merge master #305

Nic-Ma · 2021-12-01T02:13:31Z

Fixes # .

Description

A few sentences describing the changes proposed in this pull request.

Status

Ready/Work in progress/Hold

Types of changes

Non-breaking change (fix or new feature that would not break existing functionality).
Breaking change (fix or new feature that would cause existing functionality to change).
New tests added to cover the changes.
Integration tests passed locally by running ./runtests.sh -f -u --net --coverage.
Quick tests passed locally by running ./runtests.sh --quick --unittests.
In-line docstrings updated.
Documentation updated, tested make html command in the docs/ folder.

* ndim -> spatial_dims Signed-off-by: Wenqi Li <wenqil@nvidia.com> * dimensions -> spatial_dims Signed-off-by: Wenqi Li <wenqil@nvidia.com> * deprecated arg with auto replacement Signed-off-by: Wenqi Li

* [DLMED] merge LocalPatchShuffle Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] enhance doc-string Signed-off-by: Nic Ma <nma@nvidia.com>

Signed-off-by: Richard Brown <33289025+rijobro@users.noreply.github.com>

Torch RandRotate

* Add cupy to tensor Signed-off-by: Behrooz <3968947+drbeh@users.noreply.github.com> * Add unittest for cupy>tensor Signed-off-by: Behrooz <3968947+drbeh@users.noreply.github.com>

Signed-off-by: Nic Ma <nma@nvidia.com> Co-authored-by: Wenqi Li <wenqil@nvidia.com>

* [DLMED] enhance the pad mode Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] update all the tensor pad related Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] fix error tests Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] fix GPU tests Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] update according to comments Signed-off-by: Nic Ma <nma@nvidia.com>

Signed-off-by: Wenqi Li <wenqil@nvidia.com>

Signed-off-by: Nic Ma <nma@nvidia.com>

* con1_padding -> conv1_padding Signed-off-by: Wenqi Li <wenqil@nvidia.com> * simpler init. Signed-off-by: Wenqi Li <wenqil@nvidia.com> * fixes 2715 Signed-off-by: Wenqi Li <wenqil@nvidia.com> * adds 3d tests Signed-off-by: Wenqi Li <wenqil@nvidia.com> * fixes flake8 error Signed-off-by: Wenqi Li <wenqil@nvidia.com>

* ThresholdIntensity, ThresholdIntensityd Signed-off-by: Richard Brown <33289025+rijobro@users.noreply.github.com>

* Add dropout arg in DynUNet init Signed-off-by: Andres <diazandr3s@gmail.com>

* [DLMED] add device option Signed-off-by: Nic Ma <nma@nvidia.com> * look up options for types Signed-off-by: Wenqi Li <wenqil@nvidia.com> * adds unit tests Signed-off-by: Wenqi Li <wenqil@nvidia.com> Co-authored-by: Wenqi Li <wenqil@nvidia.com>

…iles, ScaleIntensityRangePercentilesd (#2943) ScaleIntensityRange, ScaleIntensityRanged, ScaleIntensityRangePercentiles, ScaleIntensityRangePercentilesd

Rotate, Rotated, RandRotate, RandRotated

…ndAffined, Rand2dElastic, Rand3dElastic, Rand2dElasticd, Rand3dElasticd (#2922) * AffineGrid, RandAffineGrid, Resample Signed-off-by: Richard Brown <33289025+rijobro@users.noreply.github.com> * Affine, RandAffine, Affined, RandAffined Signed-off-by: Richard Brown <33289025+rijobro@users.noreply.github.com> * deprecate as_tensor_output Signed-off-by: Richard Brown <33289025+rijobro@users.noreply.github.com> * fixes Signed-off-by: Richard Brown <33289025+rijobro@users.noreply.github.com> * remove plotting Signed-off-by: Richard Brown <33289025+rijobro@users.noreply.github.com> * Rand2dElastic, Rand3dElastic, Rand2dElasticd, Rand3dElasticd Signed-off-by: Richard Brown <33289025+rijobro@users.noreply.github.com> * CropForeground Signed-off-by: Richard Brown <33289025+rijobro@users.noreply.github.com> * fix Invertd Signed-off-by: Richard Brown <33289025+rijobro@users.noreply.github.com>

