Move dependency-heavy tasks to extras (#739)

* remove redundant versions

* process features extras

* process mask extras

* fix pyproject extra

eolearn/core/__init__.py

@@ -32,5 +32,3 @@
 from .utils.fs import get_filesystem, load_s3_filesystem, pickle_fs, unpickle_fs
 from .utils.parallelize import execute_with_mp_lock, join_futures, join_futures_iter, parallelize
 from .utils.parsing import FeatureParser
-
-__version__ = "1.4.2"

eolearn/coregistration/__init__.py

@@ -3,5 +3,3 @@
 """
 
 from .coregistration import ECCRegistrationTask, get_gradient
-
-__version__ = "1.4.2"

eolearn/features/__init__.py

@@ -4,24 +4,10 @@
 
 from .bands_extraction import EuclideanNormTask, NormalizedDifferenceIndexTask
 from .blob import BlobTask, DoGBlobTask, DoHBlobTask, LoGBlobTask
-from .clustering import ClusteringTask
 from .doubly_logistic_approximation import DoublyLogisticApproximationTask
 from .feature_manipulation import FilterTimeSeriesTask, LinearFunctionTask, SimpleFilterTask, ValueFilloutTask
 from .haralick import HaralickTask
 from .hog import HOGTask
-from .interpolation import (
-    AkimaInterpolationTask,
-    BSplineInterpolationTask,
-    CubicInterpolationTask,
-    CubicResamplingTask,
-    InterpolationTask,
-    KrigingInterpolationTask,
-    LinearInterpolationTask,
-    LinearResamplingTask,
-    NearestResamplingTask,
-    ResamplingTask,
-    SplineInterpolationTask,
-)
 from .local_binary_pattern import LocalBinaryPatternTask
 from .radiometric_normalization import (
     BlueCompositingTask,
@@ -37,5 +23,3 @@
     AddMaxMinTemporalIndicesTask,
     AddSpatioTemporalFeaturesTask,
 )
-
-__version__ = "1.4.2"

eolearn/features/extra/__init__.py

@@ -0,0 +1,4 @@
+"""
+A collection of EOTasks with non-standard dependencies. Use the extra `FEATURES_EXTRA` to install dependencies or
+install the module-specific dependencies by hand.
+"""

eolearn/geometry/__init__.py

@@ -10,5 +10,3 @@
     SuperpixelSegmentationTask,
 )
 from .transformations import RasterToVectorTask, VectorToRasterTask
-
-__version__ = "1.4.2"

eolearn/io/__init__.py

@@ -12,5 +12,3 @@
     SentinelHubSen2corTask,
     get_available_timestamps,
 )
-
-__version__ = "1.4.2"

eolearn/mask/__init__.py

@@ -2,10 +2,7 @@
 Public classes and functions of mask subpackage
 """
 
-from .cloud_mask import CloudMaskTask
 from .mask_counting import ClassFrequencyTask
 from .masking import JoinMasksTask, MaskFeatureTask
 from .snow_mask import SnowMaskTask, TheiaSnowMaskTask
 from .utils import resize_images
-
-__version__ = "1.4.2"

eolearn/mask/extra/__init__.py

@@ -0,0 +1,4 @@
+"""
+A collection of EOTasks with non-standard dependencies. Use the extra `MASK_EXTRA` to install dependencies or
+install the module-specific dependencies by hand.
+"""

eolearn/mask/cloud_mask.py → eolearn/mask/extra/cloud_mask.py

@@ -25,7 +25,7 @@
 from eolearn.core.types import Feature
 from eolearn.core.utils.common import _apply_to_spatial_axes
 
-from .utils import resize_images
+from ..utils import resize_images
 
 LOGGER = logging.getLogger(__name__)
 

eolearn/ml_tools/__init__.py

@@ -4,5 +4,3 @@
 
 from .sampling import BlockSamplingTask, FractionSamplingTask, GridSamplingTask, sample_by_values
 from .train_test_split import TrainTestSplitTask
-
-__version__ = "1.4.2"

eolearn/visualization/__init__.py

@@ -3,5 +3,3 @@
 """
 
 from .eopatch import PlotBackend, PlotConfig
-
-__version__ = "1.4.2"

pyproject.toml

@@ -59,15 +59,15 @@ dependencies = [
 all = [
     "eo-learn[COREGISTRATION,FEATURES,GEOMETRY,IO,MASK,MLTOOLS,VISUALIZATION]",
 ]
-full = ["eo-learn[ALL,RAY,ZARR,METEOBLUE,TDIGEST]"]
+full = ["eo-learn[ALL,RAY,ZARR,METEOBLUE,TDIGEST,FEATURES_EXTRA,MASK_EXTRA]"]
 ray = ["ray[default]"]
 zarr = ["s3fs", "zarr"]
 coregistration = [
     "opencv-python-headless",
-] # using headless version of opencv, otherwise gitlab runners fail
-features = [
+] # using headless, otherwise gitlab runners fail
+features = ["opencv-python-headless"]
+features_extra = [
     "numba>=0.53.0",
-    "opencv-python-headless",
     "scikit-image>=0.19.0",
     "scikit-learn",
     "scipy",
@@ -79,7 +79,8 @@ geodb = [
     "xcube-geodb @ git+git://github.com/dcs4cop/xcube-geodb.git",
 ]
 meteoblue = ["meteoblue_dataset_sdk>=1,<2"]
-mask = ["lightgbm>=2.0.11, <4", "opencv-python-headless", "s2cloudless", "scikit-image>=0.13.0"]
+mask = ["opencv-python-headless"]
+mask_extra = ["lightgbm>=2.0.11, <4", "s2cloudless", "scikit-image>=0.13.0"]
 mltools = ["shapely"]
 tdigest = ["tdigest==0.5.2.2"]
 mltoolsplotting = ["matplotlib"]
@@ -174,7 +175,13 @@ ignore = [
     "B028",  # always demands a stacklevel argument when warning
     "PT011", # complains for `pytest.raises(ValueError)` but we use it a lot
 ]
-per-file-ignores = { "__init__.py" = ["F401", "I002"], "conf.py" = ["I002", "FA100"] }
+per-file-ignores = { "__init__.py" = [
+    "F401",
+    "I002",
+], "conf.py" = [
+    "I002",
+    "FA100",
+] }
 exclude = [".git", "__pycache__", "build", "dist"]
 
 

tests/features/test_clustering.py → tests/features/extra/test_clustering.py

@@ -13,7 +13,7 @@
 import pytest
 
 from eolearn.core import FeatureType
-from eolearn.features import ClusteringTask
+from eolearn.features.extra.clustering import ClusteringTask
 
 logging.basicConfig(level=logging.DEBUG)
 

tests/features/test_interpolation.py → tests/features/extra/test_interpolation.py

@@ -16,7 +16,7 @@
 from sentinelhub.testing_utils import assert_statistics_match
 
 from eolearn.core import EOPatch, EOTask, FeatureType
-from eolearn.features import (
+from eolearn.features.extra.interpolation import (
     InterpolationTask,
     KrigingInterpolationTask,
     LinearInterpolationTask,

tests/mask/test_cloud_mask.py → tests/mask/extra/test_cloud_mask.py

@@ -11,8 +11,7 @@
 from numpy.testing import assert_array_equal
 
 from eolearn.core import FeatureType
-from eolearn.mask import CloudMaskTask
-from eolearn.mask.cloud_mask import _get_window_indices, _OldCloudMaskTask
+from eolearn.mask.extra.cloud_mask import CloudMaskTask, _get_window_indices, _OldCloudMaskTask
 
 
 @pytest.mark.parametrize(