ngio 0.3.2__tar.gz → 0.3.3__tar.gz

{ngio-0.3.2 → ngio-0.3.3}/.github/workflows/build_docs.yml

@@ -4,28 +4,23 @@ on:
   push:
     branches:
       - dev
+      - main
     tags:
       - "v*"
 
-jobs:
-  download-test-ome-zarr:
-    runs-on: ubuntu-latest
-    steps:
-      - uses: actions/checkout@v4
-      - name: Check and Download Artifacts
-        run: |
-          bash .github/scripts/download_data.sh
+concurrency:
+  group: ${{ github.workflow }}-${{ github.ref }}
+  cancel-in-progress: true
 
+jobs:
   deploy:
     name: Deploy Docs
-    needs: download-test-ome-zarr
     runs-on: ubuntu-latest
 
     steps:
       - uses: actions/checkout@v4
         with:
           fetch-depth: 0
-
       - name: 🐍 Set up Python
         uses: actions/setup-python@v5
         with:
@@ -44,6 +39,15 @@ jobs:
           git config --local user.email "github-actions[bot]@users.noreply.github.com"
           git config --local user.name "github-actions[bot]"
         
+      - name: Restore shared data cache
+        id: cache-data
+        uses: actions/cache@v4
+        with:
+          path: data/
+          key: "${{ runner.os }}-data-${{ hashFiles('tests/conftest.py') }}"
+          restore-keys: |
+            "${{ runner.os }}-data-"
+            
       - name: Deploy docs
         run: |
           VERSION=$(echo $GITHUB_REF | sed 's/refs\/tags\///' | sed 's/refs\/heads\///')
@@ -53,9 +57,10 @@ jobs:
           if [[ $GITHUB_REF == refs/tags/* ]] && [[ $VERSION =~ ^v[0-9.]+$ ]]; then
             mike deploy --push --update-aliases $VERSION stable
             mike set-default --push stable
-            echo "Deployed stable version"
-          else
+            echo "Deployed stable version $VERSION (stable)"
+
+          elif [[ $GITHUB_REF == refs/heads/dev ]]; then
             mike deploy --push dev
             mike set-default --push dev
-            echo "Deployed development version"
+            echo "Deployed development version (dev)"
           fi

{ngio-0.3.2 → ngio-0.3.3}/.github/workflows/ci.yml

@@ -27,49 +27,18 @@ jobs:
       - uses: actions/checkout@v4
       - run: pipx run check-manifest
 
-  
-  download-test-ome-zarr:
-    runs-on: ubuntu-latest
-    steps:
-      - uses: actions/checkout@v4
-      - name: Check and Download Artifacts
-        run: |
-          bash .github/scripts/download_data.sh
-      - name: Upload Artifacts
-        uses: actions/upload-artifact@v4
-        with:
-          name: data
-          path: data
-
-
   test:
     name: ${{ matrix.platform }} (${{ matrix.python-version }})
-    needs: download-test-ome-zarr
     runs-on: ${{ matrix.platform }}
     strategy:
       fail-fast: false
       matrix:
         python-version: ["3.11", "3.12", "3.13"]
         platform: [ubuntu-latest, macos-latest, windows-latest]
-        # platform: [ubuntu-latest, macos-latest]
-        exclude:
-          - python-version: "3.11"
-            platform: windows-latest
-          - python-version: "3.12"
-            platform: windows-latest
 
     steps:
       - uses: actions/checkout@v4
 
-      - uses: actions/download-artifact@v4
-        with:
-          name: data
-          path: data
-
-      - name: Check Artifacts
-        run: |
-          ls -l data
-
       - name: 🐍 Set up Python ${{ matrix.python-version }}
         uses: actions/setup-python@v5
         with:
@@ -82,6 +51,15 @@ jobs:
           python -m pip install -U pip
           # if running a cron job, we add the --pre flag to test against pre-releases
           python -m pip install .[test] ${{ github.event_name == 'schedule' && '--pre' || ''  }}
+      
+      - name: Restore shared data cache
+        id: cache-data
+        uses: actions/cache@v4
+        with:
+          path: data/
+          key: "${{ runner.os }}-data-${{ hashFiles('tests/conftest.py') }}"
+          restore-keys: |
+            "${{ runner.os }}-data-"
 
