LoopStructural 1.6.7__py3-none-any.whl → 1.6.8__py3-none-any.whl

LoopStructural/utils/_transformation.py

@@ -6,7 +6,11 @@ logger = getLogger(__name__)
 
 class EuclideanTransformation:
     def __init__(
-        self, dimensions: int = 2, angle: float = 0, translation: np.ndarray = np.zeros(3)
+        self,
+        dimensions: int = 2,
+        angle: float = 0,
+        translation: np.ndarray = np.zeros(3),
+        fit_rotation: bool = True,
     ):
         """Transforms points into a new coordinate
         system where the main eigenvector is aligned with x
@@ -23,6 +27,7 @@ class EuclideanTransformation:
         self.translation = translation[:dimensions]
         self.dimensions = dimensions
         self.angle = angle
+        self.fit_rotation = fit_rotation
 
     def fit(self, points: np.ndarray):
         """Fit the transformation to a point cloud
@@ -45,13 +50,16 @@ class EuclideanTransformation:
             raise ValueError("Points must have at least {} dimensions".format(self.dimensions))
         # standardise the points so that centre is 0
         # self.translation = np.zeros(3)
-        self.translation = np.mean(points, axis=0)
+        self.translation = np.mean(points[:, : self.dimensions], axis=0)
         # find main eigenvector and and calculate the angle of this with x
-        pca = decomposition.PCA(n_components=self.dimensions).fit(
-            points[:, : self.dimensions] - self.translation[None, : self.dimensions]
-        )
-        coeffs = pca.components_
-        self.angle = -np.arccos(np.dot(coeffs[0, :], [1, 0]))
+        if self.fit_rotation:
+            pca = decomposition.PCA(n_components=self.dimensions).fit(
+                points[:, : self.dimensions] - self.translation[None, : self.dimensions]
+            )
+            coeffs = pca.components_
+            self.angle = -np.arccos(np.dot(coeffs[0, :], [1, 0]))
+        else:
+            self.angle = 0
         return self
 
     @property
@@ -93,13 +101,15 @@ class EuclideanTransformation:
         points = np.array(points)
         if points.shape[1] < self.dimensions:
             raise ValueError("Points must have at least {} dimensions".format(self.dimensions))
-        centred = points - self.translation
-
-        return np.einsum(
+        centred = points[:, : self.dimensions] - self.translation[None, :]
+        rotated = np.einsum(
             'ik,jk->ij',
             centred,
             self.rotation[: self.dimensions, : self.dimensions],
         )
+        transformed_points = np.copy(points)
+        transformed_points[:, : self.dimensions] = rotated
+        return transformed_points
 
     def inverse_transform(self, points: np.ndarray) -> np.ndarray:
         """
@@ -115,15 +125,20 @@ class EuclideanTransformation:
         np.ndarray
             xyz points in the original coordinate system
         """
-
-        return (
+        inversed = (
             np.einsum(
                 'ik,jk->ij',
-                points,
+                points[: self.dimensions],
                 self.inverse_rotation[: self.dimensions, : self.dimensions],
             )
             + self.translation
         )
+        inversed = (
+            np.vstack([inversed, points[self.dimensions :]])
+            if points.shape[1] > self.dimensions
+            else inversed
+        )
+        return inversed
 
     def __call__(self, points: np.ndarray) -> np.ndarray:
         """

LoopStructural/utils/colours.py

@@ -18,12 +18,14 @@ def random_colour(n: int = 1, cmap='tab20'):
         List of colours in the form of (r,g,b,a) tuples
     """
     from matplotlib import colormaps as cm
+
     colours = []
     for _i in range(n):
         colours.append(cm.get_cmap(cmap)(rng.random()))
 
     return colours
 
+
 def random_hex_colour(n: int = 1, cmap='tab20'):
     """
     Generate a list of random colours
@@ -46,4 +48,4 @@ def random_hex_colour(n: int = 1, cmap='tab20'):
     for _i in range(n):
         colours.append(cm.get_cmap(cmap)(rng.random()))
 
-    return [f'#{int(c[0]*255):02x}{int(c[1]*255):02x}{int(c[2]*255):02x}' for c in colours]
+    return [f'#{int(c[0]*255):02x}{int(c[1]*255):02x}{int(c[2]*255):02x}' for c in colours]

