Release 1.5.3, Merge pull request #785 from sentinel-hub/develop

Release 1.5.3

Author: zigaLuksic

Diff for: .github/workflows/ci_action.yml

@@ -85,7 +85,9 @@ jobs:
           cache: pip
 
       - name: Install packages
-        run: pip install -e .[DEV] --upgrade --upgrade-strategy eager
+        run: | # must install async-timeout until ray fixes issue
+          pip install -e .[DEV] --upgrade --upgrade-strategy eager
+          pip install async-timeout
 
       - name: Run full tests and code coverage
         if: ${{ matrix.full_test_suite }}
@@ -110,3 +112,20 @@ jobs:
           files: coverage.xml
           fail_ci_if_error: true
           verbose: false
+
+  mirror-and-integration-test-on-gitlab:
+    if: github.event_name == 'push'
+    runs-on: ubuntu-latest
+    steps:
+      - uses: actions/checkout@v1
+      - name: Mirror + trigger CI
+        uses: SvanBoxel/gitlab-mirror-and-ci-action@master
+        with:
+          args: "https://git.sinergise.com/eo/code/eo-learn/"
+        env:
+          FOLLOW_TAGS: "true"
+          GITLAB_HOSTNAME: "git.sinergise.com"
+          GITLAB_USERNAME: "github-action"
+          GITLAB_PASSWORD: ${{ secrets.GITLAB_PASSWORD }}
+          GITLAB_PROJECT_ID: "164"
+          GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}

Diff for: .github/workflows/ci_trigger.yml

@@ -1,30 +1,19 @@
-name: mirror_and_trigger
+name: trigger
 
 on:
-  pull_request:
-  push:
-    branches:
-      - "master"
-      - "develop"
-  workflow_call:
   release:
     types:
       - published
 
 jobs:
-  mirror-and-integration-test-on-gitlab:
-    if: github.event_name == 'push'
+  trigger:
     runs-on: ubuntu-latest
     steps:
-      - uses: actions/checkout@v1
-      - name: Mirror + trigger CI
-        uses: SvanBoxel/gitlab-mirror-and-ci-action@master
-        with:
-          args: "https://git.sinergise.com/eo/code/eo-learn/"
-        env:
-          FOLLOW_TAGS: "true"
-          GITLAB_HOSTNAME: "git.sinergise.com"
-          GITLAB_USERNAME: "github-action"
-          GITLAB_PASSWORD: ${{ secrets.GITLAB_PASSWORD }}
-          GITLAB_PROJECT_ID: "164"
-          GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
+      - name: Trigger API
+        run: >
+          curl -X POST --fail \
+            -F token=${{ secrets.GITLAB_PIPELINE_TRIGGER_TOKEN }} \
+            -F ref=main \
+            -F variables[CUSTOM_RUN_TAG]=auto \
+            -F variables[LAYER_NAME]=dotai-eo \
+            https://git.sinergise.com/api/v4/projects/1031/trigger/pipeline

Diff for: .gitlab-ci.yml

@@ -2,7 +2,6 @@ image: python:3.9
 
 stages:
   - test
-  - build
 
 run_sh_integration_tests:
   stage: test
@@ -14,17 +13,3 @@ run_sh_integration_tests:
     - pip install .[DEV]
     - sentinelhub.config --sh_client_id "$SH_CLIENT_ID" --sh_client_secret "$SH_CLIENT_SECRET" > /dev/null # Gitlab can't mask SH_CLIENT_SECRET in logs
     - pytest -m sh_integration
-
-build_docker_image:
-  stage: build
-  needs: []
-  rules:
-    - if: $CI_COMMIT_TAG # run only on releases
-      when: always
-      variables:
-        CUSTOM_RUN_TAG: auto # this will create images with the latest tag and the version tag
-        LAYER_NAME: dotai-eo
-    - when: manual
-  trigger:
-    project: eo/infra/docker
-  allow_failure: true

Diff for: .pre-commit-config.yaml

@@ -13,18 +13,18 @@ repos:
       - id: debug-statements
 
   - repo: https://github.com/psf/black
-    rev: 23.10.1
+    rev: 23.12.1
     hooks:
       - id: black
         language_version: python3
 