       - name: 🧪 Run Tests
         run: pytest
@@ -101,7 +79,6 @@ jobs:
           update_existing: true
 
       - name: Coverage
-        if: ${{ matrix.python-version == '3.10' }} && ${{ matrix.platform == 'ubuntu-latest' }}
         uses: codecov/codecov-action@v5
         with:
           token: ${{ secrets.CODECOV_TOKEN }}

{ngio-0.3.2 → ngio-0.3.3}/CHANGELOG.md

@@ -1,5 +1,11 @@
 # Changelog
 
+## [v0.3.3]
+
+### Chores
+
+- improve dataset download process and streamline the CI workflows
+
 ## [v0.3.2]
 
 ### API Changes

{ngio-0.3.2 → ngio-0.3.3}/PKG-INFO

@@ -1,6 +1,6 @@
 Metadata-Version: 2.4
 Name: ngio
-Version: 0.3.2
+Version: 0.3.3
 Summary: Next Generation file format IO
 Project-URL: homepage, https://github.com/fractal-analytics-platform/ngio
 Project-URL: repository, https://github.com/fractal-analytics-platform/ngio

{ngio-0.3.2 → ngio-0.3.3}/docs/getting_started/0_quickstart.md

@@ -57,7 +57,7 @@ from ngio.utils import download_ome_zarr_dataset
 
 # Download a sample dataset
 download_dir = Path("./data")
-download_dir = Path(".").absolute().parent.parent / "data" # markdown-exec: hide
+download_dir = Path(".").absolute() / "data" # markdown-exec: hide
 hcs_path = download_ome_zarr_dataset("CardiomyocyteSmallMip", download_dir=download_dir)
 image_path = hcs_path / "B" / "03" / "0"
 ```

{ngio-0.3.2 → ngio-0.3.3}/docs/getting_started/1_ome_zarr_containers.md

@@ -9,7 +9,7 @@ from ngio.utils import download_ome_zarr_dataset
 
 # Download a sample dataset
 download_dir = Path("./data")
-download_dir = Path(".").absolute().parent.parent / "data" # markdown-exec: hide
+download_dir = Path(".").absolute() / "data" # markdown-exec: hide
 hcs_path = download_ome_zarr_dataset("CardiomyocyteSmallMip", download_dir=download_dir)
 image_path = hcs_path / "B" / "03" / "0"
 

{ngio-0.3.2 → ngio-0.3.3}/docs/getting_started/4_masked_images.md

@@ -10,7 +10,7 @@ from ngio import open_ome_zarr_container
 from ngio.utils import download_ome_zarr_dataset
 
 # Download a sample dataset
-download_dir = Path(".").absolute().parent.parent / "data" 
+download_dir = Path(".").absolute() / "data" 
 hcs_path = download_ome_zarr_dataset("CardiomyocyteSmallMip", download_dir=download_dir)
 image_path = hcs_path / "B" / "03" / "0"
 

{ngio-0.3.2 → ngio-0.3.3}/docs/getting_started/5_hcs.md

@@ -10,7 +10,7 @@ Let's open an `OmeZarrPlate` object.
 >>> from pathlib import Path # markdown-exec: hide
 >>> from ngio.utils import download_ome_zarr_dataset
 >>> from ngio import open_ome_zarr_plate
->>> download_dir = Path(".").absolute().parent.parent / "data" # markdown-exec: hide
+>>> download_dir = Path(".").absolute() / "data" # markdown-exec: hide
 >>> hcs_path = download_ome_zarr_dataset("CardiomyocyteSmallMip", download_dir=download_dir)
 >>> ome_zarr_plate = open_ome_zarr_plate(hcs_path)
 >>> ome_zarr_plate
@@ -111,6 +111,7 @@ The `OmeZarrPlate` object provides a method to get the image objects in a well.
 Ngio provides a utility function to create a plate.
 
 The first step is to create a list of `ImageInWellPath` objects. Each `ImageInWellPath` object contains the path to the image and the corresponding well.
+
 ```python exec="true" source="console" session="hcs_plate"
 from ngio import ImageInWellPath
 list_of_images = [ImageInWellPath(path="0", row="A", column=0),
@@ -124,6 +125,7 @@ list_of_images = [ImageInWellPath(path="0", row="A", column=0),
     The order in which the images are added is not important. The `rows` and `columns` attributes of the plate will be sorted in alphabetical/numerical order.
 