LoopStructural/version.py

@@ -1 +1 @@
-__version__ = "1.6.7"
+__version__ = "1.6.8"

{LoopStructural-1.6.7.dist-info → LoopStructural-1.6.8.dist-info}/METADATA

@@ -1,6 +1,6 @@
 Metadata-Version: 2.2
 Name: LoopStructural
-Version: 1.6.7
+Version: 1.6.8
 Summary: 3D geological modelling
 Author-email: Lachlan Grose <lachlan.grose@monash.edu>
 License: MIT
@@ -28,9 +28,9 @@ Requires-Dist: pandas
 Requires-Dist: scipy
 Requires-Dist: scikit-image
 Requires-Dist: scikit-learn
-Requires-Dist: tqdm
 Provides-Extra: all
 Requires-Dist: loopstructural[export,inequalities,visualisation]; extra == "all"
+Requires-Dist: tqdm; extra == "all"
 Provides-Extra: visualisation
 Requires-Dist: matplotlib; extra == "visualisation"
 Requires-Dist: pyvista; extra == "visualisation"
@@ -41,7 +41,6 @@ Requires-Dist: pyevtk; extra == "export"
 Requires-Dist: dill; extra == "export"
 Provides-Extra: jupyter
 Requires-Dist: pyvista[all]; extra == "jupyter"
-Requires-Dist: tqdm; extra == "jupyter"
 Provides-Extra: inequalities
 Requires-Dist: loopsolver; extra == "inequalities"
 Provides-Extra: docs
@@ -58,6 +57,7 @@ Requires-Dist: geoh5py; extra == "docs"
 Requires-Dist: geopandas; extra == "docs"
 Requires-Dist: sphinxcontrib-bibtex; extra == "docs"
 Requires-Dist: myst-parser; extra == "docs"
+Requires-Dist: sphinx-design; extra == "docs"
 