   - repo: https://github.com/charliermarsh/ruff-pre-commit
-    rev: "v0.1.4"
+    rev: "v0.1.11"
     hooks:
       - id: ruff
 
   - repo: https://github.com/nbQA-dev/nbQA
-    rev: 1.7.0
+    rev: 1.7.1
     hooks:
       - id: nbqa-black
       - id: nbqa-ruff

Diff for: .zenodo.json

@@ -206,6 +206,9 @@
         },
         {
             "id": "101004112"
+        },
+        {
+            "id": "101059548"
         }
     ]
 }

Diff for: CHANGELOG.md

@@ -1,3 +1,8 @@
+## [Version 1.5.3] - 2024-01-10
+
+- Fix `numpy<2` in anticipation of numpy 2.0 release.
+
+
 ## [Version 1.5.2] - 2023-11-07
 
 - `RayExecutor` can now forward remote kwargs to ray jobs.

Diff for: README.md

@@ -202,4 +202,4 @@ See [LICENSE](https://github.com/sentinel-hub/eo-learn/blob/master/LICENSE).
 
 ## Acknowledgements
 
-This project has received funding from the European Union’s Horizon 2020 research and innovation programme under grant agreements No. 776115 and No. 101004112.
+This project has received funding from the European Union’s Horizon 2020 research and innovation programme under grant agreements No. 776115, No. 101004112 and No. 101059548.

Diff for: eolearn/__init__.py

@@ -1,6 +1,6 @@
 """Main module of the `eolearn` package."""
 
-__version__ = "1.5.2"
+__version__ = "1.5.3"
 
 import importlib.util
 import warnings

Diff for: eolearn/core/constants.py

@@ -13,8 +13,9 @@
 from enum import Enum, EnumMeta
 from typing import Any, TypeVar
 
+from typing_extensions import deprecated
+
 from sentinelhub import BBox, MimeType
-from sentinelhub.exceptions import deprecated_function
 
 from .exceptions import EODeprecationWarning
 
@@ -157,14 +158,16 @@ def is_image(self) -> bool:
         """True if FeatureType stores a dictionary with arrays that represent images. False otherwise."""
         return self.is_array() and self.is_spatial()
 
-    @deprecated_function(
-        EODeprecationWarning, "Use the equivalent `is_array` method, or consider if `is_image` fits better."
+    @deprecated(
+        "The method `is_raster` has been deprecated. Use the equivalent `is_array` method, or consider if `is_image`"
+        " fits better.",
+        category=EODeprecationWarning,
     )
     def is_raster(self) -> bool:
         """True if FeatureType stores a dictionary with raster data. False otherwise."""
         return self.is_array()
 
-    @deprecated_function(EODeprecationWarning)
+    @deprecated("The method `has_dict` has been deprecated.", category=EODeprecationWarning)
     def has_dict(self) -> bool:
         """True if FeatureType stores a dictionary. False otherwise."""
         return self in [
@@ -181,7 +184,7 @@ def has_dict(self) -> bool:
             FeatureType.META_INFO,
         ]
 
-    @deprecated_function(EODeprecationWarning)
+    @deprecated("The method `contains_ndarrays` has been deprecated.", category=EODeprecationWarning)
     def contains_ndarrays(self) -> bool:
         """True if FeatureType stores a dictionary of numpy.ndarrays. False otherwise."""
         return self.is_array()
@@ -201,7 +204,7 @@ def ndim(self) -> int | None:
             }[self]
         return None
 
-    @deprecated_function(EODeprecationWarning)
+    @deprecated("The method `type` has been deprecated.", category=EODeprecationWarning)
     def type(self) -> type:
         """Returns type of the data for the given FeatureType."""
         if self is FeatureType.TIMESTAMPS:
@@ -210,7 +213,7 @@ def type(self) -> type:
             return BBox
         return dict
 
-    @deprecated_function(EODeprecationWarning)
+    @deprecated("The method `file_format` has been deprecated.", category=EODeprecationWarning)
     def file_format(self) -> MimeType:
         """Returns a mime type enum of a file format into which data of the feature type will be serialized"""
         if self.is_array():