 Then, you can create the plate using the `create_empty_plate` function.
+
 ```pycon exec="true" source="console" session="hcs_plate"
 >>> from ngio import create_empty_plate
 >>> plate = create_empty_plate(store="new_plate.zarr", name="test_plate", images=list_of_images, overwrite=True)
@@ -131,7 +133,7 @@ Then, you can create the plate using the `create_empty_plate` function.
 >>> print(plate) # markdown-exec: hide
 ```
 
-This has created a new empty plate with the metadata correctly set. But no images have been added yet. 
+This has created a new empty plate with the metadata correctly set. But no images have been added yet.
 
 ### Modifying the plate
 

{ngio-0.3.2 → ngio-0.3.3}/src/ngio/hcs/_plate.py

@@ -200,7 +200,7 @@ class OmeZarrWell:
         )
 
 
-def _buil_extras(paths: Collection[str]) -> list[dict[str, str]]:
+def _build_extras(paths: Collection[str]) -> list[dict[str, str]]:
     """Build the extras for the images.
 
     Args:
@@ -1021,7 +1021,7 @@ class OmeZarrPlate:
                 if 'lazy', the table will be loaded as a lazy frame.
         """
         images = self.get_images(acquisition=acquisition)
-        extras = _buil_extras(images.keys())
+        extras = _build_extras(images.keys())
         return concatenate_image_tables(
             images=images.values(),
             extras=extras,
@@ -1055,7 +1055,7 @@ class OmeZarrPlate:
                 if 'lazy', the table will be loaded as a lazy frame.
         """
         images = self.get_images(acquisition=acquisition)
-        extras = _buil_extras(images.keys())
+        extras = _build_extras(images.keys())
         return concatenate_image_tables_as(
             images=images.values(),
             extras=extras,
@@ -1088,7 +1088,7 @@ class OmeZarrPlate:
                 if 'lazy', the table will be loaded as a lazy frame.
         """
         images = await self.get_images_async(acquisition=acquisition)
-        extras = _buil_extras(images.keys())
+        extras = _build_extras(images.keys())
         return await concatenate_image_tables_async(
             images=images.values(),
             extras=extras,
@@ -1122,7 +1122,7 @@ class OmeZarrPlate:
                 if 'lazy', the table will be loaded as a lazy frame.
         """
         images = await self.get_images_async(acquisition=acquisition)
-        extras = _buil_extras(images.keys())
+        extras = _build_extras(images.keys())
         return await concatenate_image_tables_as_async(
             images=images.values(),
             extras=extras,

{ngio-0.3.2 → ngio-0.3.3}/src/ngio/tables/_tables_container.py

@@ -97,7 +97,7 @@ class Table(Protocol):
 
         Either a handler or a backend must be provided.
 
-        If the hanlder in none it will be inferred from the backend.
+        If the handler in none it will be inferred from the backend.
         If the backend is none, it will be inferred from the group attrs
         """
         ...

{ngio-0.3.2 → ngio-0.3.3}/src/ngio/tables/v1/_condition_table.py

@@ -23,7 +23,7 @@ class ConditionTableV1(AbstractBaseTable):
     The condition table is a generic table that does not
     have a specific definition.
 
-    It is used to store informations about the particular conditions
+    It is used to store information about the particular conditions
     used to generate the data.
     - How much drug was used in the experiment
     - What treatment was used

{ngio-0.3.2 → ngio-0.3.3}/src/ngio/utils/__init__.py

@@ -3,7 +3,11 @@
 import os
 
 from ngio.common._common_types import ArrayLike
-from ngio.utils._datasets import download_ome_zarr_dataset, list_ome_zarr_datasets
+from ngio.utils._datasets import (
+    download_ome_zarr_dataset,
+    list_ome_zarr_datasets,
+    print_datasets_infos,
+)
 from ngio.utils._errors import (
     NgioFileExistsError,
     NgioFileNotFoundError,
@@ -34,13 +38,13 @@ __all__ = [
     "NgioValueError",
     "StoreOrGroup",
     "ZarrGroupHandler",
-    # Datasets
+    # Other
     "download_ome_zarr_dataset",
-    # Fractal
     "fractal_fsspec_store",
     "list_ome_zarr_datasets",
     # Logger
     "ngio_logger",
     "open_group_wrapper",
+    "print_datasets_infos",
     "set_logger_level",
 ]

