merge master by Nic-Ma · Pull Request #178 · Nic-Ma/MONAI

Nic-Ma · 2021-07-15T23:47:32Z

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 --codeformat --coverage.
Quick tests passed locally by running ./runtests.sh --quick.
In-line docstrings updated.
Documentation updated, tested make html command in the docs/ folder.

@jhlegarreta

Based on the ITK welcome: https://github.com/InsightSoftwareConsortium/ITK/blob/master/CONTRIBUTING.md by @jhlegarreta

Signed-off-by: Behrooz <3968947+behxyz@users.noreply.github.com>

* [DLMED] add divisible K Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] fix flake8 issue Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] fix typo Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] update according to comments Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] fix CI tests Signed-off-by: Nic Ma <nma@nvidia.com>

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

* enhance persistent temp Signed-off-by: Wenqi Li <wenqil@nvidia.com> * fixes windows file rename issue Signed-off-by: Wenqi Li <wenqil@nvidia.com> * enhance multiprocess LMDB Signed-off-by: Wenqi Li <wenqil@nvidia.com> * remove usued vars Signed-off-by: Wenqi Li <wenqil@nvidia.com> * fixes LGTM errors Signed-off-by: Wenqi Li <wenqil@nvidia.com> * remove comparison-with-callable (W0143) Signed-off-by: Wenqi Li <wenqil@nvidia.com> * fixes pylint W0231 Signed-off-by: Wenqi Li <wenqil@nvidia.com> * fixes PYL-R1705 Signed-off-by: Wenqi Li <wenqil@nvidia.com> * fixes PYL-R1720 Signed-off-by: Wenqi Li <wenqil@nvidia.com> * fixes PTC-W0060 Signed-off-by: Wenqi Li <wenqil@nvidia.com> * fixes PYL-W0105 Signed-off-by: Wenqi Li <wenqil@nvidia.com> * fixes PTC-W0016 Signed-off-by: Wenqi Li <wenqil@nvidia.com>

* update box_start/end for deepgrow Signed-off-by: Richard Brown <33289025+rijobro@users.noreply.github.com> * add test Signed-off-by: Richard Brown <33289025+rijobro@users.noreply.github.com>

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

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

* [DLMED] fix classification issue Signed-off-by: Nic Ma <nma@nvidia.com>

* [DLMED] add detach for Tensor Signed-off-by: Nic Ma <nma@nvidia.com> * fixes test Signed-off-by: Wenqi Li <wenqil@nvidia.com> Co-authored-by: Wenqi Li <wenqil@nvidia.com>

* adding error messaging for unsupported tensor shapes Signed-off-by: chaliebudd <charles.budd@kcl.ac.uk> * [MONAI] python code formatting Signed-off-by: monai-bot <monai.miccai2019@gmail.com>

* [DLMED] Enhance unit test and doc-string Signed-off-by: Nic Ma <nma@nvidia.com> * [MONAI] python code formatting Signed-off-by: monai-bot <monai.miccai2019@gmail.com> * [DLMED] enhance unit test Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] fix CI test issue Signed-off-by: Nic Ma <nma@nvidia.com> Co-authored-by: monai-bot <monai.miccai2019@gmail.com>

* [DLMED] fix shallow copy issue Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] add patch_index to RandWeightedCrop Signed-off-by: Nic Ma <nma@nvidia.com>

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

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

* update readme Signed-off-by: Wenqi Li <wenqil@nvidia.com> * update index Signed-off-by: Wenqi Li <wenqil@nvidia.com> * relative links Signed-off-by: Wenqi Li <wenqil@nvidia.com> Co-authored-by: Eric Kerfoot <17726042+ericspod@users.noreply.github.com>

* Added RicianNoise transform Signed-off-by: Lyndon Boone <lyndonboone8@gmail.com> * Use ensure_tuple_rep in channel-wise RandRicianNoise transform Signed-off-by: Lyndon Boone <lyndonboone8@gmail.com> * Added RandRicianNoised transform Signed-off-by: Lyndon Boone <lyndonboone8@gmail.com> * Autofixed coding style errors Signed-off-by: Lyndon Boone <lyndonboone8@gmail.com> * Added paper reference for RandRicianNoise in docstring Signed-off-by: Lyndon Boone <lyndonboone8@gmail.com> * Added unit test for RandRicianNoise transform Signed-off-by: Lyndon Boone <lyndonboone8@gmail.com> * Added unit test for RandRicianNoised transform Signed-off-by: Lyndon Boone <lyndonboone8@gmail.com> * Fixed mypy typing issues Signed-off-by: Lyndon Boone <lyndonboone8@gmail.com>

