careamics 0.1.0rc3__py3-none-any.whl → 0.1.0rc5__py3-none-any.whl

careamics-0.1.0rc5.dist-info/RECORD

@@ -0,0 +1,111 @@
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+careamics/careamist.py,sha256=SI-ZQCzw3nAnsUONcaBDoX9CC5P_vfUU-y7LmUn448o,28755
+careamics/conftest.py,sha256=mKIH8SQGO_MMynAQAtqjHkTIQ5KDtY_vKKfFB5F3vmU,659
+careamics/lightning_datamodule.py,sha256=z88iqh_P5J1mWEHlL11JAs7FxWHgOP2TQJM_5zZvLV0,31661
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+careamics/lightning_prediction_loop.py,sha256=EcUSgM2BHkWhjR4zN0NNf2M8xQF_I3aQ9qAFk0slYYw,4483
+careamics/py.typed,sha256=esB4cHc6c07uVkGtqf8at7ttEnprwRxwk8obY8Qumq4,187
+careamics/callbacks/__init__.py,sha256=spxJlDByD-6QtMl9vcIty8Wb0tyHaSTKTItozHenI44,204
+careamics/callbacks/hyperparameters_callback.py,sha256=CdOtxazXi6YXH3Fq4AahqBQ3Ai64YpAMkd8gFnAnkjc,1258
+careamics/callbacks/progress_bar_callback.py,sha256=ojeat3wwaqq7uEAVZBren71CZtNiEch1FR7o8FiaEPg,1868
+careamics/config/__init__.py,sha256=SP1oJKhK3VDN9ABwnpfR3H02qRprzymjRfNYeC7kHEo,1019
+careamics/config/algorithm_model.py,sha256=7Y7-kr9Bc-cCOiavJ6vzahYTdlLZcLZo7FvKOPFZoWg,5732
+careamics/config/callback_model.py,sha256=MAliEULQOTTAFJSXqqR9dlCQdJtknWjkCY3RkhknR2o,3226
+careamics/config/configuration_example.py,sha256=g-y3HTsxz_q-UQ-11aLoprpbc6BjD1dD1gq7PsRgc0Q,2541
+careamics/config/configuration_factory.py,sha256=SBJKjfxHwrxRfRxSfS7xHtWdet-kZbZnlZla-JZQT_I,21734
+careamics/config/configuration_model.py,sha256=j7QryeMNQAsD_0byb81u99Oek2uyj3Syr0nUepFYTe8,18494
+careamics/config/data_model.py,sha256=ueGsuAeH2OZs6Jt7SKDiH26OTU5A9iYcWVwcJ1KSN5s,12946
+careamics/config/inference_model.py,sha256=sZzpsqQBwp8crsluTID3SdT1_gJ9p7gtkT5AsfUnpOs,7909
+careamics/config/noise_models.py,sha256=1P6dXqqBhbVHT7EZ2hluO2aHKIywkAyl4BndrvtKRKU,4338
+careamics/config/optimizer_models.py,sha256=Umu6O2qKv1o4ReWBuldAHmvF0u_DKS5eHCa7YdxvOaw,5266
+careamics/config/tile_information.py,sha256=2bVLTvZfdjPOZVq7jYXVuAFLlPFmJ2DBiwtwm5n7K-U,2939
+careamics/config/training_model.py,sha256=oghv91J7xIdI69wpNJGmLUAwgM9l3VhMsbsOo4USqkU,1559
+careamics/config/architectures/__init__.py,sha256=CdnViydyTdQixus3uWHBIgbgxmu9t1_ADehqpjN_57U,444
+careamics/config/architectures/architecture_model.py,sha256=EomNAhjuhu3uqEjzG6uvRclSQNVuGkcH_mt4R47yIHg,681
+careamics/config/architectures/custom_model.py,sha256=2tMvr6XqFY8hY8Tfljba-kp1c61fDKaV4vylbg4AyUg,4473
+careamics/config/architectures/register_model.py,sha256=sW6fvj54F6G1rg3fmXTwCAu_YcKs3xZTsdYnDGFRahY,2389
+careamics/config/architectures/unet_model.py,sha256=frQp5nWPF0v9X4lR7Y7-KjbmBS1-FIpVVCKCBpIQ5VM,2864
+careamics/config/architectures/vae_model.py,sha256=n1pvVmpelNqQXsXtxXPdmMBBkCLyMIlTQJbMqB-amCc,899
+careamics/config/references/__init__.py,sha256=rZAQzmrciX5cNICcXaBH6sbE6N6L7_qYQUkasNy9y-c,763
+careamics/config/references/algorithm_descriptions.py,sha256=wR3hIoeg5eiUEPbwTxMpQYLTKQyRl_5naSDbBZOZESU,3541