ngio-0.3.3/src/ngio/utils/_datasets.py

@@ -0,0 +1,154 @@
+"""Download testing OME-Zarr datasets."""
+
+import shutil
+from pathlib import Path
+from typing import Literal
+
+import pooch
+
+from ngio.utils._errors import NgioValueError
+
+
+class UnzipAndRename(pooch.Unzip):
+    """Unzip and rename the extracted directory."""
+
+    def __init__(
+        self,
+        extract_dir: str = "",
+        out_name: str = "ome-zarr.zarr",
+        re_unzip: bool = True,
+        **kwargs,
+    ):
+        super().__init__(extract_dir=extract_dir, **kwargs)
+        self.out_name = out_name
+        self.re_unzip = re_unzip
+
+    def output_file(self) -> Path:
+        """Return the output file path."""
+        if self.extract_dir is None:
+            raise NgioValueError("extract_dir must be set for UnzipAndRename.")
+
+        return Path(self.extract_dir) / self.out_name
+
+    def _extract_file(self, fname, extract_dir):
+        """Extract the file and rename it."""
+        output_path = self.output_file()
+        if output_path.exists() and not self.re_unzip:
+            # Nothing to do, the file already exists and we are not re-unzipping
+            return None
+
+        tmp_dir = Path(extract_dir) / "tmp"
+        super()._extract_file(fname, tmp_dir)
+
+        list_extracted_dirs = tmp_dir.iterdir()
+        # Keep only if ends with .zarr
+        list_extracted_dirs = filter(
+            lambda x: x.name.endswith(".zarr"),
+            list_extracted_dirs,
+        )
+        list_extracted_dirs = list(list_extracted_dirs)
+        if len(list_extracted_dirs) != 1:
+            raise NgioValueError(
+                "Expected one directory to be extracted, "
+                f"got {len(list_extracted_dirs)}."
+            )
+
+        extracted_dir = list_extracted_dirs[0]
+        if output_path.exists():
+            shutil.rmtree(output_path, ignore_errors=True)
+
+        extracted_dir.rename(output_path)
+        # Clean up the temporary directory
+        shutil.rmtree(tmp_dir, ignore_errors=True)
+
+
+_ome_zarr_zoo = {
+    "CardiomyocyteTiny": {
+        "url": "https://zenodo.org/records/13305156/files/20200812-CardiomyocyteDifferentiation14-Cycle1.zarr.zip",
+        "known_hash": "md5:efc21fe8d4ea3abab76226d8c166452c",
+        "fname": "20200812-CardiomyocyteDifferentiation14-Cycle1-tiny.zarr.zip",
+        "description": "Tiny cardiomyocyte dataset 3D (32MB).",
+    },
+    "CardiomyocyteTinyMip": {
+        "url": "https://zenodo.org/records/13305156/files/20200812-CardiomyocyteDifferentiation14-Cycle1_mip.zarr.zip",
+        "known_hash": "md5:51809479777cafbe9ac0f9fa5636aa95",
+        "fname": "20200812-CardiomyocyteDifferentiation14-Cycle1-tiny-mip.zarr.zip",
+        "description": "Tiny cardiomyocyte dataset 2D MIP (16.4MB).",
+    },
+    "CardiomyocyteSmall": {
