inital test setup

src/roiextractors/extractorlist.py

@@ -15,6 +15,8 @@
 from .extractors.tiffimagingextractors import (
     TiffImagingExtractor,
     ScanImageTiffImagingExtractor,
+    ScanImageTiffSinglePlaneImagingExtractor,
+    ScanImageTiffMultiPlaneImagingExtractor,
     BrukerTiffMultiPlaneImagingExtractor,
     BrukerTiffSinglePlaneImagingExtractor,
     MicroManagerTiffImagingExtractor,
@@ -31,6 +33,8 @@
     Hdf5ImagingExtractor,
     TiffImagingExtractor,
     ScanImageTiffImagingExtractor,
+    ScanImageTiffSinglePlaneImagingExtractor,
+    ScanImageTiffMultiPlaneImagingExtractor,
     BrukerTiffMultiPlaneImagingExtractor,
     BrukerTiffSinglePlaneImagingExtractor,
     MicroManagerTiffImagingExtractor,

src/roiextractors/extractors/tiffimagingextractors/__init__.py

@@ -16,7 +16,11 @@
 TiffImagingExtractor
     A ImagingExtractor for TIFF files.
 ScanImageTiffImagingExtractor
-    Specialized extractor for reading TIFF files produced via ScanImage.
+    Legacy extractor for reading TIFF files produced via ScanImage v3.8.
+ScanImageTiffSinglePlaneImagingExtractor
+    Specialized extractor for reading single-plane TIFF files produced via ScanImage.
+ScanImageTiffMultiPlaneImagingExtractor
+    Specialized extractor for reading multi-plane TIFF files produced via ScanImage.
 BrukerTiffMultiPlaneImagingExtractor
     Specialized extractor for reading TIFF files produced via Bruker.
 BrukerTiffSinglePlaneImagingExtractor
@@ -25,6 +29,10 @@
     Specialized extractor for reading TIFF files produced via Micro-Manager.
 """
 from .tiffimagingextractor import TiffImagingExtractor
-from .scanimagetiffimagingextractor import ScanImageTiffImagingExtractor
+from .scanimagetiffimagingextractor import (
+    ScanImageTiffImagingExtractor,
+    ScanImageTiffMultiPlaneImagingExtractor,
+    ScanImageTiffSinglePlaneImagingExtractor,
+)
 from .brukertiffimagingextractor import BrukerTiffMultiPlaneImagingExtractor, BrukerTiffSinglePlaneImagingExtractor
 from .micromanagertiffimagingextractor import MicroManagerTiffImagingExtractor

tests/test_scanimagetiffimagingextractor.py

@@ -0,0 +1,20 @@
+import pytest
+from pathlib import Path
+from tempfile import mkdtemp
+from shutil import rmtree, copy
+
+from ScanImageTiffReader import ScanImageTiffReader
+from roiextractors import ScanImageTiffSinglePlaneImagingExtractor, ScanImageTiffMultiPlaneImagingExtractor
+
+from .setup_paths import OPHYS_DATA_PATH
+
+
+@pytest.fixture(scope="module")
+def scan_image_tiff_single_plane_imaging_extractor():
+    file_path = OPHYS_DATA_PATH / "imaging_datasets" / "ScanImage" / "scanimage_20220801_volume.tif"
+    return ScanImageTiffSinglePlaneImagingExtractor(file_path=file_path)
+
+
+def test_get_video(scan_image_tiff_single_plane_imaging_extractor):
+    video = scan_image_tiff_single_plane_imaging_extractor.get_video()
+    assert video.shape == (1, 512, 512)