Merge pull request #170 from geometric-intelligence/reorg

Reorg
geometric-intelligence · Aug 26, 2024 · 1a7e96b · 1a7e96b
2 parents 4c4f3d7 + 4bc06d8
commit 1a7e96b
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Showing 92 changed files with 34 additions and 39,453 deletions.
diff --git a/.gitignore b/.gitignore
@@ -4,26 +4,22 @@
 neurometry/results/*
 neurometry/wandb/*
 
-neurometry/datasets/rnn_grid_cells/Dual agent path integration high res/*
-neurometry/datasets/rnn_grid_cells/Single agent path integration high res/*
-neurometry/curvature/grid-cells-curvature/models/xu_rnn/results/*
-neurometry/curvature/grid-cells-curvature/multi-agent/*
+
 neurometry/neuroai/piRNNs/models/results/*
 neurometry/neuroai/piRNNs/multi-agent/*
 notebooks/
-
 *viewer*
 *vizcortex*
 # Data files
 *.mat
 *.npy
 *.pkl
 *.jpg
-neurometry/curvature/data/raw/*.mat
-neurometry/curvature/data/binned/*.txt
-neurometry/curvature/data/binned/*.npy
-neurometry/curvature/data/data.zip
-neurometry/curvature/data/old_data.zip
+neurometry/geometry/curvature/data/raw/*.mat
+neurometry/geometry/curvature/data/binned/*.txt
+neurometry/geometry/curvature/data/binned/*.npy
+neurometry/geometry/curvature/data/data.zip
+neurometry/geometry/curvature/data/old_data.zip
 neurometry/rep_metrics/benchmarks/ceilings/*
 neurometry/rep_metrics/benchmarks/image_sets/*
 neurometry/rep_metrics/benchmarks/voxel_sets/*
@@ -36,15 +32,14 @@ neurometry/datasets/rnn_grid_cells/Single agent path integration/*
 *wandb/*
 *logs/*
 
-neurometry/curvature/grid-cells-curvature/models/xu_rnn/logs/*
-neurometry/curvature/grid-cells-curvature/models/xu_rnn/wandb/*
+
 neurometry/neuroai/piRNNs/models/logs/*
 neurometry/neuroai/piRNNs/models/wandb/*
 neurometry/neuroai/piRNNs/models/pretrained/*
 
 
 # Result files
-neurometry/curvature/results/*
+neurometry/geometry/curvature/results/*
 neurometry/neuralwarp/results/*
 neurometry/rep_metrics/results/*
 *.png

diff --git a/neurometry/curvature/__init__.py → ...ometry/datasets/digital_twins/__init__.py b/neurometry/curvature/__init__.py → ...ometry/datasets/digital_twins/__init__.py
diff --git a/...metry/datasets/rnn_grid_cells/__init__.py → neurometry/datasets/experimental/__init__.py b/...metry/datasets/rnn_grid_cells/__init__.py → neurometry/datasets/experimental/__init__.py
diff --git a/neurometry/dimension/__init__.py → neurometry/datasets/piRNNs/__init__.py b/neurometry/dimension/__init__.py → neurometry/datasets/piRNNs/__init__.py
diff --git a/neurometry/neuroai/__init__.py → ...ry/datasets/piRNNs/dual_agent/__init__.py b/neurometry/neuroai/__init__.py → ...ry/datasets/piRNNs/dual_agent/__init__.py
diff --git a/neurometry/datasets/rnn_grid_cells/config.py → ...etry/datasets/piRNNs/dual_agent/config.py b/neurometry/datasets/rnn_grid_cells/config.py → ...etry/datasets/piRNNs/dual_agent/config.py
diff --git a/...ets/rnn_grid_cells/dual_agent_activity.py → .../piRNNs/dual_agent/dual_agent_activity.py b/...ets/rnn_grid_cells/dual_agent_activity.py → .../piRNNs/dual_agent/dual_agent_activity.py
@@ -5,10 +5,11 @@
 import torch
 from tqdm import tqdm
 
