merge master #397

Nic-Ma · 2022-04-04T12:01:23Z

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.

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

* [DLMED] add dataset generator Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] add DatasetGenerator 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 wrong test Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] simplify according to comments Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] remove return Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] update rtol for CI Signed-off-by: Nic Ma <nma@nvidia.com> Co-authored-by: monai-bot <monai.miccai2019@gmail.com>

* [DLMED] add missing docs Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] add missing components Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] fix test Signed-off-by: Nic Ma <nma@nvidia.com>

* [DLMED] add channel-wise Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] update according to comments Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] fix typo Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] skip test if before 1.7 Signed-off-by: Nic Ma <nma@nvidia.com> * [MONAI] python code formatting Signed-off-by: monai-bot <monai.miccai2019@gmail.com> Co-authored-by: monai-bot <monai.miccai2019@gmail.com>

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

* [DLMED] add Iteration base class 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>

Signed-off-by: Yiheng Wang <vennw@nvidia.com>

* [DLMED] support string dtype Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] fix typo Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] enhance dtype in ToCupy Signed-off-by: Nic Ma <nma@nvidia.com>

* [DLMED] add Iteration base class 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>

Signed-off-by: Yiheng Wang <vennw@nvidia.com>

* [DLMED] support string dtype Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] fix typo Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] enhance dtype in ToCupy Signed-off-by: Nic Ma <nma@nvidia.com>

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

* Update to not include number for the name of the first range Signed-off-by: Behrooz <3968947+drbeh@users.noreply.github.com> * Update CuCIM and TorchVision wrappers to include name Signed-off-by: Behrooz <3968947+drbeh@users.noreply.github.com> * Update nvtx range to append undelying class for wrapper tranforms Signed-off-by: Behrooz <3968947+drbeh@users.noreply.github.com> * Add new test cases to cover changes Signed-off-by: Behrooz <3968947+drbeh@users.noreply.github.com> * Update cucim and torchvision check Signed-off-by: Behrooz <3968947+drbeh@users.noreply.github.com>

* [DLMED] add missing images Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] fix 3471 Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] fix AsDiscrete Signed-off-by: Nic Ma <nma@nvidia.com>

* make bending energy loss invariant to resolution fixes #3485 Signed-off-by: Ebrahim Ebrahim <ebrahim.ebrahim@kitware.com> * set BendingEnergyLoss default normalize to False Maybe it's more important that the default behavior match usage of the term "bending energy" elsewhere, rather than that it be the most convenient behavior. Signed-off-by: Ebrahim Ebrahim <ebrahim.ebrahim@kitware.com>

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

* [DLMED] correct kwargs Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] fix grammar Signed-off-by: Nic Ma <nma@nvidia.com>

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

* [DLMED] add SavitzkyGolaySmoothd 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>

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

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

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

* Adding Torchscript utility functions 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 * [MONAI] python code formatting Signed-off-by: monai-bot <monai.miccai2019@gmail.com> * Adding Torchscript utility functions Signed-off-by: Eric Kerfoot <eric.kerfoot@kcl.ac.uk> * Added test for extra files 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 * Update Signed-off-by: Eric Kerfoot <eric.kerfoot@kcl.ac.uk> * Update 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 * Update Signed-off-by: Eric Kerfoot <eric.kerfoot@kcl.ac.uk> * Update Signed-off-by: Eric Kerfoot <eric.kerfoot@kcl.ac.uk> * Updates 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 * Updates Signed-off-by: Eric Kerfoot <eric.kerfoot@kcl.ac.uk> * Updates 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> Co-authored-by: Nic Ma <nma@nvidia.com>

* [DLMED] change to utility transforms Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] enhance args Signed-off-by: Nic Ma <nma@nvidia.com>

* adds missing item Signed-off-by: Wenqi Li <wenqil@nvidia.com> * update the contributing guide Signed-off-by: Wenqi Li <wenqil@nvidia.com> * update copyright headers Signed-off-by: Wenqi Li <wenqil@nvidia.com>

* util to check the licence info Signed-off-by: Wenqi Li <wenqil@nvidia.com> * update flags Signed-off-by: Wenqi Li <wenqil@nvidia.com> * update based on comments Signed-off-by: Wenqi Li <wenqil@nvidia.com>

… APIs (#3526) * [DLMED] clarify old APIs Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] update according to comments Signed-off-by: Nic Ma <nma@nvidia.com>

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

* fixes #3934 Signed-off-by: Wenqi Li <wenqil@nvidia.com> * min_test update Signed-off-by: Wenqi Li <wenqil@nvidia.com> * cu115 tests Signed-off-by: Wenqi Li <wenqil@nvidia.com> * update tests Signed-off-by: Wenqi Li <wenqil@nvidia.com>

* use enum for dicece reduction Signed-off-by: Yiheng Wang <vennw@nvidia.com> * use look up option Signed-off-by: Yiheng Wang <vennw@nvidia.com>