 # LoopStructural: Loop3D Implicit Geological Modelling
 

{LoopStructural-1.6.7.dist-info → LoopStructural-1.6.8.dist-info}/RECORD

@@ -1,5 +1,5 @@
-LoopStructural/__init__.py,sha256=nlJ0csTZ_xlTZrWvTKiTp3ER_XRQN6iqQ5sR94RD5QA,1331
-LoopStructural/version.py,sha256=oUc5vcFny_sz8QQQyYQ6IGYmCI8isodNnAnIYUPypOY,22
+LoopStructural/__init__.py,sha256=fg_Vm1aMDYIf_CffTFopLsTx21u6deLaI7JMVpRYdOI,1378
+LoopStructural/version.py,sha256=PRuPGcPfxOnMhLtrBQIrBwTij1YQIyopsHDXZnO28RU,22
 LoopStructural/datasets/__init__.py,sha256=ylb7fzJU_DyQ73LlwQos7VamqkDSGITbbnoKg7KAOmE,677
 LoopStructural/datasets/_base.py,sha256=FB_D5ybBYHoaNbycdkpZcRffzjrrL1xp9X0k-pyob9Y,7618
 LoopStructural/datasets/_example_models.py,sha256=Zg33IeUyh4C-lC0DRMLqCDP2IrX8L-gNV1WxJwBGjzM,113
@@ -29,81 +29,81 @@ LoopStructural/datasets/data/geological_map_data/stratigraphic_order.csv,sha256=
 LoopStructural/datasets/data/geological_map_data/stratigraphic_orientations.csv,sha256=RysyqUAIjY6iIDUfTh11n9QUQWXB_qxKnZeN_DqNzlY,26745
 LoopStructural/datasets/data/geological_map_data/stratigraphic_thickness.csv,sha256=pnSmG-wL8-kxuoHo_pgpJrfTmsZOzc8L0vxpBRh3r8A,355
 LoopStructural/datatypes/__init__.py,sha256=lVg64DnynMm58qvYTjLrcyWH7vk2ngr9JGMo5FaiALI,160
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-LoopStructural/datatypes/_surface.py,sha256=3RLA6-zkWE1L3IvXdrq92Dd5asnI9Lf6ebcNmrMnn98,6445
+LoopStructural/datatypes/_bounding_box.py,sha256=pL_j4sot1qxQG-W9P6LYDOZyaIAx862kK_DWZIY-OIs,17853
+LoopStructural/datatypes/_point.py,sha256=sCZiWRdnbIH_P9b52btNrotrttWlE-e4Mr2BBwfAAZY,7710
+LoopStructural/datatypes/_structured_grid.py,sha256=mc-UM1Gh_BjHFItuPE4FF5wvGzJnSqF2MTx_xvrwcTk,5088
+LoopStructural/datatypes/_surface.py,sha256=IgXKcwZw3mF2DIImO7LT-HUapqABa8LU0WsxXTiqEHo,6562
 LoopStructural/export/exporters.py,sha256=BniZu-PqQvHqCU6GIuJQ5FPzI9Dx_T6rI8EW1pykois,17209
 LoopStructural/export/file_formats.py,sha256=0xKyYSW4Jv_4jsXwusg-WO6PNUhZKd6HdWSqGSaPve8,232
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 LoopStructural/export/gocad.py,sha256=cQ6v7ZD0CVubt3c2f9EwAYrziu5bEFSWBtx0uade5mg,3370
 LoopStructural/export/omf_wrapper.py,sha256=4vcF4WOQIVEYsWrfATgKCDh8nUybLTbrlXnCxZ_3fkU,3392
-LoopStructural/interpolators/__init__.py,sha256=h-m1FkkRFGCnXWJSWwFKrfgCDtmboAPvJrpXCL58Huc,3450
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 LoopStructural/interpolators/_api.py,sha256=EC4ogG2uPq-z_pgNGd_eTieTl92eaZ-rjyoFwXiHL_s,7839
 LoopStructural/interpolators/_builders.py,sha256=B49KsxB8RRN6IHDfGT43nXWe_Av1SVVT8vm2Nh1oEiQ,6758
 LoopStructural/interpolators/_discrete_fold_interpolator.py,sha256=eDe0R1lcQ0AuMcv7zlpu5c-soCv7AybIqQAuN2vFE3M,6542
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-LoopStructural/interpolators/_interpolator_factory.py,sha256=WcAbLtxLs4T5tt9ysZb-lorwgVi8utNunHsRCJrJd2k,2864
+LoopStructural/interpolators/_discrete_interpolator.py,sha256=i_joZ8HOf_s6Q2L8gHFnhkdtgyED1SjATxRsRd1HxRU,26038
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 LoopStructural/interpolators/_operator.py,sha256=PZOUzq9OMaJdG151dSLIo7AxRuhTj6-zEAzFZo-EOJU,1114