+from neurometry.datasets.piRNNs.scores import GridScorer
+
 from .config import parser
 from .model_dual_path_integration import RNN
 from .place_cells_dual_path_integration import PlaceCells
-from .scores import GridScorer
 from .trajectory_generator_dual_path_integration import TrajectoryGenerator
 from .utils import generate_run_ID
 from .visualize import compute_ratemaps

diff --git a/neurometry/datasets/rnn_grid_cells/model.py → ...metry/datasets/piRNNs/dual_agent/model.py b/neurometry/datasets/rnn_grid_cells/model.py → ...metry/datasets/piRNNs/dual_agent/model.py
diff --git a/...grid_cells/model_dual_path_integration.py → ...dual_agent/model_dual_path_integration.py b/...grid_cells/model_dual_path_integration.py → ...dual_agent/model_dual_path_integration.py
diff --git a/...ry/datasets/rnn_grid_cells/place_cells.py → ...datasets/piRNNs/dual_agent/place_cells.py b/...ry/datasets/rnn_grid_cells/place_cells.py → ...datasets/piRNNs/dual_agent/place_cells.py
diff --git a/...ells/place_cells_dual_path_integration.py → ...gent/place_cells_dual_path_integration.py b/...ells/place_cells_dual_path_integration.py → ...gent/place_cells_dual_path_integration.py
diff --git a/...s/rnn_grid_cells/single_agent_activity.py → ...iRNNs/dual_agent/single_agent_activity.py b/...s/rnn_grid_cells/single_agent_activity.py → ...iRNNs/dual_agent/single_agent_activity.py
@@ -6,10 +6,11 @@
 import torch
 from tqdm import tqdm
 
+from neurometry.datasets.piRNNs.scores import GridScorer
+
 from .config import parser
 from .model import RNN
 from .place_cells import PlaceCells
-from .scores import GridScorer
 from .trajectory_generator import TrajectoryGenerator
 from .utils import generate_run_ID
 from .visualize import compute_ratemaps

diff --git a/...ometry/datasets/rnn_grid_cells/trainer.py → ...try/datasets/piRNNs/dual_agent/trainer.py b/...ometry/datasets/rnn_grid_cells/trainer.py → ...try/datasets/piRNNs/dual_agent/trainer.py
diff --git a/...ts/rnn_grid_cells/trajectory_generator.py → ...piRNNs/dual_agent/trajectory_generator.py b/...ts/rnn_grid_cells/trajectory_generator.py → ...piRNNs/dual_agent/trajectory_generator.py
diff --git a/...ectory_generator_dual_path_integration.py → ...ectory_generator_dual_path_integration.py b/...ectory_generator_dual_path_integration.py → ...ectory_generator_dual_path_integration.py
diff --git a/neurometry/datasets/rnn_grid_cells/utils.py → ...metry/datasets/piRNNs/dual_agent/utils.py b/neurometry/datasets/rnn_grid_cells/utils.py → ...metry/datasets/piRNNs/dual_agent/utils.py
diff --git a/...etry/datasets/rnn_grid_cells/visualize.py → ...y/datasets/piRNNs/dual_agent/visualize.py b/...etry/datasets/rnn_grid_cells/visualize.py → ...y/datasets/piRNNs/dual_agent/visualize.py
diff --git a/neurometry/datasets/load_rnn_grid_cells.py → ...ry/datasets/piRNNs/load_rnn_grid_cells.py b/neurometry/datasets/load_rnn_grid_cells.py → ...ry/datasets/piRNNs/load_rnn_grid_cells.py
@@ -10,10 +10,10 @@
 import yaml
 from sklearn.cluster import DBSCAN
 
-from neurometry.datasets.rnn_grid_cells.scores import GridScorer
+from neurometry.datasets.piRNNs.scores import GridScorer
 