+careamics/config/references/references.py,sha256=AXx08FJQxHb7SYOluCr_eQn_mbOris5dXqhKrCnhBTE,1573
+careamics/config/support/__init__.py,sha256=XMnPEPHVy63DDxAfczIFqFjuYrtDRrbzA5b0Ff1qmyU,1149
+careamics/config/support/supported_activations.py,sha256=-KaTxdm8IJ9c6xkCVMw3SWjbw6wmvV-1WuoeSbyCdH4,476
+careamics/config/support/supported_algorithms.py,sha256=wc3pTYhgoZ0W_O6jcJY0ZsVErYMSTmi24ptw3ezAuUw,316
+careamics/config/support/supported_architectures.py,sha256=EDrh8eghqxWcwjXVhhJpfymV6dsmyaUxk2E397VXXbA,495
+careamics/config/support/supported_data.py,sha256=AvdoWVLLpX5jzozJGUqeo5EJVkb6Z_OcQbaS8AkyHSg,2048
+careamics/config/support/supported_extraction_strategies.py,sha256=aMh6pTcEpvtSN1-gls9DN58SEzHEkHJxxI_tGMh8_X0,579
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+careamics/config/support/supported_losses.py,sha256=fu0SPPhubMVq3zXJk8G8Av9ojWNw62EKm7WnUmapuRs,502
+careamics/config/support/supported_optimizers.py,sha256=Y_Ns3DijRU9xUoY54AMm0VEeIx0ntS_4UkpyBKaSSl4,1337
+careamics/config/support/supported_pixel_manipulations.py,sha256=0lZfCwL9bwPK5E8qzi7l9UGOq41U2fCH9KpxnDEpznc,360
+careamics/config/support/supported_struct_axis.py,sha256=VzyKEVwNARtF9HviAmsHqAjyenHCRFR5UObks6s6R9Y,378
+careamics/config/support/supported_transforms.py,sha256=7lF2ZdWC7Fa7ExemQ6JzM9s9RXM0_tsGWilmmq-MoMw,889
+careamics/config/transformations/__init__.py,sha256=FnLBxNyJ0cTPf8e1dhtkhks5vu_z8Wi48aBjvAPDErk,357
+careamics/config/transformations/n2v_manipulate_model.py,sha256=UTyfpm1mmMvYg_HoMzXilZhJGx_muiV-lLQ4UThCFJ0,1854
+careamics/config/transformations/nd_flip_model.py,sha256=ooQdHZdHQdeAuOJolTArw2hpSIF_NSxc9bqAItsjWy4,586
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+careamics/config/transformations/xy_random_rotate90_model.py,sha256=G9WsuZ02OnpiBeYEPGhEryRiuEvITwVYrohYfEuhhYE,636
+careamics/config/validators/__init__.py,sha256=iv0nVI0W7j9DxFPwh0DjRCzM9P8oLQn4Gwi5rfuFrrI,180
+careamics/config/validators/validator_utils.py,sha256=H11pttfXFdnlUw9FFIgPWy3sxO1ks38dtmYAS6Kl9-c,2624
+careamics/dataset/__init__.py,sha256=cUcqy1Nxa5WhDQim6948r3i1kGQ-HijUqAACyyM7cuU,174
+careamics/dataset/in_memory_dataset.py,sha256=1LmI0aeRalacBkdI1tcoQPWJhi7p9iqUILSa8QaYWZc,10900
+careamics/dataset/iterable_dataset.py,sha256=KDm66o_AFVY2e6eCnydvT16zAeP5hqUHPQ49EQX4VuI,12333
+careamics/dataset/zarr_dataset.py,sha256=cpouzhaWUOkqAjjliJhrtfqVvZEMaq1d9V3LDoEvJQA,5644
+careamics/dataset/dataset_utils/__init__.py,sha256=5U_kavgh_QEvTiDuM-O4hsqmDOKh6_y6iDvZPE8Jtsc,446
+careamics/dataset/dataset_utils/dataset_utils.py,sha256=luTUsKx11gYsbWY10NgmcrRLC6tbh8BTd0FnWpdfTqA,2667
+careamics/dataset/dataset_utils/file_utils.py,sha256=VHK7__34keJfkYWfyrOApalFA0wyINLK7CB79T_Sqm4,4030
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+careamics/dataset/patching/random_patching.py,sha256=93R5a56O4k6CxrWvRpTwkFDnw37tpDTaajcPAQbc4Nw,6025
