Update test minversions, pyvista min version

.github/workflows/tests.yaml

@@ -96,6 +96,8 @@ jobs:
       with:
         path: ${{ env.pythonLocation }}
         key: ${{ env.pythonLocation }}-${{ hashFiles('requirements/min-reqs.old') }}-${{ hashFiles('requirements/mins-cons.old') }}
+    - name: Setup headless display for pyvista
+      uses: pyvista/setup-headless-display-action@v2
     - name: Install apt dependencies (Linux)
       run: |
         sudo apt-get update

.pre-commit-config.yaml

@@ -34,5 +34,5 @@ repos:
         hooks:
         -   id: mypy
             args: [--strict, --ignore-missing-imports, --show-error-codes]
-            additional_dependencies: [torch>=2, torchmetrics>=0.10, lightning>=1.8, pytest>=6, pyvista>=0.20, omegaconf>=2.0.1, hydra-core>=1, kornia>=0.6, numpy>=1.22]
+            additional_dependencies: [torch>=2, torchmetrics>=0.10, lightning>=1.8, pytest>=6.1.2, pyvista>=0.29, omegaconf>=2.0.1, hydra-core>=1, kornia>=0.6.5, numpy>=1.22]
             exclude: (build|data|dist|logo|logs|output)/

environment.yml

@@ -13,7 +13,7 @@ dependencies:
   - pyproj>=3
   - python>=3.9
   - pytorch>=1.12
-  - pyvista>=0.25.2
+  - pyvista>=0.29
   - rarfile>=4
   - rasterio>=1.2
   - shapely>=1.7.1

requirements/min-reqs.old

@@ -26,7 +26,7 @@ laspy==2.0.0
 opencv-python==4.4.0.46
 pandas==1.1.3
 pycocotools==2.0.4
-pyvista==0.25.2
+pyvista==0.29.0
 radiant-mlhub==0.3.0
 rarfile==4.0
 scikit-image==0.18.0

setup.cfg

@@ -79,8 +79,8 @@ datasets =
     pandas>=1.1.3,<3
     # pycocotools 2.0.4+ required to avoid use of deprecated setuptools fetch_build_eggs
     pycocotools>=2.0.4,<3
-    # pyvista 0.25.2 required for wheels
-    pyvista>=0.25.2,<0.39
+    # pyvista 0.29+ required for to avoid segfault during testing
+    pyvista>=0.29,<0.39
     # radiant-mlhub 0.3+ required for newer tqdm support required by lightning
     radiant-mlhub>=0.3,<0.6
     # rarfile 4+ required for wheels

tests/datamodules/test_usavars.py

@@ -14,7 +14,7 @@
 class TestUSAVarsDataModule:
     @pytest.fixture
     def datamodule(self, request: SubRequest) -> USAVarsDataModule:
-        pytest.importorskip("pandas", minversion="0.23.2")
+        pytest.importorskip("pandas", minversion="1.1.3")
         root = os.path.join("tests", "data", "usavars")
         batch_size = 1
         num_workers = 0

tests/datasets/test_benin_cashews.py

@@ -32,7 +32,7 @@ class TestBeninSmallHolderCashews:
     def dataset(
         self, monkeypatch: MonkeyPatch, tmp_path: Path
     ) -> BeninSmallHolderCashews:
-        radiant_mlhub = pytest.importorskip("radiant_mlhub", minversion="0.2.1")
+        radiant_mlhub = pytest.importorskip("radiant_mlhub", minversion="0.3")
         monkeypatch.setattr(radiant_mlhub.Collection, "fetch", fetch)
         source_md5 = "255efff0f03bc6322470949a09bc76db"
         labels_md5 = "ed2195d93ca6822d48eb02bc3e81c127"

tests/datasets/test_cloud_cover.py

@@ -31,7 +31,7 @@ def fetch(dataset_id: str, **kwargs: str) -> Collection:
 class TestCloudCoverDetection:
     @pytest.fixture
     def dataset(self, monkeypatch: MonkeyPatch, tmp_path: Path) -> CloudCoverDetection:
-        radiant_mlhub = pytest.importorskip("radiant_mlhub", minversion="0.2.1")
+        radiant_mlhub = pytest.importorskip("radiant_mlhub", minversion="0.3")
         monkeypatch.setattr(radiant_mlhub.Collection, "fetch", fetch)
 
