Merge branch 'main' into webknossos-annotate

conda.yaml

@@ -16,5 +16,7 @@ dependencies:
   - ruff
   - tifffile
   - pip
+  - h5py
+  - scipy
   - pip:
     - cyclopts

linc_convert/modalities/__init__.py

@@ -1,4 +1,5 @@
 """Converters for all imaging modalities."""
 
-__all__ = ["df", "lsm", "wk"]
-from . import df, lsm, wk
+__all__ = ["df", "lsm", "wk", "psoct"]
+from . import df, lsm, wk, psoct
+

linc_convert/modalities/df/__init__.py

@@ -1,5 +1,9 @@
 """Dark Field microscopy converters."""
 
-__all__ = ["cli", "multi_slice", "single_slice"]
+try:
+    import glymur as _  # noqa: F401
 
-from . import cli, multi_slice, single_slice
+    __all__ = ["cli", "multi_slice", "single_slice"]
+    from . import cli, multi_slice, single_slice
+except ImportError:
+    pass

linc_convert/modalities/lsm/__init__.py

@@ -1,4 +1,9 @@
 """Light Sheet Microscopy converters."""
 
-__all__ = ["cli", "mosaic"]
-from . import cli, mosaic
+try:
+    import tifffile as _  # noqa: F401
+
+    __all__ = ["cli", "mosaic"]
+    from . import cli, mosaic
+except ImportError:
+    pass

linc_convert/modalities/psoct/__init__.py

@@ -0,0 +1,10 @@
+"""Polarization-sensitive optical coherence tomography converters."""
+
+try:
+    import h5py as _h5py  # noqa: F401
+    import scipy as _scipy  # noqa: F401
+
+    __all__ = ["cli", "multi_slice", "single_volume"]
+    from . import cli, multi_slice, single_volume
+except ImportError:
+    pass