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

Signed-off-by: Jeff VanOss <vanossj@gmail.com>

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

* adds tests Signed-off-by: Wenqi Li <wenqil@nvidia.com> * temp tests Signed-off-by: Wenqi Li <wenqil@nvidia.com> * temp tests Signed-off-by: Wenqi Li <wenqil@nvidia.com> * torch Signed-off-by: Wenqi Li <wenqil@nvidia.com> * Revert "temp tests" This reverts commit 6a2e7a2. Signed-off-by: Wenqi Li <wenqil@nvidia.com> * Revert "temp tests" This reverts commit 9fc84df. Signed-off-by: Wenqi Li <wenqil@nvidia.com> Co-authored-by: Eric Kerfoot <17726042+ericspod@users.noreply.github.com>

* create meta data key if necessary Signed-off-by: Richard Brown <33289025+rijobro@users.noreply.github.com> * add orientationd too Signed-off-by: Richard Brown <33289025+rijobro@users.noreply.github.com>

* update build option Signed-off-by: Wenqi Li <wenqil@nvidia.com> * temp test Signed-off-by: Wenqi Li <wenqil@nvidia.com> * Revert "temp test" This reverts commit f22cdeb. Signed-off-by: Wenqi Li <wenqil@nvidia.com>

Signed-off-by: masadcv <muhammad.asad@kcl.ac.uk>

* fixes subprocess transforms Signed-off-by: Wenqi Li <wenqil@nvidia.com> * update based on comments Signed-off-by: Wenqi Li <wenqil@nvidia.com> * add SelectItemsd alias Signed-off-by: Wenqi Li <wenqil@nvidia.com>

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

* Temporarily changing crf test to allow some errors Signed-off-by: chaliebudd <charles.budd@kcl.ac.uk> * changing to unittest assert Signed-off-by: chaliebudd <charles.budd@kcl.ac.uk> Co-authored-by: Wenqi Li <wenqil@nvidia.com>

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

* Implement ToCupy Signed-off-by: Behrooz <3968947+behxyz@users.noreply.github.com> * Add unittests for ToCupy and ToCupyd Signed-off-by: Behrooz <3968947+behxyz@users.noreply.github.com> * Add docs Signed-off-by: Behrooz <3968947+behxyz@users.noreply.github.com> * Reformat Signed-off-by: Behrooz <3968947+behxyz@users.noreply.github.com> * Add CuPy to NumPy Signed-off-by: Behrooz <3968947+behxyz@users.noreply.github.com> * Add unittests for ToNumpy and ToNumpyd for CuPy input Signed-off-by: Behrooz <3968947+behxyz@users.noreply.github.com> * Add has_cp Signed-off-by: Behrooz <3968947+behxyz@users.noreply.github.com>

* Transposed Signed-off-by: Richard Brown <33289025+rijobro@users.noreply.github.com> * convert numpy array to list Signed-off-by: Richard Brown <33289025+rijobro@users.noreply.github.com>

* update focalloss to use sigmoid Signed-off-by: Wenqi Li <wenqil@nvidia.com> * temp tests Signed-off-by: Wenqi Li <wenqil@nvidia.com> * fixes tests Signed-off-by: Wenqi Li <wenqil@nvidia.com>

* [DLMED] add decollate logic to DeepGrow Signed-off-by: Nic Ma <nma@nvidia.com> * [MONAI] python code formatting Signed-off-by: monai-bot <monai.miccai2019@gmail.com> * [DLMED] fix flake8 issue Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] add AddRandomGuidanced to test Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] update network Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] fix typo Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] fix issue in addsignal Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] fix guidance issue Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] fix flake8 Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] fix mypy and docs Signed-off-by: Nic Ma <nma@nvidia.com> Co-authored-by: monai-bot <monai.miccai2019@gmail.com>

* Deepgrow - Fix probability scalar value during collate Signed-off-by: Sachidanand Alle <salle@nvidia.com> * Fix CI checks Signed-off-by: Sachidanand Alle <salle@nvidia.com> Co-authored-by: Sachidanand Alle <salle@nvidia.com>

* [DLMED] Add EnsureTensor transform Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] add unit tests Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] Enhance doc-string Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] update according to comments Signed-off-by: Nic Ma <nma@nvidia.com> * [MONAI] python code formatting Signed-off-by: monai-bot <monai.miccai2019@gmail.com> * [DLMED] fix flake8 issue Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] restore deprecated Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] update according to comments 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>