* transforms convert to the necessary type Signed-off-by: Richard Brown <33289025+rijobro@users.noreply.github.com>

* Add dtype to ToCuPy Signed-off-by: Behrooz <3968947+drbeh@users.noreply.github.com> * Add unittests to include dtype Signed-off-by: Behrooz <3968947+drbeh@users.noreply.github.com> * Implement convert_to_cupy Signed-off-by: Behrooz <3968947+drbeh@users.noreply.github.com> * Addressed all comments Signed-off-by: Behrooz <3968947+drbeh@users.noreply.github.com> * Addressed all comments Signed-off-by: Behrooz <3968947+drbeh@users.noreply.github.com> * Add dtype for Sequence Signed-off-by: Behrooz <3968947+drbeh@users.noreply.github.com>

* [DLMED] update according to comments Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] remove unnecessary arg Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] fix style issue Signed-off-by: Nic Ma <nma@nvidia.com>

* [DLMED] enhance type conversion Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] fix CI test Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] add more unit tests Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] fix flake8 Signed-off-by: Nic Ma <nma@nvidia.com>

* fixes tutorial 353 Signed-off-by: Wenqi Li <wenqil@nvidia.com> * adding type tests Signed-off-by: Wenqi Li <wenqil@nvidia.com> * improves type checks Signed-off-by: Wenqi Li <wenqil@nvidia.com> * fixes flake8 Signed-off-by: Wenqi Li <wenqil@nvidia.com> * fixes as channel first Signed-off-by: Wenqi Li <wenqil@nvidia.com> * type test option Signed-off-by: Wenqi Li <wenqil@nvidia.com> * ndarray suuport Signed-off-by: Wenqi Li <wenqil@nvidia.com> * fixes unit tests Signed-off-by: Wenqi Li <wenqil@nvidia.com> update Signed-off-by: Wenqi Li <wenqil@nvidia.com> * bash option for windows test Signed-off-by: Wenqi Li <wenqil@nvidia.com> * fixes unit tests Signed-off-by: Wenqi Li <wenqil@nvidia.com> * enhance norm intensity tests Signed-off-by: Wenqi Li <wenqil@nvidia.com> * fixes merge tests Signed-off-by: Wenqi Li <wenqil@nvidia.com>

Signed-off-by: Nic Ma <nma@nvidia.com>

* add multimodal transformers Signed-off-by: ahatamizadeh <ahatamizadeh@nvidia.com>

…op_centers`, `generate_pos_neg_label_crop_centers`, `generate_label_classes_crop_centers` (#2958) torch map_binary_to_indices, map_classes_to_indices, correct_crop_centers, generate_pos_neg_label_crop_centers, generate_label_classes_crop_centers

* Implement CuCIM wrapper transfrom Signed-off-by: Behrooz <3968947+drbeh@users.noreply.github.com>

Signed-off-by: Richard Brown <33289025+rijobro@users.noreply.github.com>

* Update with cupy.ndarray Signed-off-by: Behrooz <3968947+drbeh@users.noreply.github.com> * Change to use has_cp Signed-off-by: Behrooz <3968947+drbeh@users.noreply.github.com> * Change the format Signed-off-by: Behrooz <3968947+drbeh@users.noreply.github.com> * Fix a bug Signed-off-by: Behrooz <3968947+drbeh@users.noreply.github.com>

* Fix for Jupyter plotting Signed-off-by: Eric Kerfoot <eric.kerfoot@kcl.ac.uk> * Fix for Jupyter plotting Signed-off-by: Eric Kerfoot <eric.kerfoot@kcl.ac.uk> * Fix for Jupyter plotting Signed-off-by: Eric Kerfoot <eric.kerfoot@kcl.ac.uk>