* [DLMED] update to 21.10 Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] fix typo in integration test config Signed-off-by: Nic Ma <nma@nvidia.com>

* attention unet Signed-off-by: Juan Pablo de la Cruz Gutiérrez <juampatronics@gmail.com> * [MONAI] python code formatting Signed-off-by: monai-bot <monai.miccai2019@gmail.com> * fixed issues and added suggested improvements Signed-off-by: Juan Pablo de la Cruz Gutierrez <juampatronics@gmail.com> * fixed flake issues * smaller tests Signed-off-by: Wenqi Li <wenqil@nvidia.com> Co-authored-by: monai-bot <monai.miccai2019@gmail.com>

* [DLMED] add verify script 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] add unit tests and doc Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] fix flake8 Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] skip min tests Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] remove doc-string Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] fix typo Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] update device names Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] update doc-string examples Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] enhance error message Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] cpu:0 to cpu Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] adjust "dataset_dir" Signed-off-by: Nic Ma <nma@nvidia.com>

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

Signed-off-by: Yiheng Wang <vennw@nvidia.com>

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

* fixes #3942 Signed-off-by: Wenqi Li <wenqil@nvidia.com> * adds import statement Signed-off-by: Wenqi Li <wenqil@nvidia.com> * more tests Signed-off-by: Wenqi Li <wenqil@nvidia.com> * update to resolve import statement 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> * update based on comments Signed-off-by: Wenqi Li <wenqil@nvidia.com>

Signed-off-by: Yiheng Wang <vennw@nvidia.com>

* Minor change to UNet to permit greater modifiability Signed-off-by: Eric Kerfoot <eric.kerfoot@kcl.ac.uk> * Type fix Signed-off-by: Eric Kerfoot <eric.kerfoot@kcl.ac.uk> * Reverting minor change Signed-off-by: Eric Kerfoot <eric.kerfoot@kcl.ac.uk>

* Check images dimensions and color channels Signed-off-by: Behrooz <3968947+drbeh@users.noreply.github.com>

* fixes multiprocessing memory issue Signed-off-by: Wenqi Li <wenqil@nvidia.com> * Revert "Workaround OOM issue in classification 2D integration tests (#3949)" This reverts commit 6ea9742. Signed-off-by: Wenqi Li <wenqil@nvidia.com> * update tests 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 * fixes typo Signed-off-by: Wenqi Li <wenqil@nvidia.com> Co-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>

* [DLMED] support relative ids Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] update according to comments Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] fix typo in test Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] add description Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] optimize the logic Signed-off-by: Nic Ma <nma@nvidia.com>

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

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

* [DLMED] add export script Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] add base unit test Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] add custom config item types and reference resolver Signed-off-by: Nic Ma <nma@nvidia.com> * [pre-commit.ci] auto fixes from pre-commit.com hooks for more information, see https://pre-commit.ci * [DLMED] enhance doc-string Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] fix typo Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] add logging Signed-off-by: Nic Ma <nma@nvidia.com> * [pre-commit.ci] auto fixes from pre-commit.com hooks for more information, see https://pre-commit.ci * [DLMED] remove customized configitem and resolver Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] remove assert ret Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] update to ckpt_export Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] update to .ts Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] update min test Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] simplify args Signed-off-by: Nic Ma <nma@nvidia.com> * fixes integration tests Signed-off-by: Wenqi Li <wenqil@nvidia.com> * [DLMED] change to coverage Signed-off-by: Nic Ma <nma@nvidia.com> * update integration tests Signed-off-by: Wenqi Li <wenqil@nvidia.com> * [DLMED] fix blossom Signed-off-by: Nic Ma <nma@nvidia.com> Co-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com> Co-authored-by: Wenqi Li <831580+wyli@users.noreply.github.com> Co-authored-by: Wenqi Li <wenqil@nvidia.com>

* [DLMED] add logging config Signed-off-by: Nic Ma <nma@nvidia.com> * [MONAI] python code formatting Signed-off-by: monai-bot <monai.miccai2019@gmail.com> * [DLMED] adjust config Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] add doc-string Signed-off-by: Nic Ma <nma@nvidia.com> Co-authored-by: monai-bot <monai.miccai2019@gmail.com>

Signed-off-by: Yiheng Wang <vennw@nvidia.com>

* update mmars, fixes #4003 Signed-off-by: Wenqi Li <wenqil@nvidia.com> * adds typing Signed-off-by: Wenqi Li <wenqil@nvidia.com> * update based on comments Signed-off-by: Wenqi Li <wenqil@nvidia.com> * workaround cucim Signed-off-by: Wenqi Li <wenqil@nvidia.com>