* [DLMED] update highlight titles Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] add more content to highlight features Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] Add other frameworks Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] enhance distributed document Signed-off-by: Nic Ma <nma@nvidia.com> * update highlights Signed-off-by: Wenqi Li <wenqil@nvidia.com> * adds jit descriptions Signed-off-by: Wenqi Li <wenqil@nvidia.com> * adds gmm figure Signed-off-by: Wenqi Li <wenqil@nvidia.com> * add mmar transfer learning figure Signed-off-by: Wenqi Li <wenqil@nvidia.com> * fix typos Signed-off-by: Wenqi Li <wenqil@nvidia.com> * [DLMED] add decollate batch section Signed-off-by: Nic Ma <nma@nvidia.com> * fixes typos Signed-off-by: Wenqi Li <wenqil@nvidia.com> * update docs Signed-off-by: Wenqi Li <wenqil@nvidia.com> Co-authored-by: Wenqi Li <wenqil@nvidia.com>

* add use_deterministic_algorithms flag Signed-off-by: Wenqi Li <wenqil@nvidia.com> * fixes typing Signed-off-by: Wenqi Li <wenqil@nvidia.com>

* [DLMED] fix ToNumpy 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>

* [DLMED] enhance for scalar tensor Signed-off-by: Nic Ma <nma@nvidia.com> * [MONAI] python code formatting Signed-off-by: monai-bot <monai.miccai2019@gmail.com> * [DLMED] remove redundant logic Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] add doc-string for img Signed-off-by: Nic Ma <nma@nvidia.com> Co-authored-by: monai-bot <monai.miccai2019@gmail.com>

* [DLMED] fix tests for PyTorch 1.5 Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] simplify the tests Signed-off-by: Nic Ma <nma@nvidia.com>

* update lmdbdataset Signed-off-by: Wenqi Li <wenqil@nvidia.com> * update tests Signed-off-by: Wenqi Li <wenqil@nvidia.com> * docstring and less verbose progressbar Signed-off-by: Wenqi Li <wenqil@nvidia.com> * docstring Signed-off-by: Wenqi Li <wenqil@nvidia.com> * update based on comments Signed-off-by: Wenqi Li <wenqil@nvidia.com>

* adds a release note for 0.6.0 Signed-off-by: Wenqi Li <wenqil@nvidia.com> * update based on comments Signed-off-by: Wenqi Li <wenqil@nvidia.com> * update Signed-off-by: Wenqi Li <wenqil@nvidia.com>

Signed-off-by: Mohammad Adil <madil@nvidia.com>

* adds whats new 0.6 Signed-off-by: Wenqi Li <wenqil@nvidia.com> * update docs Signed-off-by: Wenqi Li <wenqil@nvidia.com> * add a list Signed-off-by: Wenqi Li <wenqil@nvidia.com> * update according to comments Signed-off-by: Wenqi Li <wenqil@nvidia.com> * fixes typos Signed-off-by: Wenqi Li <wenqil@nvidia.com> * Revert "update lmdbdataset (#2531)" This reverts commit a980ae4. Signed-off-by: Wenqi Li <wenqil@nvidia.com>

* update weekly dev version Signed-off-by: Wenqi Li <wenqil@nvidia.com>

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

* add WarmupCosineSchedule,unetr docstring Signed-off-by: ahatamizadeh <ahatamizadeh@nvidia.com> * add WarmupCosineSchedule,enhance unetr docstring Signed-off-by: ahatamizadeh <ahatamizadeh@nvidia.com>

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

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

* [DLMED] enhance decollate arg of workflows Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] update according to comments Signed-off-by: Nic Ma <nma@nvidia.com>

* [DLMED] add wiki link Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] fix typo Signed-off-by: Nic Ma <nma@nvidia.com>

* [DLMED] add map_classes_to_indices Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] add tests for empty classes Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] add all the transforms Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] fix typo Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] add tests for ClassesToIndices transforms Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] add unit tests and documents Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] fix flake8 and add inverse tests Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] update according to comments Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] optimize random choice Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] add check for num_samples Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] add default value to ratios Signed-off-by: Nic Ma <nma@nvidia.com>