Signed-off-by: myron <amyronenko@nvidia.com>

Signed-off-by: Wenqi Li <wenqil@nvidia.com>

* Adding smooth field transforms Signed-off-by: Eric Kerfoot <eric.kerfoot@kcl.ac.uk> * Adding smooth field transforms Signed-off-by: Eric Kerfoot <eric.kerfoot@kcl.ac.uk> * [pre-commit.ci] auto fixes from pre-commit.com hooks for more information, see https://pre-commit.ci * Adding smooth field transforms Signed-off-by: Eric Kerfoot <eric.kerfoot@kcl.ac.uk> * Adding smooth field transforms Signed-off-by: Eric Kerfoot <eric.kerfoot@kcl.ac.uk> * Updates to smooth field transforms Signed-off-by: Eric Kerfoot <eric.kerfoot@kcl.ac.uk> * Updates to smooth field transforms Signed-off-by: Eric Kerfoot <eric.kerfoot@kcl.ac.uk> * Updates to smooth field transforms Signed-off-by: Eric Kerfoot <eric.kerfoot@kcl.ac.uk> * Updates to smooth field transforms Signed-off-by: Eric Kerfoot <eric.kerfoot@kcl.ac.uk> Co-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com> Co-authored-by: Wenqi Li <wenqil@nvidia.com>

Co-authored-by: dongy <dongy@nvidia.com>

* fixes typos in docstring Signed-off-by: Wenqi Li <wenqil@nvidia.com> * fixes type errors Signed-off-by: Wenqi Li <wenqil@nvidia.com> * fixes the docstrings Signed-off-by: Wenqi Li <wenqil@nvidia.com> * fixes typo Signed-off-by: Wenqi Li <wenqil@nvidia.com>

Signed-off-by: Nic Ma <nma@nvidia.com> Co-authored-by: Wenqi Li <wenqil@nvidia.com>

* option to zip_longest Signed-off-by: Wenqi Li <wenqil@nvidia.com> * adds a pad option Signed-off-by: Wenqi Li <wenqil@nvidia.com> * fixes batch size Signed-off-by: Wenqi Li <wenqil@nvidia.com> * update based on comments Signed-off-by: Wenqi Li <wenqil@nvidia.com>

* Refactor some variable names Signed-off-by: Behrooz <3968947+drbeh@users.noreply.github.com> * Fix SplitOnGrid issue with numpy backend Signed-off-by: Behrooz <3968947+drbeh@users.noreply.github.com> * Add unittest to cover the fixed issue Signed-off-by: Behrooz <3968947+drbeh@users.noreply.github.com> * Rename c_image to n_channels Signed-off-by: Behrooz <3968947+drbeh@users.noreply.github.com>

* [DLMED] fix threshold issue Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] update according to comments Signed-off-by: Nic Ma <nma@nvidia.com>

* Adding repeats option to ThreadDataLoader Signed-off-by: Eric Kerfoot <eric.kerfoot@kcl.ac.uk> * [pre-commit.ci] auto fixes from pre-commit.com hooks for more information, see https://pre-commit.ci * Adding repeats option to ThreadDataLoader Signed-off-by: Eric Kerfoot <eric.kerfoot@kcl.ac.uk> * [MONAI] python code formatting Signed-off-by: monai-bot <monai.miccai2019@gmail.com> * Update thread_buffer.py * [pre-commit.ci] auto fixes from pre-commit.com hooks for more information, see https://pre-commit.ci Signed-off-by: Eric Kerfoot <eric.kerfoot@kcl.ac.uk> Co-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com> Co-authored-by: monai-bot <monai.miccai2019@gmail.com>

Signed-off-by: Wenqi Li <wenqil@nvidia.com>

* [DLMED] fix None value Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] add unit tests Signed-off-by: Nic Ma <nma@nvidia.com>