 LoopStructural/interpolators/_p1interpolator.py,sha256=4rjj4iaw2c8hOfBS9u8ycxzijYdmvpeijvhYRwUwZg0,8736
 LoopStructural/interpolators/_p2interpolator.py,sha256=UT-As5RNsmOwHOzO_6FiRcAwlNHfi4ILbJw2LGpwKAw,10274
-LoopStructural/interpolators/_surfe_wrapper.py,sha256=uwqABnixan9bcyU08hbxO9ATO4DawItuGSGj7iAKa9U,6772
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 LoopStructural/interpolators/_cython/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
-LoopStructural/interpolators/supports/_2d_base_unstructured.py,sha256=maHzpHnPRoo5IOLcp4Si7kj0oaxFox8XYrknwErbyoo,11796
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 LoopStructural/interpolators/supports/_2d_p1_unstructured.py,sha256=okcy56nyjuedmknQn_95V2tm0kdMA-oJcD3U2jU8u0w,2637
 LoopStructural/interpolators/supports/_2d_p2_unstructured.py,sha256=TeBVtT1PMV7CKzmnFZke37acMoFxouer20cskS7pVoE,10422
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 LoopStructural/interpolators/supports/_2d_structured_tetra.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
-LoopStructural/interpolators/supports/_3d_base_structured.py,sha256=x3IuXXryyRR_R91e4BbAN0BsbgMTR8fldfQgQR3lRmA,15712
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 LoopStructural/interpolators/supports/_3d_p2_tetra.py,sha256=CqGVJRUMxbPQZDhhopNt_s9gVhMqh4YbjQyDZonoyxc,11574
-LoopStructural/interpolators/supports/_3d_structured_grid.py,sha256=0H5wh5pBcxqw3crFeXdpnaKMfbSmJNOt-v9-IQa8tSM,17286
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 LoopStructural/interpolators/supports/_3d_structured_tetra.py,sha256=5zUNtvEXDvbCHZCu6Fz9WjGbnrMaq-sYJqNUufyLcq8,26505
-LoopStructural/interpolators/supports/_3d_unstructured_tetra.py,sha256=vc9ZffCYk7m1Ae5-H_m1P5OCHgBa9jztrklugMPPiHc,23500
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 LoopStructural/interpolators/supports/__init__.py,sha256=V0JjixoBIUZVAo5MmqARR67xDOoQwnb4G3SXeOMRSyQ,1603
 LoopStructural/interpolators/supports/_aabb.py,sha256=Z-kH_u6c6izak0aHG3Uo14PEKQeZmYlevLDC32Q06xk,3208
-LoopStructural/interpolators/supports/_base_support.py,sha256=5Cwq16EhA2rx4-DFUmoM5z6DRnDfRLkachBpGyzShdM,2420
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 LoopStructural/interpolators/supports/_face_table.py,sha256=Hyj4Io63NkPRN8ab9uDHyec-2Kb8BLY_xBF6STNlvBw,3095
-LoopStructural/interpolators/supports/_support_factory.py,sha256=c86NnM4azWhS2ajPApePap0sFI82mZC8siVAU1fCOn4,1175
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 LoopStructural/modelling/__init__.py,sha256=oW7dz6c8K1A0VcW7-mVcyqcENUrtybCb3eVUNXFvMfA,656
 LoopStructural/modelling/core/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
-LoopStructural/modelling/core/geological_model.py,sha256=5P1T4eA-GQd5hp3t7pOO4pa7JGqdXXMk5k-OlKv3HKo,66230
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 LoopStructural/modelling/features/__init__.py,sha256=Vf-qd5EDBtJ1DpuXXyCcw2-wf6LWPRW5wzxDEO3vOc8,939
 LoopStructural/modelling/features/_analytical_feature.py,sha256=U_g86LgQhYY2359rdsDqpvziYwqrWkc5EdvhJARiUWo,3597
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-LoopStructural/modelling/features/_projected_vector_feature.py,sha256=5y1rMq3ZGG4ObSIQBcqFW_E0mfiKlFPoEdWjjnhrpwk,3017