* update lmdbdataset (#2531) * update lmdbdataset Signed-off-by: Wenqi Li <wenqil@nvidia.com> * update tests Signed-off-by: Wenqi Li <wenqil@nvidia.com> * docstring and less verbose progressbar Signed-off-by: Wenqi Li <wenqil@nvidia.com> * docstring Signed-off-by: Wenqi Li <wenqil@nvidia.com> * update based on comments Signed-off-by: Wenqi Li <wenqil@nvidia.com> * fixes lmdb integration tests Signed-off-by: Wenqi Li <wenqil@nvidia.com> * add docstring Signed-off-by: Wenqi Li <wenqil@nvidia.com>

* [DLMED] add DecollateBatch handler Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] add unit tests Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] enhance doc-string Signed-off-by: Nic Ma <nma@nvidia.com> * [MONAI] python code formatting Signed-off-by: monai-bot <monai.miccai2019@gmail.com> * [DLMED] skip in min tests Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] update according to comments Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] fix flake8 Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] remove rep_scalar option Signed-off-by: Nic Ma <nma@nvidia.com> Co-authored-by: monai-bot <monai.miccai2019@gmail.com>

* [DLMED] enhance pad method 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>

* [DLMED] add set_to_none arg Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] update according to comments Signed-off-by: Nic Ma <nma@nvidia.com>

* add UNETR to 'what's new in 0.6.0' page Signed-off-by: ahatamizadeh <ahatamizadeh@nvidia.com> * add UNETR to 'what's new in 0.6.0' page Signed-off-by: ahatamizadeh <ahatamizadeh@nvidia.com>

thewtex and others added 30 commits April 22, 2021 19:47

Start with a welcoming statement in the contributing docs (#2072)

e0035b1

Based on the ITK welcome: https://github.com/InsightSoftwareConsortium/ITK/blob/master/CONTRIBUTING.md by @jhlegarreta

Remove transpose from the tissue masks (#2074)

fea9307

Signed-off-by: Behrooz <3968947+behxyz@users.noreply.github.com>

RandTorchVisionD update (#2076)

f45108b

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

update box_start/end for deepgrow (#2088)

dde1100

* update box_start/end for deepgrow Signed-off-by: Richard Brown <33289025+rijobro@users.noreply.github.com> * add test Signed-off-by: Richard Brown <33289025+rijobro@users.noreply.github.com>

2092 Enhance NIfTI writer logging (#2093)

8f2856d

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

[DLMED] add flag (#2094)

5eb9198

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

2095 fix multi-gpu issue in ClassificationSaver (#2096)

9e1a7d4

* [DLMED] fix classification issue Signed-off-by: Nic Ma <nma@nvidia.com>

Add detach to the tensors in handlers (#2100)

feb3a33

* [DLMED] add detach for Tensor Signed-off-by: Nic Ma <nma@nvidia.com> * fixes test Signed-off-by: Wenqi Li <wenqil@nvidia.com> Co-authored-by: Wenqi Li <wenqil@nvidia.com>

Adding error messaging for unsupported tensor shapes (#2089)

1f2247e

* adding error messaging for unsupported tensor shapes Signed-off-by: chaliebudd <charles.budd@kcl.ac.uk> * [MONAI] python code formatting Signed-off-by: monai-bot <monai.miccai2019@gmail.com>

2103 Add deepcopy to PosNegCrop transform (#2104)

12f267c

* [DLMED] fix shallow copy issue Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] add patch_index to RandWeightedCrop Signed-off-by: Nic Ma <nma@nvidia.com>

only pip install cucim if on linux (#2106)

304d1a8

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

re-enable dev branch tests (#2107)

8bb08a8

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

[DLMED] improve doc-string of partition_dataset (#2109)

299f2c2

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

fix SegResNetVAE docstring to match args (#2113)

06fd8fe

Signed-off-by: Jeff VanOss <vanossj@gmail.com>

2111 - adds a map_items option to compose (#2112)

198cd2f

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

create meta data key if necessary (#2119)

d93df0e

* create meta data key if necessary Signed-off-by: Richard Brown <33289025+rijobro@users.noreply.github.com> * add orientationd too Signed-off-by: Richard Brown <33289025+rijobro@users.noreply.github.com>

2118 speed up quick test (#2120)

fd9081b

* update build option Signed-off-by: Wenqi Li <wenqil@nvidia.com> * temp test Signed-off-by: Wenqi Li <wenqil@nvidia.com> * Revert "temp test" This reverts commit f22cdeb. Signed-off-by: Wenqi Li <wenqil@nvidia.com>

efficientnet mypy fix BlockArgs class and unittest (#2126)