* add dints model Signed-off-by: dongy <dongy@nvidia.com> * [pre-commit.ci] auto fixes from pre-commit.com hooks for more information, see https://pre-commit.ci * rename scripts Signed-off-by: dongy <dongy@nvidia.com> * [pre-commit.ci] auto fixes from pre-commit.com hooks for more information, see https://pre-commit.ci * rename scripts Signed-off-by: dongy <dongy@nvidia.com> * [pre-commit.ci] auto fixes from pre-commit.com hooks for more information, see https://pre-commit.ci * update scripts Signed-off-by: dongy <dongy@nvidia.com> * [pre-commit.ci] auto fixes from pre-commit.com hooks for more information, see https://pre-commit.ci * update scripts Signed-off-by: dongy <dongy@nvidia.com> * [pre-commit.ci] auto fixes from pre-commit.com hooks for more information, see https://pre-commit.ci * update scripts Signed-off-by: dongy <dongy@nvidia.com> * update scripts Signed-off-by: dongy <dongy@nvidia.com> * [pre-commit.ci] auto fixes from pre-commit.com hooks for more information, see https://pre-commit.ci * update scripts Signed-off-by: dongy <dongy@nvidia.com> * update scripts Signed-off-by: dongy <dongy@nvidia.com> * update scripts Signed-off-by: dongy <dongy@nvidia.com> * update scripts Signed-off-by: dongy <dongy@nvidia.com> * update scripts Signed-off-by: dongy <dongy@nvidia.com> * update scripts Signed-off-by: dongy <dongy@nvidia.com> * update scripts Signed-off-by: dongy <dongy@nvidia.com> * update scripts Signed-off-by: dongy <dongy@nvidia.com> * update scripts Signed-off-by: dongy <dongy@nvidia.com> * update scripts Signed-off-by: dongy <dongy@nvidia.com> * Move stem out of dints * [pre-commit.ci] auto fixes from pre-commit.com hooks for more information, see https://pre-commit.ci * Add test dints cell, mixop and dints bug fix * [pre-commit.ci] auto fixes from pre-commit.com hooks for more information, see https://pre-commit.ci * Change dints.stem * update scripts Signed-off-by: dongy <dongy@nvidia.com> * adds doc; update test_factorized_reduce.py Signed-off-by: Wenqi Li <wenqil@nvidia.com> * update docstring of mixops Signed-off-by: Wenqi Li <wenqil@nvidia.com> * ReLU -> Acti Signed-off-by: Wenqi Li <wenqil@nvidia.com> * update mixops cell Signed-off-by: Wenqi Li <wenqil@nvidia.com> * remove forward() Signed-off-by: Wenqi Li <wenqil@nvidia.com> * update scripts Signed-off-by: dongy <dongy@nvidia.com> * Add dints comments * [pre-commit.ci] auto fixes from pre-commit.com hooks for more information, see https://pre-commit.ci * Add device to dints and fix unit test * [pre-commit.ci] auto fixes from pre-commit.com hooks for more information, see https://pre-commit.ci * fixes typos Signed-off-by: Wenqi Li <wenqil@nvidia.com> * fix docstrings Signed-off-by: Wenqi Li <wenqil@nvidia.com> * fix docstrings Signed-off-by: Wenqi Li <wenqil@nvidia.com> * fixes tests Signed-off-by: Wenqi Li <wenqil@nvidia.com> * update mixop and cell Signed-off-by: Wenqi Li <wenqil@nvidia.com> * update scripts Signed-off-by: dongy <dongy@nvidia.com> * update scripts Signed-off-by: dongy <dongy@nvidia.com> * Add dints comments * [pre-commit.ci] auto fixes from pre-commit.com hooks for more information, see https://pre-commit.ci * Remove arch_codes in forward * [pre-commit.ci] auto fixes from pre-commit.com hooks for more information, see https://pre-commit.ci * Add Dints weight parameter function * [pre-commit.ci] auto fixes from pre-commit.com hooks for more information, see https://pre-commit.ci * update scripts Signed-off-by: dongy <dongy@nvidia.com> * Fix 2D Dints bugs, unit testing, and commenting * [pre-commit.ci] auto fixes from pre-commit.com hooks for more information, see https://pre-commit.ci * dints/dints_blocks updates Signed-off-by: Wenqi Li <wenqil@nvidia.com> * [pre-commit.ci] auto fixes from pre-commit.com hooks for more information, see https://pre-commit.ci * update ram cost Signed-off-by: Wenqi Li <wenqil@nvidia.com> * update scripts Signed-off-by: dongy <dongy@nvidia.com> * [pre-commit.ci] auto fixes from pre-commit.com hooks for more information, see https://pre-commit.ci * update scripts Signed-off-by: dongy <dongy@nvidia.com> * [DLMED] add TorchScript Signed-off-by: Nic Ma <nma@nvidia.com> * Fix dints bug, add comments, torchscript support * [pre-commit.ci] auto fixes from pre-commit.com hooks for more information, see https://pre-commit.ci * update scripts Signed-off-by: dongy <dongy@nvidia.com> * update scripts Signed-off-by: dongy <dongy@nvidia.com> * update scripts Signed-off-by: dongy <dongy@nvidia.com> * update docstrings; remoted `is_search` Signed-off-by: Wenqi Li <wenqil@nvidia.com> * torchscript dints inference Signed-off-by: Wenqi Li <wenqil@nvidia.com> * test fixes Signed-off-by: Wenqi Li <wenqil@nvidia.com> * fixes gpu tests Signed-off-by: Wenqi Li <wenqil@nvidia.com> * fixes dints cell tests Signed-off-by: Wenqi Li <wenqil@nvidia.com> * skip for previous torch versions Signed-off-by: Wenqi Li <wenqil@nvidia.com> * inplace grads Signed-off-by: Wenqi Li <wenqil@nvidia.com> * remove warning msg Signed-off-by: Wenqi Li <wenqil@nvidia.com> Co-authored-by: dongy <dongy@nvidia.com> Co-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com> Co-authored-by: Yufan He <heyufan1995@gmail.com> Co-authored-by: Wenqi Li <wenqil@nvidia.com> Co-authored-by: Nic Ma <nma@nvidia.com>

