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update changelog and docs for v1.3 #7110

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merged 3 commits into from
Oct 11, 2023
Merged

update changelog and docs for v1.3 #7110

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8aecb6f
update changelog
wyli Oct 11, 2023
7902138
fixes #7112
wyli Oct 11, 2023
da7631c
Merge branch 'dev' into update-changelog
wyli Oct 11, 2023
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10 changes: 9 additions & 1 deletion CHANGELOG.md
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Expand Up @@ -5,7 +5,7 @@ The format is based on [Keep a Changelog](http://keepachangelog.com/en/1.0.0/).

## [Unreleased]

## [1.3.0] - 2023-10-06
## [1.3.0] - 2023-10-12
### Added
* Intensity transforms `ScaleIntensityFixedMean` and `RandScaleIntensityFixedMean` (#6542)
* `UltrasoundConfidenceMapTransform` used for computing confidence map from an ultrasound image (#6709)
Expand Down Expand Up @@ -39,6 +39,7 @@ The format is based on [Keep a Changelog](http://keepachangelog.com/en/1.0.0/).
* Support str type annotation to `device` in `ToTensorD` (#6737)
* Improve logging message and file name extenstion in `DataAnalyzer` for `Auto3DSeg` (#6758)
* Set `data_range` as a property in `SSIMLoss` (#6788)
* Unify environment variable access (#7084)
* `end_lr` support in `WarmupCosineSchedule` (#6662)
* Add `ClearML` as optional dependency (#6827)
* `yandex.disk` support in `download_url` (#6667)
Expand All @@ -52,6 +53,7 @@ The format is based on [Keep a Changelog](http://keepachangelog.com/en/1.0.0/).
* Fix mismatched shape in `Spacing` (#6912)
* Avoid FutureWarning in `CropForeground` (#6934)
* Fix `Lazy=True` ignored when using `Dataset` call (#6975)
* Shape check for arbitrary types for DataStats (#7082)
#### data
* Fix wrong spacing checking logic in `PydicomReader` and broken link in `ITKReader` (#6660)
* Fix boolean indexing of batched `MetaTensor` (#6781)
Expand All @@ -65,6 +67,7 @@ The format is based on [Keep a Changelog](http://keepachangelog.com/en/1.0.0/).
#### metrics and losses
* Fixed bug in `GeneralizedDiceLoss` when `batch=True` (#6775)
* Support for `BCEWithLogitsLoss` in `DiceCELoss` (#6924)
* Support for `weight` in Dice and related losses (#7098)
#### networks
* Use `np.prod` instead of `np.product` (#6639)
* Fix dimension issue in `MBConvBlock` (#6672)
Expand All @@ -87,8 +90,10 @@ The format is based on [Keep a Changelog](http://keepachangelog.com/en/1.0.0/).
* Bundle syntax `#` as alias of `::` (#6955)
* Fix bundle download naming issue (#6969, #6963)
* Simplify the usage of `ckpt_export` (#6965)
* `update_kwargs` in `monai.bundle.script` for merging multiple configs (#7109)
#### engines and handlers
* Added int options for `iteration_log` and `epoch_log` in `TensorBoardStatsHandler` (#7027)
* Support to run validator at training start (#7108)
#### misc.
* Fix device fallback error in `DataAnalyzer` (#6658)
* Add int check for `current_mode` in `convert_applied_interp_mode` (#6719)
Expand All @@ -104,6 +109,8 @@ The format is based on [Keep a Changelog](http://keepachangelog.com/en/1.0.0/).
* Add type check to avoid comparing a np.array with a string in `_check_kwargs_are_present` (#6624)
* Fix md5 hashing with FIPS mode (#6635)
* Capture failures from Auto3DSeg related subprocess calls (#6596)
* Code formatting tool for user-specified directory (#7106)
* Various docstring fixes
### Changed
* Base Docker image upgraded to `nvcr.io/nvidia/pytorch:23.08-py3` from `nvcr.io/nvidia/pytorch:23.03-py3`
### Deprecated
Expand All @@ -112,6 +119,7 @@ The format is based on [Keep a Changelog](http://keepachangelog.com/en/1.0.0/).
* `workflow` in `BundleWorkflow` in favor of `workflow_type`(#6768)
* `pos_embed` in `PatchEmbeddingBlock` in favor of `proj_type`(#6986)
* `net_name` and `net_kwargs` in `download` in favor of `model`(#7016)
* `img_size` parameter in SwinUNETR (#7093)
### Removed
* `pad_val`, `stride`, `per_channel` and `upsampler` in `OcclusionSensitivity` (#6642)
* `compute_meaniou` (#7019)
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3 changes: 2 additions & 1 deletion tests/test_swin_unetr.py
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Expand Up @@ -24,7 +24,7 @@
from monai.networks.nets.swin_unetr import PatchMerging, PatchMergingV2, SwinUNETR, filter_swinunetr
from monai.networks.utils import copy_model_state
from monai.utils import optional_import
from tests.utils import assert_allclose, skip_if_downloading_fails, skip_if_quick, testing_data_config
from tests.utils import assert_allclose, skip_if_downloading_fails, skip_if_no_cuda, skip_if_quick, testing_data_config

einops, has_einops = optional_import("einops")

Expand Down Expand Up @@ -108,6 +108,7 @@ def test_patch_merging(self):

@parameterized.expand(TEST_CASE_FILTER)
@skip_if_quick
@skip_if_no_cuda
def test_filter_swinunetr(self, input_param, key, value):
with skip_if_downloading_fails():
with tempfile.TemporaryDirectory() as tempdir:
Expand Down
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