+        "url": "https://zenodo.org/records/13305316/files/20200812-CardiomyocyteDifferentiation14-Cycle1.zarr.zip",
+        "known_hash": "md5:d5752ed4b72a9092a0290b3c04c0b9c2",
+        "fname": "20200812-CardiomyocyteDifferentiation14-Cycle1-small.zarr.zip",
+        "description": "Small cardiomyocyte dataset 3D (750MB).",
+    },
+    "CardiomyocyteSmallMip": {
+        "url": "https://zenodo.org/records/13305316/files/20200812-CardiomyocyteDifferentiation14-Cycle1_mip.zarr.zip",
+        "known_hash": "md5:3ed3ea898e0ed42d397da2e1dbe40750",
+        "fname": "20200812-CardiomyocyteDifferentiation14-Cycle1-small-mip.zarr.zip",
+        "description": "Small cardiomyocyte dataset 2D MIP (106MB).",
+    },
+    "CardiomyocyteMediumMip": {
+        "url": "https://zenodo.org/records/14826000/files/20200812-CardiomyocyteDifferentiation14-Cycle1_mip.zarr.zip",
+        "known_hash": "md5:3f932bbf7fc0577f58b97471707816a1",
+        "fname": "20200812-CardiomyocyteDifferentiation14-Cycle1_mip.zarr.zip",
+        "description": "Medium cardiomyocyte dataset 2D MIP (30GB).",
+    },
+}
+
+AVAILABLE_DATASETS = Literal[
+    "CardiomyocyteTiny",
+    "CardiomyocyteTinyMip",
+    "CardiomyocyteSmall",
+    "CardiomyocyteSmallMip",
+    "CardiomyocyteMediumMip",
+]
+
+
+def list_ome_zarr_datasets() -> list[str]:
+    """List available OME-Zarr datasets."""
+    return list(_ome_zarr_zoo.keys())
+
+
+def print_datasets_infos() -> None:
+    for dataset_name, dataset_info in _ome_zarr_zoo.items():
+        print(f"{dataset_name} - Description: {dataset_info['description']}")
+
+
+def download_ome_zarr_dataset(
+    dataset_name: AVAILABLE_DATASETS | str,
+    download_dir: str | Path = "data",
+    re_unzip: bool = True,
+    progressbar: bool = False,
+) -> Path:
+    """Download an OME-Zarr dataset.
+
+    To list available datasets, use `list_ome_zarr_datasets`.
+
+    Args:
+        dataset_name (str): The dataset name.
+        download_dir (str): The download directory. Defaults to "data".
+        re_unzip (bool): If True, it will unzip the dataset even if it already exists.
+        progressbar (bool): If True, show a progress bar during download.
+    """
+    if dataset_name not in _ome_zarr_zoo:
+        raise NgioValueError(f"Dataset {dataset_name} not found in the OME-Zarr zoo.")
+    zenodo_infos = _ome_zarr_zoo[dataset_name]
+
+    fname = zenodo_infos["fname"]
+    zarrname = fname.replace(".zip", "")
+
+    processor = UnzipAndRename(
+        extract_dir="",
+        out_name=zarrname,
+        re_unzip=re_unzip,
+    )
+
+    pooch.retrieve(
+        url=zenodo_infos["url"],
+        known_hash=zenodo_infos["known_hash"],
+        fname=fname,
+        path=download_dir,
+        processor=processor,
+        progressbar=progressbar,
+    )
+    return processor.output_file()