* [DLMED] add frame_dim Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] fix CI test Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] remove doc-string of args "currently not used" Signed-off-by: Nic Ma <nma@nvidia.com>

* whats new in 0.8 Signed-off-by: Wenqi Li <wenqil@nvidia.com> * updated based on comments Signed-off-by: Wenqi Li <wenqil@nvidia.com> * [pre-commit.ci] auto fixes from pre-commit.com hooks for more information, see https://pre-commit.ci Co-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com> Co-authored-by: Nic Ma <nma@nvidia.com>

* update changelog for v0.8.0 Signed-off-by: Wenqi Li <wenqil@nvidia.com> * update based on comments Signed-off-by: Wenqi Li <wenqil@nvidia.com> Co-authored-by: Nic Ma <nma@nvidia.com>

* [DLMED] update highlights for v0.8 Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] add tutorial link Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] add MLFlow related Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] update description and charts Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] update chart name Signed-off-by: Nic Ma <nma@nvidia.com> * update docs Signed-off-by: Wenqi Li <wenqil@nvidia.com> * update dints link Signed-off-by: Wenqi Li <wenqil@nvidia.com> * update highlights Signed-off-by: Wenqi Li <wenqil@nvidia.com> Co-authored-by: Wenqi Li <wenqil@nvidia.com>

Signed-off-by: Nic Ma <nma@nvidia.com>

* fixes typos Signed-off-by: Wenqi Li <wenqil@nvidia.com> * fixes typos Signed-off-by: Wenqi Li <wenqil@nvidia.com> * update based on comments Signed-off-by: Wenqi Li <wenqil@nvidia.com>

* fixes crop types Signed-off-by: Wenqi Li <wenqil@nvidia.com> * fixes dtypes Signed-off-by: Wenqi Li <wenqil@nvidia.com>

Signed-off-by: Wenqi Li <wenqil@nvidia.com>

* [DLMED] enhance doc Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] update based on Yiheng's comments Signed-off-by: Nic Ma <nma@nvidia.com>

Signed-off-by: Wenqi Li <wenqil@nvidia.com>

* [DLMED] add channel dim Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] add RGB support Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] update according to comments Signed-off-by: Nic Ma <nma@nvidia.com>

* [DLMED] add support for other pickle Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] fix flake8 Signed-off-by: Nic Ma <nma@nvidia.com> * [MONAI] python code formatting Signed-off-by: monai-bot <monai.miccai2019@gmail.com> * [DLMED] fix flake8 Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] fix flake8 Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] test flake8 Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] test flake8 Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] fix flake8 Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] update according to comments Signed-off-by: Nic Ma <nma@nvidia.com> Co-authored-by: monai-bot <monai.miccai2019@gmail.com>