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 LoopStructural/modelling/features/_region.py,sha256=TB4qnoTDQM2VgRjgyODN839fKe3kuRYLllJj0xnDKXo,478
 LoopStructural/modelling/features/_structural_frame.py,sha256=e3QmNHLwuZc5PX3rLafocmBLNTclO90AXB4BRILCFC4,5044
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 LoopStructural/modelling/features/builders/__init__.py,sha256=Gqld1C-PcaXfJ8vpkWMDCmehmd3hZNYQk1knPtl59Bk,266
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 LoopStructural/modelling/features/builders/_fault_builder.py,sha256=EyDLyovrnxqSk11zWFnViok7lXMt_E-pG2QqgRgvOLk,25653
 LoopStructural/modelling/features/builders/_folded_feature_builder.py,sha256=1_0BVTzcvmFl6K3_lX-jF0tiMFPmS8j6vPeSLn9MbrE,6607
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 LoopStructural/modelling/features/fault/__init__.py,sha256=4u0KfYzmoO-ddFGo9qd9ov0gBoLqBiPAUsaw5zhEOAQ,189
 LoopStructural/modelling/features/fault/_fault_function.py,sha256=5IzVyvv1tS5Z6geMB8FdTZpGrBYbyu38cOH03NACm0o,12797
 LoopStructural/modelling/features/fault/_fault_function_feature.py,sha256=4m0jVNx7ewrVI0pECI1wNciv8Cy8FzhZrYDjKJ_e2GU,2558
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 LoopStructural/modelling/features/fold/_fold.py,sha256=bPnnLUSiF4uoMRg8aHoOSTPRgaM0JyLoRQPu5_A-J3w,5448
 LoopStructural/modelling/features/fold/_fold_rotation_angle_feature.py,sha256=CXLbFRQ3CrTMAcHmfdbKcmSvvLs9_6TLe0Wqi1pK2tg,892
 LoopStructural/modelling/features/fold/_foldframe.py,sha256=Rgf5aofN0OVDTZ2pzqLzAGlJUO2rnNm3aFvLSnH77yo,7669
 LoopStructural/modelling/features/fold/_svariogram.py,sha256=uzGaKZ5HGh8xZcsGGg68GUKVjkd5udLy7-4lh0NQc2Y,7765
 LoopStructural/modelling/features/fold/fold_function/__init__.py,sha256=VqMjabsBd5GnPnDMXeKwXqtd0te2iXnvHxpf6jCC9YU,830
-LoopStructural/modelling/features/fold/fold_function/_base_fold_rotation_angle.py,sha256=EC9q-zKX86AoDruXg_6MOD7lo1kVshfFcLlZ25EfFp0,8048
+LoopStructural/modelling/features/fold/fold_function/_base_fold_rotation_angle.py,sha256=5Bu_5xjyu4KL7thZ4fsh938Ep3Oyh5TL7_rfz_13Qng,8047
 LoopStructural/modelling/features/fold/fold_function/_fourier_series_fold_rotation_angle.py,sha256=Cjb6Pt6cdRoH3WGqFyJ2rHxnMe6SKvzRayA6hTuwZA8,4069
-LoopStructural/modelling/features/fold/fold_function/_lambda_fold_rotation_angle.py,sha256=U-IL7DETQhKh7a-cHlEKtsIg2kd8JZqO2gWyb_PKB8k,1446
-LoopStructural/modelling/features/fold/fold_function/_trigo_fold_rotation_angle.py,sha256=v-3YkBbsqPdbPZD2ykPB3vLKz3W_BDSF2m0uxtpP2vo,4904
+LoopStructural/modelling/features/fold/fold_function/_lambda_fold_rotation_angle.py,sha256=TezZFSLKxILOkzuM27zO7qr58TGbDUxMgIG_le_SyG8,1445
+LoopStructural/modelling/features/fold/fold_function/_trigo_fold_rotation_angle.py,sha256=z2zKcCTDyM2S0fCyL-jNAGo-LXIzNr_9fsUPkH8pZUY,4903
 LoopStructural/modelling/input/__init__.py,sha256=HhJM3V5b-8_64LiRbF3Bd1pjWhJlcknxMSMPRrqZ0-I,153
 LoopStructural/modelling/input/fault_network.py,sha256=0uxl7lOySdhMhNXoiOkuiHIXqAz1Ls0j-W65cmdQoP8,2348