         test_image_meta = {

tests/datasets/test_cv4a_kenya_crop_type.py

@@ -32,7 +32,7 @@ def fetch(dataset_id: str, **kwargs: str) -> Collection:
 class TestCV4AKenyaCropType:
     @pytest.fixture
     def dataset(self, monkeypatch: MonkeyPatch, tmp_path: Path) -> CV4AKenyaCropType:
-        radiant_mlhub = pytest.importorskip("radiant_mlhub", minversion="0.2.1")
+        radiant_mlhub = pytest.importorskip("radiant_mlhub", minversion="0.3")
         monkeypatch.setattr(radiant_mlhub.Collection, "fetch", fetch)
         source_md5 = "7f4dcb3f33743dddd73f453176308bfb"
         labels_md5 = "95fc59f1d94a85ec00931d4d1280bec9"

tests/datasets/test_cyclone.py

@@ -32,7 +32,7 @@ class TestTropicalCyclone:
     def dataset(
         self, monkeypatch: MonkeyPatch, tmp_path: Path, request: SubRequest
     ) -> TropicalCyclone:
-        radiant_mlhub = pytest.importorskip("radiant_mlhub", minversion="0.2.1")
+        radiant_mlhub = pytest.importorskip("radiant_mlhub", minversion="0.3")
         monkeypatch.setattr(radiant_mlhub.Collection, "fetch", fetch)
         md5s = {
             "train": {

tests/datasets/test_eddmaps.py

@@ -11,7 +11,7 @@
 
 from torchgeo.datasets import BoundingBox, EDDMapS, IntersectionDataset, UnionDataset
 
-pytest.importorskip("pandas", minversion="0.23.2")
+pytest.importorskip("pandas", minversion="1.1.3")
 
 
 class TestEDDMapS:

tests/datasets/test_gbif.py

@@ -11,7 +11,7 @@
 
 from torchgeo.datasets import GBIF, BoundingBox, IntersectionDataset, UnionDataset
 
-pytest.importorskip("pandas", minversion="0.23.2")
+pytest.importorskip("pandas", minversion="1.1.3")
 
 
 class TestGBIF:

tests/datasets/test_idtrees.py

@@ -18,7 +18,7 @@
 import torchgeo.datasets.utils
 from torchgeo.datasets import IDTReeS
 
-pytest.importorskip("pandas", minversion="0.23.2")
+pytest.importorskip("pandas", minversion="1.1.3")
 pytest.importorskip("laspy", minversion="2")
 
 
@@ -140,7 +140,7 @@ def test_plot(self, dataset: IDTReeS) -> None:
             plt.close()
 
     def test_plot_las(self, dataset: IDTReeS) -> None:
-        pyvista = pytest.importorskip("pyvista", minversion="0.35.1")
+        pyvista = pytest.importorskip("pyvista", minversion="0.29")
 
         # Test point cloud without colors
         point_cloud = dataset.plot_las(index=0)

tests/datasets/test_inaturalist.py

@@ -16,7 +16,7 @@
     UnionDataset,
 )
 
-pytest.importorskip("pandas", minversion="0.23.2")
+pytest.importorskip("pandas", minversion="1.1.3")
 
 
 class TestINaturalist:

tests/datasets/test_landcoverai.py

@@ -75,7 +75,7 @@ class TestLandCoverAI:
     def dataset(
         self, monkeypatch: MonkeyPatch, tmp_path: Path, request: SubRequest
     ) -> LandCoverAI:
-        pytest.importorskip("cv2", minversion="3.4.2.17")
+        pytest.importorskip("cv2", minversion="4.4.0.46")
         monkeypatch.setattr(torchgeo.datasets.landcoverai, "download_url", download_url)
         md5 = "ff8998857cc8511f644d3f7d0f3688d0"
         monkeypatch.setattr(LandCoverAI, "md5", md5)
@@ -106,7 +106,7 @@ def test_already_extracted(self, dataset: LandCoverAI) -> None:
         LandCoverAI(root=dataset.root, download=True)
 