{ngio-0.3.2 → ngio-0.3.3}/tests/unit/utils/test_download_datasets.py

@@ -2,11 +2,16 @@ from pathlib import Path
 
 import pytest
 
-from ngio.utils import download_ome_zarr_dataset, list_ome_zarr_datasets
+from ngio.utils import (
+    download_ome_zarr_dataset,
+    list_ome_zarr_datasets,
+    print_datasets_infos,
+)
 
 
 def test_list_datasets():
     assert len(list_ome_zarr_datasets()) > 0
+    print_datasets_infos()
 
 
 def test_fail_download_ome_zarr_dataset(tmp_path: Path):

ngio-0.3.2/.github/scripts/download_data.sh

@@ -1,97 +0,0 @@
-#!/bin/bash
-# filepath: download_zarr_datasets.sh
-
-# Default download directory
-DOWNLOAD_DIR="data"
-
-# Create download directory if it doesn't exist
-mkdir -p "$DOWNLOAD_DIR"
-
-# Function to check MD5 hash
-check_md5() {
-    local file="$1"
-    local expected="$2"
-    
-    if [[ "$(uname)" == "Darwin" ]]; then
-        # macOS
-        actual=$(md5 -q "$file")
-    else
-        # Linux/Ubuntu
-        actual=$(md5sum "$file" | awk '{print $1}')
-    fi
-
-    echo "Expected: $expected"
-    echo "Actual: $actual"
-    
-    if [[ "$actual" == "$expected" ]]; then
-        return 0  # Success
-    else
-        return 1  # Failure
-    fi
-}
-
-# Function to download a file
-download_file() {
-    local url="$1"
-    local output="$2"
-    
-    echo "Downloading $url to $output..."
-    
-    if command -v curl &> /dev/null; then
-        curl -L -o "$output" "$url"
-    elif command -v wget &> /dev/null; then
-        wget -O "$output" "$url"
-    else
-        echo "Error: Neither curl nor wget is available. Please install one of them."
-        exit 1
-    fi
-}
-
-# Function to process a dataset
-process_dataset() {
-    local filename="$1"
-    local url="$2"
-    local expected_hash="$3"
-    
-    local file_path="$DOWNLOAD_DIR/$filename"
-    
-    echo "Processing $filename..."
-    
-    # Check if file exists and has the correct hash
-    if [[ -f "$file_path" ]] && check_md5 "$file_path" "$expected_hash"; then
-        echo "File exists and has the correct hash."
-    else
-        # File doesn't exist or has incorrect hash
-        if [[ -f "$file_path" ]]; then
-            echo "File exists but has incorrect hash. Redownloading..."
-        else
-            echo "File doesn't exist. Downloading..."
-        fi
-        
-        download_file "$url" "$file_path"
-        
-        # Verify the downloaded file
-        if check_md5 "$file_path" "$expected_hash"; then
-            echo "Download successful and hash verified."
-        else
-            echo "Error: Downloaded file has incorrect hash."
-            return 1
-        fi
-    fi
-    
-    echo "File is ready at $file_path"
-    return 0
-}
-
-# Process the CardioMyocyte dataset
-process_dataset "20200812-CardiomyocyteDifferentiation14-Cycle1.zarr.zip" \
-                "https://zenodo.org/records/13305156/files/20200812-CardiomyocyteDifferentiation14-Cycle1.zarr.zip" \
-                "efc21fe8d4ea3abab76226d8c166452c"
-
-process_dataset "20200812-CardiomyocyteDifferentiation14-Cycle1_mip.zarr.zip" \
-                "https://zenodo.org/records/13305316/files/20200812-CardiomyocyteDifferentiation14-Cycle1_mip.zarr.zip" \
-                "3ed3ea898e0ed42d397da2e1dbe40750"
-# To add more datasets, add more calls to process_dataset like this:
-# process_dataset "filename.zip" "download_url" "expected_md5_hash"
-
-echo "All datasets processed."

ngio-0.3.2/src/ngio/utils/_datasets.py

@@ -1,53 +0,0 @@
-"""Download testing OME-Zarr datasets."""
-
-from pathlib import Path
-
-import pooch
-
-from ngio.utils._errors import NgioValueError
-
-_ome_zarr_zoo = {
-    "CardiomyocyteTiny": {
-        "url": "https://zenodo.org/records/13305156/files/20200812-CardiomyocyteDifferentiation14-Cycle1.zarr.zip",
-        "known_hash": "md5:efc21fe8d4ea3abab76226d8c166452c",
-        "fname": "20200812-CardiomyocyteDifferentiation14-Cycle1.zarr.zip",
-        "processor": pooch.Unzip(extract_dir=""),
-    },
-    "CardiomyocyteSmallMip": {
-        "url": "https://zenodo.org/records/13305316/files/20200812-CardiomyocyteDifferentiation14-Cycle1_mip.zarr.zip",
-        "known_hash": "md5:3ed3ea898e0ed42d397da2e1dbe40750",
-        "fname": "20200812-CardiomyocyteDifferentiation14-Cycle1_mip.zarr.zip",
-        "processor": pooch.Unzip(extract_dir=""),
-    },
-}
-
-
-def list_ome_zarr_datasets() -> list[str]:
-    """List available OME-Zarr datasets."""
-    return list(_ome_zarr_zoo.keys())
-
-
-def download_ome_zarr_dataset(
-    dataset_name: str,
-    download_dir: str | Path = "data",
-) -> Path:
-    """Download an OME-Zarr dataset.
-
-    To list available datasets, use `list_ome_zarr_datasets`.
-
-    Args:
-        dataset_name (str): The dataset name.
-        download_dir (str): The download directory. Defaults to "data".
-    """
-    if dataset_name not in _ome_zarr_zoo:
-        raise NgioValueError(f"Dataset {dataset_name} not found in the OME-Zarr zoo.")
-    ome_zarr_url = _ome_zarr_zoo[dataset_name]
-    pooch.retrieve(
-        path=download_dir,
-        **ome_zarr_url,
-    )
-    path = Path(download_dir) / ome_zarr_url["fname"]
-
-    if isinstance(ome_zarr_url["processor"], pooch.Unzip):
-        path = path.with_suffix("")
-    return path