 # sys.path.append(str(Path(__file__).parent.parent))
-from .rnn_grid_cells import config, dual_agent_activity, single_agent_activity, utils
+from .dual_agent import config, dual_agent_activity, single_agent_activity, utils
 
 
 def load_rate_maps(run_id, step):

diff --git a/neurometry/neuroai/piRNNs/models/README.md → ...ometry/datasets/piRNNs/saliency/README.md b/neurometry/neuroai/piRNNs/models/README.md → ...ometry/datasets/piRNNs/saliency/README.md
diff --git a/neurometry/neuroai/piRNNs/__init__.py → ...etry/datasets/piRNNs/saliency/__init__.py b/neurometry/neuroai/piRNNs/__init__.py → ...etry/datasets/piRNNs/saliency/__init__.py
diff --git a/...y/neuroai/piRNNs/models/default_config.py → ...atasets/piRNNs/saliency/default_config.py b/...y/neuroai/piRNNs/models/default_config.py → ...atasets/piRNNs/saliency/default_config.py
diff --git a/neurometry/neuroai/piRNNs/models/eval.py → neurometry/datasets/piRNNs/saliency/eval.py b/neurometry/neuroai/piRNNs/models/eval.py → neurometry/datasets/piRNNs/saliency/eval.py
@@ -8,13 +8,13 @@
 import yaml
 from sklearn.decomposition import PCA
 
-from neurometry.datasets.load_rnn_grid_cells import get_scores, umap_dbscan
-from neurometry.dimension.dim_reduction import (
+from neurometry.datasets.piRNNs.load_rnn_grid_cells import get_scores, umap_dbscan
+from neurometry.geometry.dimension.dim_reduction import (
     plot_2d_manifold_projections,
     plot_pca_projections,
 )
-from neurometry.topology.persistent_homology import compute_diagrams_shuffle
-from neurometry.topology.plotting import plot_all_barcodes_with_null
+from neurometry.geometry.topology.persistent_homology import compute_diagrams_shuffle
+from neurometry.geometry.topology.plotting import plot_all_barcodes_with_null
 