     def test_already_downloaded(self, monkeypatch: MonkeyPatch, tmp_path: Path) -> None:
-        pytest.importorskip("cv2", minversion="3.4.2.17")
+        pytest.importorskip("cv2", minversion="4.4.0.46")
         sha256 = "ecec8e871faf1bbd8ca525ca95ddc1c1f5213f40afb94599884bd85f990ebd6b"
         monkeypatch.setattr(LandCoverAI, "sha256", sha256)
         url = os.path.join("tests", "data", "landcoverai", "landcover.ai.v1.zip")

tests/datasets/test_nasa_marine_debris.py

@@ -41,7 +41,7 @@ def fetch_corrupted(collection_id: str, **kwargs: str) -> Collection_corrupted:
 class TestNASAMarineDebris:
     @pytest.fixture()
     def dataset(self, monkeypatch: MonkeyPatch, tmp_path: Path) -> NASAMarineDebris:
-        radiant_mlhub = pytest.importorskip("radiant_mlhub", minversion="0.2.1")
+        radiant_mlhub = pytest.importorskip("radiant_mlhub", minversion="0.3")
         monkeypatch.setattr(radiant_mlhub.Collection, "fetch", fetch)
         md5s = ["6f4f0d2313323950e45bf3fc0c09b5de", "540cf1cf4fd2c13b609d0355abe955d7"]
         monkeypatch.setattr(NASAMarineDebris, "md5s", md5s)
@@ -85,7 +85,7 @@ def test_corrupted_new_download(
         self, tmp_path: Path, monkeypatch: MonkeyPatch
     ) -> None:
         with pytest.raises(RuntimeError, match="Dataset checksum mismatch."):
-            radiant_mlhub = pytest.importorskip("radiant_mlhub", minversion="0.2.1")
+            radiant_mlhub = pytest.importorskip("radiant_mlhub", minversion="0.3")
             monkeypatch.setattr(radiant_mlhub.Collection, "fetch", fetch_corrupted)
             NASAMarineDebris(root=str(tmp_path), download=True, checksum=True)
 

tests/datasets/test_openbuildings.py

@@ -23,7 +23,7 @@
     UnionDataset,
 )
 
-pd = pytest.importorskip("pandas", minversion="0.23.2")
+pd = pytest.importorskip("pandas", minversion="1.1.3")
 
 
 class TestOpenBuildings:

tests/datasets/test_reforestree.py

@@ -24,7 +24,7 @@ def download_url(url: str, root: str, *args: str) -> None:
 class TestReforesTree:
     @pytest.fixture
     def dataset(self, monkeypatch: MonkeyPatch, tmp_path: Path) -> ReforesTree:
-        pytest.importorskip("pandas", minversion="0.23.2")
+        pytest.importorskip("pandas", minversion="1.1.3")
         monkeypatch.setattr(torchgeo.datasets.utils, "download_url", download_url)
         data_dir = os.path.join("tests", "data", "reforestree")
 
@@ -79,7 +79,7 @@ def test_len(self, dataset: ReforesTree) -> None:
         assert len(dataset) == 2
 
     def test_not_extracted(self, tmp_path: Path) -> None:
-        pytest.importorskip("pandas", minversion="0.23.2")
+        pytest.importorskip("pandas", minversion="1.1.3")
         url = os.path.join("tests", "data", "reforestree", "reforesTree.zip")
         shutil.copy(url, tmp_path)
         ReforesTree(root=str(tmp_path))

tests/datasets/test_resisc45.py

@@ -25,7 +25,7 @@ class TestRESISC45:
     def dataset(
         self, monkeypatch: MonkeyPatch, tmp_path: Path, request: SubRequest
     ) -> RESISC45:
-        pytest.importorskip("rarfile", minversion="3")
+        pytest.importorskip("rarfile", minversion="4")
 
         monkeypatch.setattr(torchgeo.datasets.resisc45, "download_url", download_url)
         md5 = "5895dea3757ba88707d52f5521c444d3"

tests/datasets/test_so2sat.py

@@ -15,7 +15,7 @@
 
 from torchgeo.datasets import So2Sat
 
-pytest.importorskip("h5py", minversion="2.6")
+pytest.importorskip("h5py", minversion="3")
 
 
 class TestSo2Sat:

tests/datasets/test_spacenet.py

@@ -24,7 +24,7 @@
 )
 
 TEST_DATA_DIR = "tests/data/spacenet"
-radiant_mlhub = pytest.importorskip("radiant_mlhub", minversion="0.2.1")
+radiant_mlhub = pytest.importorskip("radiant_mlhub", minversion="0.3")
 
 
 class Collection:

tests/datasets/test_usavars.py

@@ -18,7 +18,7 @@
 import torchgeo.datasets.utils
 from torchgeo.datasets import USAVars
 