+careamics/dataset/patching/sequential_patching.py,sha256=2p52u0y8h_mOomMfCuM4icVk7TqdRbjixOtaKUHnQbs,5651
+careamics/dataset/patching/tiled_patching.py,sha256=zypmytFXEMo5V-LTjA4qGyNJGd7tV7aUgLXSUvo90U8,5814
+careamics/dataset/patching/validate_patch_dimension.py,sha256=cHiD2XNX44eArlRR7ZK7_4Mihv3DzjncthgN-nXqR4s,2001
+careamics/losses/__init__.py,sha256=Os1S7QHHd0o3SI1GMHD9eNRmXblXK3I8e80WU6eamCU,215
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+careamics/losses/noise_models.py,sha256=fRr4_mxP_jirC-UkQDVF09RcwqvZJES9JVCc8tccCFc,17801
+careamics/model_io/__init__.py,sha256=HITzjiuZQwo-rQ2_Ma3bz9l7PDANv1_S489E-tffV9s,155
+careamics/model_io/bmz_io.py,sha256=4zcIGopVmDUwkJPmpdnceyRIJQ3PbJjMZ0tTL6OZrFM,6967
+careamics/model_io/model_io_utils.py,sha256=x5u1HszZgRfvuku4eKQhmInyxRaEzkgNqAhGSyLS6e4,2116
+careamics/model_io/bioimage/__init__.py,sha256=r94nu8WDAvj0Fbu4C-iJXdOhfSQXeZBvN3UKsLG0RNI,298
+careamics/model_io/bioimage/_readme_factory.py,sha256=LZAuEiWNBTPaD8KrLPMq16yJuOPKDZiGQuTMHKLvoT4,3514
+careamics/model_io/bioimage/bioimage_utils.py,sha256=nlW0J1daYyLbL6yVN3QSn3HhA2joMjIG-thK64lpVTY,1085
+careamics/model_io/bioimage/model_description.py,sha256=wXGJBzGGSwEds-V0G4mgPvoi4dDXNn_7Tp6iPCsAeTY,9208
+careamics/models/__init__.py,sha256=Wty5hwQb_As33pQOZqY5j-DpDOdh5ArBH4BhQDSuXTQ,133
+careamics/models/activation.py,sha256=21g0isrf_SpY4MUQoxbcsc1hAP5luSmWgtzGOvXKzTw,936
+careamics/models/layers.py,sha256=rm72-gWsIaJ0ZmjAuGIGa-XFioVsWlL1SDN8ono8f7w,11558
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+careamics/models/unet.py,sha256=NYYfL3N_tnXUU6j7l6qDP2IU031sN5aNunHAyWhTDeg,13431
+careamics/prediction/__init__.py,sha256=-Bfc7UqPSqpGx0NGvHMkE-bHOkZYMn7EaxQ9tO6A3uU,118
+careamics/prediction/stitch_prediction.py,sha256=msrtuFKmCgC6BqrG2rmItwZcVDNd_RfClxDeFW2eDOM,2216
+careamics/transforms/__init__.py,sha256=cv4mmAWvcCT1-WGWhFD80gC1nM8ZHy8OjLIltOS3s5U,483
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+careamics/utils/torch_utils.py,sha256=g1zxdlM7_BA7mMLcCzmrxZX4LmH__KXlJibC95muVaA,3014
+careamics-0.1.0rc5.dist-info/METADATA,sha256=b1tXRpeNsl51L5wwwLvXOUmm4T3qT5j3qdvlj9yaY98,3413
+careamics-0.1.0rc5.dist-info/WHEEL,sha256=zEMcRr9Kr03x1ozGwg5v9NQBKn3kndp6LSoSlVg-jhU,87
+careamics-0.1.0rc5.dist-info/licenses/LICENSE,sha256=6zdNW-k_xHRKYWUf9tDI_ZplUciFHyj0g16DYuZ2udw,1509
+careamics-0.1.0rc5.dist-info/RECORD,,

careamics/dataset/patching/patch_transform.py

@@ -1,44 +0,0 @@
-from typing import List, Union
-
-import albumentations as Aug
-
-from careamics.config.data_model import TRANSFORMS_UNION
-from careamics.transforms import get_all_transforms
-
-
-# TODO add some explanations on how the additional_targets is used
-def get_patch_transform(
-    patch_transforms: Union[List[TRANSFORMS_UNION], Aug.Compose],
-    with_target: bool,
-    normalize_mask: bool = True,
-) -> Aug.Compose:
-    """Return a pixel manipulation function."""
