract1DMaster
from .layout.one_d import Layout1D
from .dataset_1d.dataset_1d.dataset_1d import Dataset1D
from .dataset_1d.dataset_1d.simulator import SimulatorDataset1D
from .dataset_1d.fit import FitDataset1D
from .dataset_1d.model.analysis import AnalysisDataset1D
from .dataset_1d.model.result import ResultDataset1D
from .charge_injection.model.analysis import AnalysisImagingCI
from .charge_injection.model.result import ResultImagingCI
from .model.analysis import AnalysisCTI
from .model.model_util import CTI1D
from .model.model_util import CTI2D
from .model.settings import SettingsCTI1D
from .model.settings import SettingsCTI2D
from .clocker.one_d import Clocker1D
from .clocker.two_d import Clocker2D
from . import aggregator as agg
from . import util

# `from . import plot` is quarantined: the Plotter object stack targets the
# removed autoarray Plotter API and is rewritten on the new matplotlib function
# API in Phase 1 of the CTI resurrection epic (PyAutoCTI#82).
from . import mock as m # noqa

from autoconf import conf

conf.instance.register(__file__)

__version__ = "2024.11.13.2"
from autoconf.dictable import from_dict, from_json, output_to_json, to_dict

from autoarray.mask.mask_1d import Mask1D
from autoarray.layout.region import Region1D
from autoarray.layout.region import Region2D
from autoarray.structures.arrays.uniform_1d import Array1D
from autoarray.structures.arrays.uniform_2d import Array2D
from autoarray.structures.arrays.irregular import ArrayIrregular
from autoarray.structures.header import Header
from autoarray.dataset import preprocess
from autoarray.dataset.imaging.dataset import Imaging

from arcticpy import ROE
from arcticpy import ROEChargeInjection
from arcticpy import CCD
from arcticpy import CCDPhase
from arcticpy import TrapInstantCapture
from arcticpy import TrapSlowCapture
from arcticpy import TrapInstantCaptureContinuum
from arcticpy import TrapSlowCaptureContinuum
from arcticpy import PixelBounce

from .charge_injection.fit import FitImagingCI
from .charge_injection.hyper import HyperCINoiseScalar
from .charge_injection.hyper import HyperCINoiseCollection
from .charge_injection.imaging.imaging import ImagingCI
from .charge_injection.imaging.settings import SettingsImagingCI
from .charge_injection.imaging.simulator import SimulatorImagingCI
from .charge_injection.layout import Layout2DCI
from .cosmics.cosmics import SimulatorCosmicRayMap
from .extract.settings import SettingsExtract
from .extract.two_d.parallel.overscan import Extract2DParallelOverscan
from .extract.two_d.parallel.fpr import Extract2DParallelFPR
from .extract.two_d.parallel.eper import Extract2DParallelEPER
from .extract.two_d.parallel.pre_injection import Extract2DParallelPreInjection
from .extract.two_d.parallel.pedestal import Extract2DParallelPedestal
from .extract.two_d.serial.prescan import Extract2DSerialPrescan
from .extract.two_d.serial.overscan import Extract2DSerialOverscan
from .extract.two_d.serial.overscan_no_eper import Extract2DSerialOverscanNoEPER
from .extract.two_d.serial.fpr import Extract2DSerialFPR
from .extract.two_d.serial.eper import Extract2DSerialEPER
from .extract.two_d.parallel.calibration import Extract2DParallelCalibration
from .extract.two_d.serial.calibration import Extract2DSerialCalibration
from .extract.two_d.master import Extract2DMaster
from .instruments import euclid
from .instruments import acs
from .charge_injection.fit import FitImagingCI
from .charge_injection.imaging.readout_persistence import ReadoutPersistence
from .mask.mask_2d import Mask2D
from .mask.mask_2d import SettingsMask2D
from .mask.mask_1d import Mask1D
from .mask.mask_1d import SettingsMask1D
from .extract.one_d.overscan import Extract1DOverscan
from .extract.one_d.fpr import Extract1DFPR
from .extract.one_d.eper import Extract1DEPER
from .extract.one_d.master import Extract1DMaster
from .layout.one_d import Layout1D
from .dataset_1d.dataset_1d.dataset_1d import Dataset1D
from .dataset_1d.dataset_1d.simulator import SimulatorDataset1D
from .dataset_1d.fit import FitDataset1D
from .dataset_1d.model.analysis import AnalysisDataset1D
from .dataset_1d.model.result import ResultDataset1D
from .charge_injection.model.analysis import AnalysisImagingCI
from .charge_injection.model.result import ResultImagingCI
from .model.analysis import AnalysisCTI
from .model.model_util import CTI1D
from .model.model_util import CTI2D
from .model.settings import SettingsCTI1D
from .model.settings import SettingsCTI2D
from .clocker.one_d import Clocker1D
from .clocker.two_d import Clocker2D
from . import aggregator as agg
from . import util
from . import plot
from . import mock as m # noqa

from autoconf import conf

conf.instance.register(__file__)

__version__ = "2024.11.13.2"
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