 pretrained_run_id = "20240418-180712"
 pretrained_run_dir = os.path.join(

diff --git a/...metry/neuroai/piRNNs/models/experiment.py → ...ry/datasets/piRNNs/saliency/experiment.py b/...metry/neuroai/piRNNs/models/experiment.py → ...ry/datasets/piRNNs/saliency/experiment.py
diff --git a/...y/neuroai/piRNNs/models/input_pipeline.py → ...atasets/piRNNs/saliency/input_pipeline.py b/...y/neuroai/piRNNs/models/input_pipeline.py → ...atasets/piRNNs/saliency/input_pipeline.py
diff --git a/neurometry/neuroai/piRNNs/models/main.py → neurometry/datasets/piRNNs/saliency/main.py b/neurometry/neuroai/piRNNs/models/main.py → neurometry/datasets/piRNNs/saliency/main.py
diff --git a/neurometry/neuroai/piRNNs/models/model.py → neurometry/datasets/piRNNs/saliency/model.py b/neurometry/neuroai/piRNNs/models/model.py → neurometry/datasets/piRNNs/saliency/model.py
diff --git a/neurometry/neuroai/piRNNs/models/utils.py → neurometry/datasets/piRNNs/saliency/utils.py b/neurometry/neuroai/piRNNs/models/utils.py → neurometry/datasets/piRNNs/saliency/utils.py
diff --git a/neurometry/datasets/rnn_grid_cells/scores.py → neurometry/datasets/piRNNs/scores.py b/neurometry/datasets/rnn_grid_cells/scores.py → neurometry/datasets/piRNNs/scores.py
diff --git a/neurometry/decorators.py b/neurometry/decorators.py
diff --git a/neurometry/geometry/__init__.py b/neurometry/geometry/__init__.py
@@ -0,0 +1,3 @@
+"""Initialize folder as submodule."""
+
+__version__ = "0.0.1"
diff --git a/neurometry/neuroai/piRNNs/models/__init__.py → neurometry/geometry/curvature/__init__.py b/neurometry/neuroai/piRNNs/models/__init__.py → neurometry/geometry/curvature/__init__.py
diff --git a/neurometry/curvature/data/binned/README.md → .../geometry/curvature/data/binned/README.md b/neurometry/curvature/data/binned/README.md → .../geometry/curvature/data/binned/README.md
diff --git a/...metry/curvature/data/datasets_summary.csv → ...metry/curvature/data/datasets_summary.csv b/...metry/curvature/data/datasets_summary.csv → ...metry/curvature/data/datasets_summary.csv
diff --git a/...ature/data/expt_to_first_second_gains.csv → ...ature/data/expt_to_first_second_gains.csv b/...ature/data/expt_to_first_second_gains.csv → ...ature/data/expt_to_first_second_gains.csv
diff --git a/neurometry/curvature/data/expt_to_n_laps.csv → ...eometry/curvature/data/expt_to_n_laps.csv b/neurometry/curvature/data/expt_to_n_laps.csv → ...eometry/curvature/data/expt_to_n_laps.csv
diff --git a/neurometry/curvature/data/expt_to_ncells.csv → ...eometry/curvature/data/expt_to_ncells.csv b/neurometry/curvature/data/expt_to_ncells.csv → ...eometry/curvature/data/expt_to_ncells.csv
diff --git a/...re/data/expt_to_ntimes_timestep100000.csv → ...re/data/expt_to_ntimes_timestep100000.csv b/...re/data/expt_to_ntimes_timestep100000.csv → ...re/data/expt_to_ntimes_timestep100000.csv
diff --git a/...e/data/expt_to_ntimes_timestep1000000.csv → ...e/data/expt_to_ntimes_timestep1000000.csv b/...e/data/expt_to_ntimes_timestep1000000.csv → ...e/data/expt_to_ntimes_timestep1000000.csv
diff --git a/neurometry/curvature/data/raw/README.md → ...try/geometry/curvature/data/raw/README.md b/neurometry/curvature/data/raw/README.md → ...try/geometry/curvature/data/raw/README.md
diff --git a/neurometry/curvature/datasets/__init__.py → ...y/geometry/curvature/datasets/__init__.py b/neurometry/curvature/datasets/__init__.py → ...y/geometry/curvature/datasets/__init__.py
diff --git a/...ometry/curvature/datasets/experimental.py → ...ometry/curvature/datasets/experimental.py b/...ometry/curvature/datasets/experimental.py → ...ometry/curvature/datasets/experimental.py
diff --git a/neurometry/curvature/datasets/gridcells.py → .../geometry/curvature/datasets/gridcells.py b/neurometry/curvature/datasets/gridcells.py → .../geometry/curvature/datasets/gridcells.py
diff --git a/neurometry/curvature/datasets/structures.py → ...geometry/curvature/datasets/structures.py b/neurometry/curvature/datasets/structures.py → ...geometry/curvature/datasets/structures.py
diff --git a/neurometry/curvature/datasets/synthetic.py → .../geometry/curvature/datasets/synthetic.py b/neurometry/curvature/datasets/synthetic.py → .../geometry/curvature/datasets/synthetic.py
@@ -9,7 +9,7 @@
 import torch
 from torch.distributions.multivariate_normal import MultivariateNormal
 
-from neurometry.topology.persistent_homology import (
+from neurometry.geometry.topology.persistent_homology import (
     cohomological_circular_coordinates,
     cohomological_toroidal_coordinates,
 )

diff --git a/neurometry/curvature/datasets/utils.py → ...etry/geometry/curvature/datasets/utils.py b/neurometry/curvature/datasets/utils.py → ...etry/geometry/curvature/datasets/utils.py
@@ -6,9 +6,9 @@
 import torch
 from scipy.signal import savgol_filter
 