-    # if we passed a Compose, we just return it
-    if isinstance(patch_transforms, Aug.Compose):
-        return patch_transforms
-
-    # empty list of transforms is a NoOp
-    elif len(patch_transforms) == 0:
-        return Aug.Compose(
-            [Aug.NoOp()],
-            additional_targets={},  # TODO this part need be checked (wrt segmentation)
-        )
-
-    # else we have a list of transforms
-    else:
-        # retrieve all transforms
-        all_transforms = get_all_transforms()
-
-        # instantiate all transforms
-        transforms = [
-            all_transforms[transform.name](**transform.model_dump())
-            for transform in patch_transforms
-        ]
-
-        return Aug.Compose(
-            transforms,
-            # apply image aug to "target"
-            additional_targets={"target": "image"}
-            if (with_target and normalize_mask)  # TODO check this
-            else {},
-        )

careamics-0.1.0rc3.dist-info/RECORD

@@ -1,109 +0,0 @@
-careamics/__init__.py,sha256=7Zfey0kcF5eSouzc0I1bnGg77wys7NyRy61s9BCU3Xs,676
-careamics/careamist.py,sha256=44JhiyRsuPH_rmfoIdECpolp8bXnFBv3CUCm8pBb0zU,28336
-careamics/conftest.py,sha256=WR_iw4Eebfq6r_sY1No4GfB-_XG5JMkpxXpoorWy8Eg,658
-careamics/lightning_datamodule.py,sha256=MA6qwvCAf-Umz8fwJJgGEsXX76yVa_8BFEo4nsMBYuQ,28552
-careamics/lightning_module.py,sha256=nxReAzoWBZZy2E8JMsef72hIC_4WTh0kvvVf5sgpcYM,10159
-careamics/lightning_prediction_datamodule.py,sha256=yzJcfvhlN8k6ylOrTO-Y_NLSeQNTHklqhhjFxffLyiA,15053
-careamics/lightning_prediction_loop.py,sha256=EcUSgM2BHkWhjR4zN0NNf2M8xQF_I3aQ9qAFk0slYYw,4483
-careamics/py.typed,sha256=esB4cHc6c07uVkGtqf8at7ttEnprwRxwk8obY8Qumq4,187
-careamics/callbacks/__init__.py,sha256=spxJlDByD-6QtMl9vcIty8Wb0tyHaSTKTItozHenI44,204
-careamics/callbacks/hyperparameters_callback.py,sha256=CdOtxazXi6YXH3Fq4AahqBQ3Ai64YpAMkd8gFnAnkjc,1258
-careamics/callbacks/progress_bar_callback.py,sha256=ojeat3wwaqq7uEAVZBren71CZtNiEch1FR7o8FiaEPg,1868
-careamics/config/__init__.py,sha256=V8oV-QxJAGtjZRcyMIeSPqONJvzXroRB_-pA_uDEr70,886
-careamics/config/algorithm_model.py,sha256=sBUX80tdnzlvdUYlPJ9m4dUAL8GKu22BcrUfZT6jQoE,5727
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-careamics/config/configuration_model.py,sha256=KK7r_JIgGt07CoK-HCrS-sb2wHMC6M9zLZ9OeVLNGc0,18730
-careamics/config/data_model.py,sha256=hPdpX08B2_woGRnwKU6IQtUbTQ_br5upNsAPjbbkX-g,16806
-careamics/config/inference_model.py,sha256=-iLrXlJbjFaCoy9jX1YDb2Afvl7xRj3rSeTt-oblzSE,8126
-careamics/config/noise_models.py,sha256=1P6dXqqBhbVHT7EZ2hluO2aHKIywkAyl4BndrvtKRKU,4338
-careamics/config/optimizer_models.py,sha256=Umu6O2qKv1o4ReWBuldAHmvF0u_DKS5eHCa7YdxvOaw,5266
-careamics/config/tile_information.py,sha256=2bVLTvZfdjPOZVq7jYXVuAFLlPFmJ2DBiwtwm5n7K-U,2939
-careamics/config/training_model.py,sha256=T0E0uu_u7dVQg5rZIynD-JhCVbKKzFO7EP-CboiFLsU,1557
-careamics/config/architectures/__init__.py,sha256=CdnViydyTdQixus3uWHBIgbgxmu9t1_ADehqpjN_57U,444
-careamics/config/architectures/architecture_model.py,sha256=EomNAhjuhu3uqEjzG6uvRclSQNVuGkcH_mt4R47yIHg,681
-careamics/config/architectures/custom_model.py,sha256=2tMvr6XqFY8hY8Tfljba-kp1c61fDKaV4vylbg4AyUg,4473
-careamics/config/architectures/register_model.py,sha256=sW6fvj54F6G1rg3fmXTwCAu_YcKs3xZTsdYnDGFRahY,2389
-careamics/config/architectures/unet_model.py,sha256=8zV9W1x9lvSCWNgtXmnPMBqt7s_-AzsUex9sjjNTe9c,2788
-careamics/config/architectures/vae_model.py,sha256=n1pvVmpelNqQXsXtxXPdmMBBkCLyMIlTQJbMqB-amCc,899
-careamics/config/references/__init__.py,sha256=rZAQzmrciX5cNICcXaBH6sbE6N6L7_qYQUkasNy9y-c,763
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