Diff for: eolearn/core/core_tasks.py

@@ -18,9 +18,9 @@
 import fs
 import numpy as np
 from fs.base import FS
+from typing_extensions import deprecated
 
 from sentinelhub import SHConfig
-from sentinelhub.exceptions import deprecated_class
 
 from .constants import FeatureType, OverwritePermission
 from .eodata import EOPatch
@@ -56,7 +56,9 @@ def execute(self, eopatch: EOPatch) -> EOPatch:
         return eopatch.copy(features=self.features, deep=self.deep, copy_timestamps=self.copy_timestamps)
 
 
-@deprecated_class(EODeprecationWarning, "Use `CopyTask` with the configuration `deep=True`.")
+@deprecated(
+    "Use `CopyTask` with the configuration `deep=True` instead of `DeepCopyTask`.", category=EODeprecationWarning
+)
 class DeepCopyTask(CopyTask):
     """[DEPRECATED] Makes a deep copy of the given EOPatch."""
 
@@ -119,7 +121,7 @@ def __init__(
             all features will be saved.
         :param overwrite_permission: A level of permission for overwriting an existing EOPatch
             to 9 (highest compression).
-        :save_timestamps: Whether to save the timestamps of the EOPatch. With the `"auto"` setting timestamps are saved
+        :save_timestamps: Save the timestamps of the EOPatch. With the `"auto"` setting timestamps are saved
             if `features=...` or if other temporal features are being saved.
         :param use_zarr: Saves numpy-array based features into Zarr files. Requires ZARR extra dependencies.
         :param temporal_selection: Writes all of the data to the chosen temporal indices of preexisting arrays. Can be
@@ -191,7 +193,7 @@ def __init__(
             default configuration will be taken.
         :param features: A collection of features to be loaded. By default, all features will be loaded.
         :param lazy_loading: If `True` features will be lazy loaded.
-        :load_timestamps: Whether to load the timestamps of the EOPatch. With the `"auto"` setting timestamps are loaded
+        :load_timestamps: Load the timestamps of the EOPatch. With the `"auto"` setting timestamps are loaded
             if `features=...` or if other temporal features are being loaded.
         :param temporal_selection: Only loads data corresponding to the chosen indices. Can also be a callable that,
             given a list of timestamps, returns a list of booleans declaring which temporal slices to load.

Diff for: eolearn/core/eodata.py

@@ -34,9 +34,9 @@
 import geopandas as gpd
 import numpy as np
 from fs.base import FS
+from typing_extensions import deprecated
 
 from sentinelhub import CRS, BBox, parse_time
-from sentinelhub.exceptions import deprecated_function
 
 from .constants import FEATURETYPE_DEPRECATION_MSG, TIMESTAMP_COLUMN, FeatureType, OverwritePermission
 from .eodata_io import FeatureIO, load_eopatch_content, save_eopatch
@@ -427,7 +427,10 @@ def __contains__(self, key: object) -> bool:
             "`(feature_type, feature_name)` pairs."
         )
 
-    @deprecated_function(EODeprecationWarning, "Use the `merge` method instead.")
+    @deprecated(
+        "The `+` operator for EOPatches has been deprecated. Use the function `eolearn.core.merge_eopatches` instead.",
+        category=EODeprecationWarning,
+    )
     def __add__(self, other: EOPatch) -> EOPatch:
         """Merges two EOPatches into a new EOPatch."""
         return self.merge(other)
@@ -499,7 +502,7 @@ def __copy__(
         """Returns a new EOPatch with shallow copies of given features.
 
         :param features: A collection of features or feature types that will be copied into new EOPatch.
-        :param copy_timestamps: Whether to copy timestamps to the new EOPatch. By default copies them over if all
+        :param copy_timestamps: Copy timestamps to the new EOPatch. By default copies them over if all
             features are copied or if any temporal features are getting copied.
         """
         if not features:  # For some reason deepcopy and copy pass {} by default
@@ -526,7 +529,7 @@ def __deepcopy__(
 