-from neurometry.curvature.datasets.experimental import load_neural_activity
-from neurometry.curvature.datasets.gridcells import load_grid_cells_synthetic
-from neurometry.curvature.datasets.synthetic import (
+from neurometry.geometry.curvature.datasets.experimental import load_neural_activity
+from neurometry.geometry.curvature.datasets.gridcells import load_grid_cells_synthetic
+from neurometry.geometry.curvature.datasets.synthetic import (
     load_images,
     load_place_cells,
     load_points,

diff --git a/neurometry/curvature/default_config.py → ...etry/geometry/curvature/default_config.py b/neurometry/curvature/default_config.py → ...etry/geometry/curvature/default_config.py
diff --git a/neurometry/curvature/evaluate.py → neurometry/geometry/curvature/evaluate.py b/neurometry/curvature/evaluate.py → neurometry/geometry/curvature/evaluate.py
@@ -4,7 +4,7 @@
 import numpy as np
 import torch
 
-from neurometry.curvature.datasets.synthetic import (
+from neurometry.geometry.curvature.datasets.synthetic import (
     get_s1_synthetic_immersion,
     get_s2_synthetic_immersion,
     get_t2_synthetic_immersion,

diff --git a/...etry/curvature/hyperspherical/__init__.py → ...etry/curvature/hyperspherical/__init__.py b/...etry/curvature/hyperspherical/__init__.py → ...etry/curvature/hyperspherical/__init__.py
diff --git a/.../hyperspherical/distributions/__init__.py → .../hyperspherical/distributions/__init__.py b/.../hyperspherical/distributions/__init__.py → .../hyperspherical/distributions/__init__.py
diff --git a/...l/distributions/hyperspherical_uniform.py → ...l/distributions/hyperspherical_uniform.py b/...l/distributions/hyperspherical_uniform.py → ...l/distributions/hyperspherical_uniform.py
diff --git a/...herical/distributions/von_mises_fisher.py → ...herical/distributions/von_mises_fisher.py b/...herical/distributions/von_mises_fisher.py → ...herical/distributions/von_mises_fisher.py
@@ -3,10 +3,10 @@
 import torch
 from torch.distributions.kl import register_kl
 
-from neurometry.curvature.hyperspherical.distributions.hyperspherical_uniform import (
+from neurometry.geometry.curvature.hyperspherical.distributions.hyperspherical_uniform import (
     HypersphericalUniform,
 )
-from neurometry.curvature.hyperspherical.ops.ive import ive
+from neurometry.geometry.curvature.hyperspherical.ops.ive import ive
 
 
 class VonMisesFisher(torch.distributions.Distribution):

diff --git a/.../curvature/hyperspherical/ops/__init__.py → .../curvature/hyperspherical/ops/__init__.py b/.../curvature/hyperspherical/ops/__init__.py → .../curvature/hyperspherical/ops/__init__.py
diff --git a/...metry/curvature/hyperspherical/ops/ive.py → ...metry/curvature/hyperspherical/ops/ive.py b/...metry/curvature/hyperspherical/ops/ive.py → ...metry/curvature/hyperspherical/ops/ive.py
diff --git a/neurometry/curvature/losses.py → neurometry/geometry/curvature/losses.py b/neurometry/curvature/losses.py → neurometry/geometry/curvature/losses.py
@@ -2,7 +2,7 @@
 
 import torch
 
-from neurometry.curvature.hyperspherical.distributions import (
+from neurometry.geometry.curvature.hyperspherical.distributions import (
     hyperspherical_uniform,
     von_mises_fisher,
 )

diff --git a/neurometry/curvature/main.py → neurometry/geometry/curvature/main.py b/neurometry/curvature/main.py → neurometry/geometry/curvature/main.py
diff --git a/neurometry/curvature/models/__init__.py → ...try/geometry/curvature/models/__init__.py b/neurometry/curvature/models/__init__.py → ...try/geometry/curvature/models/__init__.py
diff --git a/...etry/curvature/models/klein_bottle_vae.py → ...etry/curvature/models/klein_bottle_vae.py b/...etry/curvature/models/klein_bottle_vae.py → ...etry/curvature/models/klein_bottle_vae.py
@@ -7,7 +7,7 @@
 import torch
 from torch.nn import functional as F
 