2db93d8

Signed-off-by: masadcv <muhammad.asad@kcl.ac.uk>

2122 - fixes subprocess transforms (#2128)

45c6cf6

* fixes subprocess transforms Signed-off-by: Wenqi Li <wenqil@nvidia.com> * update based on comments Signed-off-by: Wenqi Li <wenqil@nvidia.com> * add SelectItemsd alias Signed-off-by: Wenqi Li <wenqil@nvidia.com>

remove requirements workaround (#2134)

e6b7787

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

remove default cache_dir None (#2137)

3affd03

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

Transposed (#2144)

41e62e5

* Transposed Signed-off-by: Richard Brown <33289025+rijobro@users.noreply.github.com> * convert numpy array to list Signed-off-by: Richard Brown <33289025+rijobro@users.noreply.github.com>

wyli and others added 29 commits July 7, 2021 01:08

2509 update focalloss to use sigmoid (7/July) (#2513)

17dde67

* update focalloss to use sigmoid Signed-off-by: Wenqi Li <wenqil@nvidia.com> * temp tests Signed-off-by: Wenqi Li <wenqil@nvidia.com> * fixes tests Signed-off-by: Wenqi Li <wenqil@nvidia.com>

2542 add use_deterministic_algorithms flag (#2543)

df76a20

* add use_deterministic_algorithms flag Signed-off-by: Wenqi Li <wenqil@nvidia.com> * fixes typing Signed-off-by: Wenqi Li <wenqil@nvidia.com>

2552 Fix ToNumpy issue with 0-dim data (#2553)

4ece449

* [DLMED] fix ToNumpy 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>

2556 Fix EnsureType test error in PyTorch 1.5.1 (#2558)

66bc397

* [DLMED] fix tests for PyTorch 1.5 Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] simplify the tests Signed-off-by: Nic Ma <nma@nvidia.com>

2488 adds a release note for 0.6.0 (#2520)

342b424

* adds a release note for 0.6.0 Signed-off-by: Wenqi Li <wenqil@nvidia.com> * update based on comments Signed-off-by: Wenqi Li <wenqil@nvidia.com> * update Signed-off-by: Wenqi Li <wenqil@nvidia.com>

Remove concurrency limit from blossom CI (#2559)

9a83660

Signed-off-by: Mohammad Adil <madil@nvidia.com>

update weekly dev version (#2561)

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* update weekly dev version Signed-off-by: Wenqi Li <wenqil@nvidia.com>

[DLMED] fix wrong link in README (#2564)

cad300a

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

[DLMED] add return to SaveImage (#2568)

3edff74

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

add WarmupCosineSchedule, UNETR & ViT Docstrings (#2545)

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* add WarmupCosineSchedule,unetr docstring Signed-off-by: ahatamizadeh <ahatamizadeh@nvidia.com> * add WarmupCosineSchedule,enhance unetr docstring Signed-off-by: ahatamizadeh <ahatamizadeh@nvidia.com>

update highlights (#2579)

f420d99

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

2562 Add support to not save data in a separate folder (#2576)

daf2c4f

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

2571 enhance decollate arg of workflows (#2577)

9818467

* [DLMED] enhance decollate arg of workflows Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] update according to comments Signed-off-by: Nic Ma <nma@nvidia.com>

2571 add wiki link to the release note (#2585)

cbc8941

* [DLMED] add wiki link Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] fix typo Signed-off-by: Nic Ma <nma@nvidia.com>

2590 Add more pad args in ResizeWithPadOrCrop transform (#2594)

ada5502

* [DLMED] enhance pad method Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] update according to comments Signed-off-by: Nic Ma <nma@nvidia.com>

Fixes typos (#2591)

6e02506

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

[DLMED] enhance all the SpatialPad related (#2597)

813368b

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

2595 Add support for the set_to_none arg in optimizer (#2596)

66b226b

* [DLMED] add set_to_none arg Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] update according to comments Signed-off-by: Nic Ma <nma@nvidia.com>

add UNETR to 'what's new in 0.6.0' page (#2603)

af0d51b

* add UNETR to 'what's new in 0.6.0' page Signed-off-by: ahatamizadeh <ahatamizadeh@nvidia.com> * add UNETR to 'what's new in 0.6.0' page Signed-off-by: ahatamizadeh <ahatamizadeh@nvidia.com>

Nic-Ma merged commit 168d586 into Nic-Ma:2612-enhance-doc-losses Jul 16, 2021

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merge master#178

merge master#178
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Nic-Ma commented Jul 15, 2021

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