         :param memo: built-in parameter for memoization
         :param features: A collection of features or feature types that will be copied into new EOPatch.
-        :param copy_timestamps: Whether to copy timestamps to the new EOPatch. By default copies them over if all
+        :param copy_timestamps: Copy timestamps to the new EOPatch. By default copies them over if all
             features are copied or if any temporal features are getting copied.
         """
         if not features:  # For some reason deepcopy and copy pass {} by default
@@ -564,7 +567,7 @@ def copy(
         :param features: Features to be copied into a new `EOPatch`. By default, all features will be copied.
         :param deep: If `True` it will make a deep copy of all data inside the `EOPatch`. Otherwise, only a shallow copy
             of `EOPatch` will be made. Note that `BBOX` and `TIMESTAMPS` will be copied even with a shallow copy.
-        :param copy_timestamps: Whether to copy timestamps to the new EOPatch. By default copies them over if all
+        :param copy_timestamps: Copy timestamps to the new EOPatch. By default copies them over if all
             features are copied or if any temporal features are getting copied.
         :return: An EOPatch copy.
         """
@@ -591,14 +594,14 @@ def get_features(self) -> list[Feature]:
 
         :return: List of non-empty features
         """
-        feature_list: list[Feature] = []
         with warnings.catch_warnings():
             warnings.filterwarnings("ignore", message=FEATURETYPE_DEPRECATION_MSG.format(".*?", ".*?"))
             removed_ftypes = {FeatureType.BBOX, FeatureType.TIMESTAMPS}  # list comprehensions make ignoring hard
-        for feature_type in (ftype for ftype in FeatureType if ftype not in removed_ftypes):
-            for feature_name in self[feature_type]:
-                feature_list.append((feature_type, feature_name))
-        return feature_list
+        return [
+            (feature_type, feature_name)
+            for feature_type in (ftype for ftype in FeatureType if ftype not in removed_ftypes)
+            for feature_name in self[feature_type]
+        ]
 
     def save(
         self,
@@ -620,7 +623,7 @@ def save(
         :param overwrite_permission: A level of permission for overwriting an existing EOPatch
         :param filesystem: An existing filesystem object. If not given it will be initialized according to the `path`
             parameter.
-        :save_timestamps: Whether to save the timestamps of the EOPatch. With the `"auto"` setting timestamps are saved
+        :save_timestamps: Save the timestamps of the EOPatch. With the `"auto"` setting timestamps are saved
             if `features=...` or if other temporal features are being saved.
         :param use_zarr: Saves numpy-array based features into Zarr files. Requires ZARR extra dependencies.
         :param temporal_selection: Writes all of the data to the chosen temporal indices of preexisting arrays. Can be
@@ -666,7 +669,7 @@ def load(
         :param lazy_loading: If `True` features will be lazy loaded.
         :param filesystem: An existing filesystem object. If not given it will be initialized according to the `path`
             parameter.
-        :load_timestamps: Whether to load the timestamps of the EOPatch. With the `"auto"` setting timestamps are loaded
+        :load_timestamps: Load the timestamps of the EOPatch. With the `"auto"` setting timestamps are loaded
             if `features=...` or if other temporal features are being loaded.
         :param temporal_selection: Only loads data corresponding to the chosen indices. Can also be a callable that,
             given a list of timestamps, returns a list of booleans declaring which temporal slices to load.
@@ -688,7 +691,10 @@ def load(
             _trigger_loading_for_eopatch_features(eopatch)
         return eopatch
 
-    @deprecated_function(EODeprecationWarning, "Use the function `eolearn.core.merge_eopatches` instead.")
+    @deprecated(
+        "The EOPatch method `merge` has been deprecated. Use the function `eolearn.core.merge_eopatches` instead.",
+        category=EODeprecationWarning,
+    )
     def merge(
         self,
         *eopatches: EOPatch,
@@ -727,7 +733,10 @@ def merge(
             self, *eopatches, features=features, time_dependent_op=time_dependent_op, timeless_op=timeless_op
         )
 
-    @deprecated_function(EODeprecationWarning, "Please use the method `temporal_subset` instead.")
+    @deprecated(
+        "The method `consolidate_timestamps` has been deprecated. Use the method `temporal_subset` instead.",
+        category=EODeprecationWarning,
+    )
     def consolidate_timestamps(self, timestamps: list[dt.datetime]) -> set[dt.datetime]:
         """Removes all frames from the EOPatch with a date not found in the provided timestamps list.