 LoopStructural/modelling/input/map2loop_processor.py,sha256=T7Fgqd7FNJWylLKvfIniRZBMRMeAoP8iU330-WYU8Fg,7031
-LoopStructural/modelling/input/process_data.py,sha256=E0US-Rh9dlUdXejfimcLPsBIBfa6Xx6Nwm6VEMNeVUM,26269
+LoopStructural/modelling/input/process_data.py,sha256=9xWZtFWbE5NjJzULSZDJt-qccV0GuZ-oNMi3nfxPT-M,26293
 LoopStructural/modelling/input/project_file.py,sha256=WhJkMfDK9uE7MK7HK-YK6ZOBAdwLX5P7ThZgXj444Eg,4604
 LoopStructural/modelling/intrusions/__init__.py,sha256=EpZK3cHJwGQhPUYIwKCKu8vkNdt_nOgWF0zfhiqDYDA,712
 LoopStructural/modelling/intrusions/geom_conceptual_models.py,sha256=jwTlhYySUj7z4DEnJoi4AINZB_N3-SW6ONRFL66OsW0,3665
@@ -113,9 +113,9 @@ LoopStructural/modelling/intrusions/intrusion_feature.py,sha256=ESjtikHFJQzUnowb
 LoopStructural/modelling/intrusions/intrusion_frame_builder.py,sha256=Q1TPHxREcrO7Rw71nUfACZHfYnISLjqlgkUNTPT324k,40143
 LoopStructural/modelling/intrusions/intrusion_support_functions.py,sha256=wodakheMD62WJyoKnyX8UO-C1pje0I-5kHQEoDqShzo,13951
 LoopStructural/utils/__init__.py,sha256=OJqNSu40SYJeC26IhoBBXDqQOogWjMGA-YokKVRrwMs,924
-LoopStructural/utils/_surface.py,sha256=Slz5CvH1KkMq1ycWHILQ_elNoLmzDFdZ2LdDL2q9Ml4,5962
-LoopStructural/utils/_transformation.py,sha256=lLoH3FlLjR9vVjc1-64ANL_53kWPU7qu8WVsG9K1wLw,4806
-LoopStructural/utils/colours.py,sha256=oitN14y56gj6ALuuwqAyOBUzSAnr1mAmCHX3KigBf2Y,1160
+LoopStructural/utils/_surface.py,sha256=qXn0WHiMlYx-e_eRSoRcBIIrAlM8WUsi0cthiUQ_ptM,5974
+LoopStructural/utils/_transformation.py,sha256=peuLPH3BJ5DxnPbOuNKcqK4eXhAXdbT540L1OIsO3v0,5404
+LoopStructural/utils/colours.py,sha256=-KRf1MXKx4L8TXnwyiunmKAX4tfy0qG68fRadyfn_bM,1163
 LoopStructural/utils/config.py,sha256=ITGOtZTo2_QBwXkG_0AFANfE90J9siCXLzxypVmg9QA,414
 LoopStructural/utils/dtm_creator.py,sha256=-yqGG0wyEJfTCCDghz058wull1q3zGFASjeu8oDgYnk,535
 LoopStructural/utils/exceptions.py,sha256=SJboJ7ncMqVX-ib7MMizClwMrFZRHQhjZr2eCnVwnQE,500
@@ -129,8 +129,8 @@ LoopStructural/utils/regions.py,sha256=LvcOCPudF4u95-GKBOZqXVxOEcR3cOFgFpcs5x43s
 LoopStructural/utils/typing.py,sha256=29uVSTZdzXXH-jdlaYyBWZ1gQ2-nlZ2-XoVgG_PXNFY,157
 LoopStructural/utils/utils.py,sha256=2Z4zVE6G752-SPmM29zebk82bROJxEwi_YiiJjcVED4,2438
 LoopStructural/visualisation/__init__.py,sha256=5BDgKor8-ae6DrS7IZybJ3Wq_pTnCchxuY4EgzA7v1M,318
-LoopStructural-1.6.7.dist-info/LICENSE,sha256=ZqGeNFOgmYevj7Ld7Q-kR4lAxWXuBRUdUmPC6XM_py8,1071
-LoopStructural-1.6.7.dist-info/METADATA,sha256=xVYOcF6LshQkc80XhhKhtWy91pHJPujawm-NUKhTe_0,6399
-LoopStructural-1.6.7.dist-info/WHEEL,sha256=In9FTNxeP60KnTkGw7wk6mJPYd_dQSjEZmXdBdMCI-8,91
-LoopStructural-1.6.7.dist-info/top_level.txt,sha256=QtQErKzYHfg6ddxTQ1NyaTxXBVM6qAqrM_vxEPyXZLg,15
-LoopStructural-1.6.7.dist-info/RECORD,,
+LoopStructural-1.6.8.dist-info/LICENSE,sha256=ZqGeNFOgmYevj7Ld7Q-kR4lAxWXuBRUdUmPC6XM_py8,1071
+LoopStructural-1.6.8.dist-info/METADATA,sha256=b3E6PD8VPFCtEJRxS3I39m3SXzw9x4oJT7oER1fMs4c,6421
+LoopStructural-1.6.8.dist-info/WHEEL,sha256=In9FTNxeP60KnTkGw7wk6mJPYd_dQSjEZmXdBdMCI-8,91
+LoopStructural-1.6.8.dist-info/top_level.txt,sha256=QtQErKzYHfg6ddxTQ1NyaTxXBVM6qAqrM_vxEPyXZLg,15
+LoopStructural-1.6.8.dist-info/RECORD,,