* fixes pickle mod Signed-off-by: Wenqi Li <wenqil@nvidia.com> * update pickle Signed-off-by: Wenqi Li <wenqil@nvidia.com> * docstring Signed-off-by: Wenqi Li <wenqil@nvidia.com>

Signed-off-by: Nic Ma <nma@nvidia.com>

wyli and others added 30 commits September 8, 2021 12:38

2901 ndim -> spatial_dims (#2903)

7cfc8ea

* ndim -> spatial_dims Signed-off-by: Wenqi Li <wenqil@nvidia.com> * dimensions -> spatial_dims Signed-off-by: Wenqi Li <wenqil@nvidia.com> * deprecated arg with auto replacement Signed-off-by: Wenqi Li

2898 Merge LocalPatchShuffle with RandCoarseDropout (#2907)

7f3050a

* [DLMED] merge LocalPatchShuffle Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] enhance doc-string Signed-off-by: Nic Ma <nma@nvidia.com>

Torch Zoom (#2916)

e52a0fe

Signed-off-by: Richard Brown <33289025+rijobro@users.noreply.github.com>

Torch RandRotate90 (#2915)

281c17e

Torch RandRotate

CuPy to Tensor (#2919)

ef09811

* Add cupy to tensor Signed-off-by: Behrooz <3968947+drbeh@users.noreply.github.com> * Add unittest for cupy>tensor Signed-off-by: Behrooz <3968947+drbeh@users.noreply.github.com>

[DLMED] add dict version shuffle (#2918)

e2965db

Signed-off-by: Nic Ma <nma@nvidia.com> Co-authored-by: Wenqi Li <wenqil@nvidia.com>

Add device to ToTensor (#2926)

448cdca

fixes #2939 (#2940)

1c2608f

Signed-off-by: Wenqi Li <wenqil@nvidia.com>

enhance docstring (#2938)

76dc5c2

Signed-off-by: Wenqi Li <wenqil@nvidia.com>

[DLMED] enhance scale intensity transforms (#2941)

8651b62

Signed-off-by: Nic Ma <nma@nvidia.com>

ThresholdIntensity, ThresholdIntensityd (#2944)

8765fc7

* ThresholdIntensity, ThresholdIntensityd Signed-off-by: Richard Brown <33289025+rijobro@users.noreply.github.com>

Add dropout arg in DynUNet init (#2947)

01feacb

* Add dropout arg in DynUNet init Signed-off-by: Andres <diazandr3s@gmail.com>

ScaleIntensityRange, ScaleIntensityRanged, ScaleIntensityRangePercent…

f26a712

…iles, ScaleIntensityRangePercentilesd (#2943) ScaleIntensityRange, ScaleIntensityRanged, ScaleIntensityRangePercentiles, ScaleIntensityRangePercentilesd

Rotate, Rotated, RandRotate, RandRotated (#2945)

f77a799

Rotate, Rotated, RandRotate, RandRotated

All transforms support torch and numpy (#2949)

7c45d01

* transforms convert to the necessary type Signed-off-by: Richard Brown <33289025+rijobro@users.noreply.github.com>

2948 Enhance the transform to delete items (#2952)

c624ffc

* [DLMED] update according to comments Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] remove unnecessary arg Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] fix style issue Signed-off-by: Nic Ma <nma@nvidia.com>

[DLMED] fix float64 bug (#2961)

fb2c2e9

Signed-off-by: Nic Ma <nma@nvidia.com>

add multi-modal (vision + language) transformers (#2962)

3b6f479

* add multimodal transformers Signed-off-by: ahatamizadeh <ahatamizadeh@nvidia.com>

cuCIM Transform (#2932)

38403ed

* Implement CuCIM wrapper transfrom Signed-off-by: Behrooz <3968947+drbeh@users.noreply.github.com>

torch SpatialCrop, SpatialCropd (#2963)

0c39281

Signed-off-by: Richard Brown <33289025+rijobro@users.noreply.github.com>

Fix for Jupyter plotting (#2964)