-from neurometry.curvature.hyperspherical.distributions.von_mises_fisher import (
+from neurometry.geometry.curvature.hyperspherical.distributions.von_mises_fisher import (
     VonMisesFisher,
 )
 

diff --git a/neurometry/curvature/models/neural_vae.py → ...y/geometry/curvature/models/neural_vae.py b/neurometry/curvature/models/neural_vae.py → ...y/geometry/curvature/models/neural_vae.py
@@ -7,7 +7,7 @@
 from torch.distributions.normal import Normal
 from torch.nn import functional as F
 
-from neurometry.curvature.hyperspherical.distributions.von_mises_fisher import (
+from neurometry.geometry.curvature.hyperspherical.distributions.von_mises_fisher import (
     VonMisesFisher,
 )
 

diff --git a/neurometry/curvature/models/regressor.py → ...ry/geometry/curvature/models/regressor.py b/neurometry/curvature/models/regressor.py → ...ry/geometry/curvature/models/regressor.py
diff --git a/neurometry/curvature/models/toroidal_vae.py → ...geometry/curvature/models/toroidal_vae.py b/neurometry/curvature/models/toroidal_vae.py → ...geometry/curvature/models/toroidal_vae.py
@@ -7,7 +7,7 @@
 import torch
 from torch.nn import functional as F
 
-from neurometry.curvature.hyperspherical.distributions.von_mises_fisher import (
+from neurometry.geometry.curvature.hyperspherical.distributions.von_mises_fisher import (
     VonMisesFisher,
 )
 