-pytest.importorskip("pandas", minversion="0.23.2")
+pytest.importorskip("pandas", minversion="1.1.3")
 
 
 def download_url(url: str, root: str, *args: str, **kwargs: str) -> None:

tests/datasets/test_utils.py

@@ -95,7 +95,7 @@ def test_mock_missing_module(mock_missing_module: None) -> None:
 )
 def test_extract_archive(src: str, tmp_path: Path) -> None:
     if src.endswith(".rar"):
-        pytest.importorskip("rarfile", minversion="3")
+        pytest.importorskip("rarfile", minversion="4")
     if src.startswith("chesapeake"):
         pytest.importorskip("zipfile_deflate64")
     extract_archive(os.path.join("tests", "data", src), str(tmp_path))
@@ -134,15 +134,15 @@ def test_download_and_extract_archive(tmp_path: Path, monkeypatch: MonkeyPatch)
 def test_download_radiant_mlhub_dataset(
     tmp_path: Path, monkeypatch: MonkeyPatch
 ) -> None:
-    radiant_mlhub = pytest.importorskip("radiant_mlhub", minversion="0.2.1")
+    radiant_mlhub = pytest.importorskip("radiant_mlhub", minversion="0.3")
     monkeypatch.setattr(radiant_mlhub.Dataset, "fetch", fetch_dataset)
     download_radiant_mlhub_dataset("", str(tmp_path))
 
 
 def test_download_radiant_mlhub_collection(
     tmp_path: Path, monkeypatch: MonkeyPatch
 ) -> None:
-    radiant_mlhub = pytest.importorskip("radiant_mlhub", minversion="0.2.1")
+    radiant_mlhub = pytest.importorskip("radiant_mlhub", minversion="0.3")
     monkeypatch.setattr(radiant_mlhub.Collection, "fetch", fetch_collection)
     download_radiant_mlhub_collection("", str(tmp_path))
 

tests/datasets/test_vhr10.py

@@ -30,7 +30,7 @@ class TestVHR10:
     def dataset(
         self, monkeypatch: MonkeyPatch, tmp_path: Path, request: SubRequest
     ) -> VHR10:
-        pytest.importorskip("rarfile", minversion="3")
+        pytest.importorskip("rarfile", minversion="4")
         monkeypatch.setattr(torchgeo.datasets.vhr10, "download_url", download_url)
         monkeypatch.setattr(torchgeo.datasets.utils, "download_url", download_url)
         url = os.path.join("tests", "data", "vhr10", "NWPU VHR-10 dataset.rar")

tests/datasets/test_western_usa_live_fuel_moisture.py

@@ -36,7 +36,7 @@ class TestWesternUSALiveFuelMoisture:
     def dataset(
         self, monkeypatch: MonkeyPatch, tmp_path: Path
     ) -> WesternUSALiveFuelMoisture:
-        radiant_mlhub = pytest.importorskip("radiant_mlhub", minversion="0.2.1")
+        radiant_mlhub = pytest.importorskip("radiant_mlhub", minversion="0.3")
         monkeypatch.setattr(radiant_mlhub.Collection, "fetch", fetch)
         md5 = "ecbc9269dd27c4efe7aa887960054351"
         monkeypatch.setattr(WesternUSALiveFuelMoisture, "md5", md5)

tests/datasets/test_zuericrop.py

@@ -16,7 +16,7 @@
 import torchgeo.datasets.utils
 from torchgeo.datasets import ZueriCrop
 
-pytest.importorskip("h5py", minversion="2.6")
+pytest.importorskip("h5py", minversion="3")
 
 
 def download_url(url: str, root: str, *args: str, **kwargs: str) -> None:

tests/trainers/test_classification.py

@@ -84,7 +84,7 @@ def test_trainer(
         self, monkeypatch: MonkeyPatch, name: str, fast_dev_run: bool
     ) -> None:
         if name.startswith("so2sat"):
-            pytest.importorskip("h5py", minversion="2.6")
+            pytest.importorskip("h5py", minversion="3")
 
         conf = OmegaConf.load(os.path.join("tests", "conf", name + ".yaml"))