removes APIs that are deprecated since 0.9

docs/source/data.rst

@@ -184,28 +184,6 @@ PILWriter
 .. autoclass:: PILWriter
   :members:
 
-Nifti format handling
----------------------
-
-Writing Nifti
-~~~~~~~~~~~~~
-.. autoclass:: monai.data.NiftiSaver
-  :members:
-
-.. autofunction:: monai.data.write_nifti
-
-
-PNG format handling
--------------------
-
-Writing PNG
-~~~~~~~~~~~
-.. autoclass:: monai.data.PNGSaver
-  :members:
-
-.. autofunction:: monai.data.write_png
-
-
 Synthetic
 ---------
 .. automodule:: monai.data.synthetic

monai/apps/deepgrow/transforms.py

@@ -22,7 +22,7 @@
 from monai.transforms import Resize, SpatialCrop
 from monai.transforms.transform import MapTransform, Randomizable, Transform
 from monai.transforms.utils import generate_spatial_bounding_box, is_positive
-from monai.utils import InterpolateMode, deprecated_arg, ensure_tuple, ensure_tuple_rep, min_version, optional_import
+from monai.utils import InterpolateMode, ensure_tuple, ensure_tuple_rep, min_version, optional_import
 from monai.utils.enums import PostFix
 
 measure, _ = optional_import("skimage.measure", "0.14.2", min_version)
@@ -496,7 +496,6 @@ class AddGuidanceFromPointsd(Transform):
 
     """
 
-    @deprecated_arg(name="dimensions", since="0.6", msg_suffix="Please use `spatial_dims` instead.")
     def __init__(
         self,
         ref_image,
@@ -509,15 +508,14 @@ def __init__(
         slice_key: str = "slice",
         meta_keys: str | None = None,
         meta_key_postfix: str = DEFAULT_POST_FIX,
-        dimensions: int | None = None,
     ):
         self.ref_image = ref_image
         self.guidance = guidance
         self.foreground = foreground
         self.background = background
         self.axis = axis
         self.depth_first = depth_first
-        self.dimensions = spatial_dims if dimensions is None else dimensions
+        self.dimensions = spatial_dims
         self.slice = slice_key
         self.meta_keys = meta_keys
         self.meta_key_postfix = meta_key_postfix

monai/data/__init__.py

@@ -63,10 +63,6 @@
 from .iterable_dataset import CSVIterableDataset, IterableDataset, ShuffleBuffer
 from .meta_obj import MetaObj, get_track_meta, set_track_meta
 from .meta_tensor import MetaTensor
-from .nifti_saver import NiftiSaver
-from .nifti_writer import write_nifti
-from .png_saver import PNGSaver
-from .png_writer import write_png
 from .samplers import DistributedSampler, DistributedWeightedRandomSampler
 from .synthetic import create_test_image_2d, create_test_image_3d
 from .test_time_augmentation import TestTimeAugmentation

monai/data/dataset.py

@@ -45,7 +45,7 @@
     convert_to_contiguous,
     reset_ops_id,
 )
-from monai.utils import MAX_SEED, deprecated_arg, get_seed, look_up_option, min_version, optional_import
+from monai.utils import MAX_SEED, get_seed, look_up_option, min_version, optional_import
 from monai.utils.misc import first
 
 if TYPE_CHECKING:
@@ -1483,7 +1483,6 @@ class CSVDataset(Dataset):
 
     """
 
-    @deprecated_arg(name="filename", new_name="src", since="0.8", msg_suffix="please use `src` instead.")
     def __init__(
         self,
         src: str | Sequence[str] | None = None,  # also can be `DataFrame` or a sequence of `DataFrame`
@@ -1505,9 +1504,6 @@ def __init__(
             else:
                 raise ValueError("`src` must be file path or pandas `DataFrame`.")
 
-        # in case treating deprecated arg `filename` as kwargs, remove it from `kwargs`
-        kwargs.pop("filename", None)
-
         data = convert_tables_to_dicts(
             dfs=dfs, row_indices=row_indices, col_names=col_names, col_types=col_types, col_groups=col_groups, **kwargs
         )