diff --git a/neurometry/curvature/plot.html → neurometry/geometry/curvature/plot.html b/neurometry/curvature/plot.html → neurometry/geometry/curvature/plot.html
diff --git a/neurometry/curvature/plots.py → neurometry/geometry/curvature/plots.py b/neurometry/curvature/plots.py → neurometry/geometry/curvature/plots.py
diff --git a/neurometry/curvature/torus_embedding.py → ...try/geometry/curvature/torus_embedding.py b/neurometry/curvature/torus_embedding.py → ...try/geometry/curvature/torus_embedding.py
diff --git a/neurometry/curvature/train.py → neurometry/geometry/curvature/train.py b/neurometry/curvature/train.py → neurometry/geometry/curvature/train.py
diff --git a/neurometry/curvature/viz.py → neurometry/geometry/curvature/viz.py b/neurometry/curvature/viz.py → neurometry/geometry/curvature/viz.py
diff --git a/neurometry/topology/__init__.py → neurometry/geometry/dimension/__init__.py b/neurometry/topology/__init__.py → neurometry/geometry/dimension/__init__.py
diff --git a/neurometry/dimension/dim_reduction.py → ...metry/geometry/dimension/dim_reduction.py b/neurometry/dimension/dim_reduction.py → ...metry/geometry/dimension/dim_reduction.py
diff --git a/neurometry/dimension/dimension.py → neurometry/geometry/dimension/dimension.py b/neurometry/dimension/dimension.py → neurometry/geometry/dimension/dimension.py
diff --git a/neurometry/warping/__init__.py → neurometry/geometry/topology/__init__.py b/neurometry/warping/__init__.py → neurometry/geometry/topology/__init__.py
diff --git a/neurometry/topology/pd_distances.py → neurometry/geometry/topology/pd_distances.py b/neurometry/topology/pd_distances.py → neurometry/geometry/topology/pd_distances.py
diff --git a/neurometry/topology/persistent_homology.py → .../geometry/topology/persistent_homology.py b/neurometry/topology/persistent_homology.py → .../geometry/topology/persistent_homology.py
diff --git a/neurometry/topology/plotting.py → neurometry/geometry/topology/plotting.py b/neurometry/topology/plotting.py → neurometry/geometry/topology/plotting.py
diff --git a/neurometry/geometry/warping/__init__.py b/neurometry/geometry/warping/__init__.py
@@ -0,0 +1 @@
+"""Initialize folder as submodule."""
diff --git a/...ometry/warping/example_images/out_c2s.gif → ...ometry/warping/example_images/out_c2s.gif b/...ometry/warping/example_images/out_c2s.gif → ...ometry/warping/example_images/out_c2s.gif
diff --git a/...arping/example_images/out_translation.gif → ...arping/example_images/out_translation.gif b/...arping/example_images/out_translation.gif → ...arping/example_images/out_translation.gif
diff --git a/neurometry/warping/pyLDDMM/LDDMM.py → neurometry/geometry/warping/pyLDDMM/LDDMM.py b/neurometry/warping/pyLDDMM/LDDMM.py → neurometry/geometry/warping/pyLDDMM/LDDMM.py
diff --git a/neurometry/warping/pyLDDMM/__init__.py → ...etry/geometry/warping/pyLDDMM/__init__.py b/neurometry/warping/pyLDDMM/__init__.py → ...etry/geometry/warping/pyLDDMM/__init__.py
diff --git a/neurometry/warping/pyLDDMM/regularizer.py → ...y/geometry/warping/pyLDDMM/regularizer.py b/neurometry/warping/pyLDDMM/regularizer.py → ...y/geometry/warping/pyLDDMM/regularizer.py
diff --git a/neurometry/warping/pyLDDMM/utils/__init__.py → ...eometry/warping/pyLDDMM/utils/__init__.py b/neurometry/warping/pyLDDMM/utils/__init__.py → ...eometry/warping/pyLDDMM/utils/__init__.py
diff --git a/neurometry/warping/pyLDDMM/utils/grad.py → ...ry/geometry/warping/pyLDDMM/utils/grad.py b/neurometry/warping/pyLDDMM/utils/grad.py → ...ry/geometry/warping/pyLDDMM/utils/grad.py
diff --git a/neurometry/warping/pyLDDMM/utils/grid.py → ...ry/geometry/warping/pyLDDMM/utils/grid.py b/neurometry/warping/pyLDDMM/utils/grid.py → ...ry/geometry/warping/pyLDDMM/utils/grid.py
diff --git a/neurometry/warping/pyLDDMM/utils/sampler.py → ...geometry/warping/pyLDDMM/utils/sampler.py b/neurometry/warping/pyLDDMM/utils/sampler.py → ...geometry/warping/pyLDDMM/utils/sampler.py
diff --git a/...ry/warping/pyLDDMM/utils/visualization.py → ...ry/warping/pyLDDMM/utils/visualization.py b/...ry/warping/pyLDDMM/utils/visualization.py → ...ry/warping/pyLDDMM/utils/visualization.py
diff --git a/neurometry/warping/results/out_c2s.gif → ...etry/geometry/warping/results/out_c2s.gif b/neurometry/warping/results/out_c2s.gif → ...etry/geometry/warping/results/out_c2s.gif
diff --git a/neurometry/warping/setup.py → neurometry/geometry/warping/setup.py b/neurometry/warping/setup.py → neurometry/geometry/warping/setup.py
diff --git a/neurometry/neuroai/piRNNs/README.md b/neurometry/neuroai/piRNNs/README.md
diff --git a/neurometry/neuroai/piRNNs/make_animation.py b/neurometry/neuroai/piRNNs/make_animation.py
Original file line number	Diff line number	Diff line change
		@@ -0,0 +1,3 @@
		"""Initialize folder as submodule."""

		__version__ = "0.0.1"