46e594f

* Fix for Jupyter plotting Signed-off-by: Eric Kerfoot <eric.kerfoot@kcl.ac.uk> * Fix for Jupyter plotting Signed-off-by: Eric Kerfoot <eric.kerfoot@kcl.ac.uk> * Fix for Jupyter plotting Signed-off-by: Eric Kerfoot <eric.kerfoot@kcl.ac.uk>

myron and others added 29 commits November 19, 2021 12:19

unit tests for step (#3361)

9048166

Signed-off-by: myron <amyronenko@nvidia.com>

backward compatible as discrete (#3367)

e36fbd3

Signed-off-by: Wenqi Li <wenqil@nvidia.com>

adds dints blocks (#3372)

73d9afa

Co-authored-by: dongy <dongy@nvidia.com>

[DLMED] add frame_dim (#3369)

d0e72fb

Signed-off-by: Nic Ma <nma@nvidia.com> Co-authored-by: Wenqi Li <wenqil@nvidia.com>

Numpy Implementation of SplitOnGrid (#3378)

5adf30b

TileOnGrid support for Tensor input (#3384)

5d87b23

3387 fix threshold value issue in AsDiscrete (#3388)

9cc339d

* [DLMED] fix threshold issue Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] update according to comments Signed-off-by: Nic Ma <nma@nvidia.com>

fixes readme links (#3380)

839f7ef

Signed-off-by: Wenqi Li <wenqil@nvidia.com>

3387 Fix 0.0 or None value in AsDiscrete (#3393)

721f6f7

* [DLMED] fix None value Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] add unit tests Signed-off-by: Nic Ma <nma@nvidia.com>

3368 add frame_dim to TensorBoard plot utility (#3385)

a640dde

* [DLMED] add frame_dim Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] fix CI test Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] remove doc-string of args "currently not used" Signed-off-by: Nic Ma <nma@nvidia.com>

update changelog for v0.8.0 (#3382)

d4c1bbe

* update changelog for v0.8.0 Signed-off-by: Wenqi Li <wenqil@nvidia.com> * update based on comments Signed-off-by: Wenqi Li <wenqil@nvidia.com> Co-authored-by: Nic Ma <nma@nvidia.com>

[DLMED] postpone remove version (#3399)

dca8b1c

Signed-off-by: Nic Ma <nma@nvidia.com>

fixes typos/style in dints.py (#3395)

d625b61

* fixes typos Signed-off-by: Wenqi Li <wenqil@nvidia.com> * fixes typos Signed-off-by: Wenqi Li <wenqil@nvidia.com> * update based on comments Signed-off-by: Wenqi Li <wenqil@nvidia.com>

3404 fixes crop types (#3403)

714d00d

* fixes crop types Signed-off-by: Wenqi Li <wenqil@nvidia.com> * fixes dtypes Signed-off-by: Wenqi Li <wenqil@nvidia.com>

update weekly build prefix (#3406)

1763381

Signed-off-by: Wenqi Li <wenqil@nvidia.com>

3405 Enhance doc-string of MIL model for data shape (#3407)

4a3db69

* [DLMED] enhance doc Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] update based on Yiheng's comments Signed-off-by: Nic Ma <nma@nvidia.com>

fixes docstring ref. (#3408)

7d4386f

Signed-off-by: Wenqi Li <wenqil@nvidia.com>

3398 Support 3D RGB image in matshow3d (#3400)

8a1454a

* [DLMED] add channel dim Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] add RGB support Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] update according to comments Signed-off-by: Nic Ma <nma@nvidia.com>

fixes pickle mod (#3416)

071264d

* fixes pickle mod Signed-off-by: Wenqi Li <wenqil@nvidia.com> * update pickle Signed-off-by: Wenqi Li <wenqil@nvidia.com> * docstring Signed-off-by: Wenqi Li <wenqil@nvidia.com>

[DLMED] add args and update default (#3418)

ff9bbfa

Signed-off-by: Nic Ma <nma@nvidia.com>

Nic-Ma merged commit 7b6cdaf into Nic-Ma:3392-enhance-metrics-nans Dec 1, 2021

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merge master #305

merge master #305

Nic-Ma commented Dec 1, 2021

merge master #305

merge master #305

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Nic-Ma commented Dec 1, 2021

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