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

* fixes unit test Signed-off-by: Wenqi Li <wenqil@nvidia.com> * temp tests Signed-off-by: Wenqi Li <wenqil@nvidia.com> * adds docker version tests Signed-off-by: Wenqi Li <wenqil@nvidia.com> * fixes #4016 Signed-off-by: Wenqi Li <wenqil@nvidia.com> * local tests Signed-off-by: Wenqi Li <wenqil@nvidia.com> * remove mmar cache daily Signed-off-by: Wenqi Li <wenqil@nvidia.com> * remove cache Signed-off-by: Wenqi Li <wenqil@nvidia.com> * Revert "temp tests" This reverts commit 238d883. Signed-off-by: Wenqi Li <wenqil@nvidia.com> * fixes typo Signed-off-by: Wenqi Li <wenqil@nvidia.com>

* update bundle doc 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 meta Signed-off-by: Wenqi Li <wenqil@nvidia.com> * update intro Signed-off-by: Wenqi Li <wenqil@nvidia.com> * update examples Signed-off-by: Wenqi Li <wenqil@nvidia.com> * adds yaml demo Signed-off-by: Wenqi Li <wenqil@nvidia.com> * update schema Signed-off-by: Wenqi Li <wenqil@nvidia.com> * update toc Signed-off-by: Wenqi Li <wenqil@nvidia.com> * update doc page 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 * $import Signed-off-by: Wenqi Li <wenqil@nvidia.com> * adds recommendations Signed-off-by: Wenqi Li <wenqil@nvidia.com> * update config Signed-off-by: Wenqi Li <wenqil@nvidia.com> * update 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 * adds a link on CLI parsing 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>

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

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

* fix pil via specifying cpuonly version Signed-off-by: Yiheng Wang <vennw@nvidia.com> * add push branch to check Signed-off-by: Yiheng Wang <vennw@nvidia.com> * remove extra line Signed-off-by: Yiheng Wang <vennw@nvidia.com> * remove push branch for upstream Signed-off-by: Yiheng Wang <vennw@nvidia.com>

* Add support for level as input Signed-off-by: Behrooz <3968947+drbeh@users.noreply.github.com> * Add unittests for levels Signed-off-by: Behrooz <3968947+drbeh@users.noreply.github.com> * Update docstring Signed-off-by: Behrooz <3968947+drbeh@users.noreply.github.com> * Add kwargs for WSIReader in all datasets Signed-off-by: Behrooz <3968947+drbeh@users.noreply.github.com> * Update docstring Signed-off-by: Behrooz <3968947+drbeh@users.noreply.github.com>

wyli and others added 30 commits December 9, 2021 13:37

adds the missing imports (#3462)

d2543ad

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

revise MILModel docstring (#3459)

82576e7

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

deprecate reduction (#3464)

4b5ad0b

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

Add missing components to API doc (#3468)

89f0bd4

* [DLMED] add missing docs Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] add missing components Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] fix test Signed-off-by: Nic Ma <nma@nvidia.com>

[DLMED] remove cls (#3475)

a4c1300

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

Add Iteration base class (#3472)

360c52f

* [DLMED] add Iteration base class 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>

fix link error (#3488)

cb70e13

Signed-off-by: Yiheng Wang <vennw@nvidia.com>

3465 Support string as dtype (#3478)

9ef0070

* [DLMED] support string dtype Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] fix typo Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] enhance dtype in ToCupy Signed-off-by: Nic Ma <nma@nvidia.com>

Add Iteration base class (#3472)

2cbb54c

* [DLMED] add Iteration base class 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>

fix link error (#3488)

45af170

Signed-off-by: Yiheng Wang <vennw@nvidia.com>

3465 Support string as dtype (#3478)

9ccc5ee

* [DLMED] support string dtype Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] fix typo Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] enhance dtype in ToCupy Signed-off-by: Nic Ma <nma@nvidia.com>

[DLMED] update to 0.4.7 (#3483)

7a66f18

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

3471 3491 Add example images for intensity transforms (#3494)

9927691

* [DLMED] add missing images Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] fix 3471 Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] fix AsDiscrete Signed-off-by: Nic Ma <nma@nvidia.com>

Removes redundant casting -- ensure tuple (#3495)

3761ee0

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

3498 Correct kwargs arg for convert_to_torchscript (#3499)

a255648

* [DLMED] correct kwargs Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] fix grammar Signed-off-by: Nic Ma <nma@nvidia.com>

update tests with 1.10.1 (#3500)

531c276

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

3501 Add dict version SavitzkyGolaySmoothd (#3502)

d663d78

* [DLMED] add SavitzkyGolaySmoothd 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>

remove file (#3507)

d2861a2

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

avoid 60.0.0 (#3514)

29779d1

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

[DLMED] add 6 new transform images (#3512)

c9d38f0

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

support of reversed indexing (#3508)

1d3a9d7

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

3517 Refine AddCoordinateChannels transform (#3524)

8e2ade5

* [DLMED] change to utility transforms Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] enhance args Signed-off-by: Nic Ma <nma@nvidia.com>

3521 Copyright header update (#3522)

1516ca7

* adds missing item Signed-off-by: Wenqi Li <wenqil@nvidia.com> * update the contributing guide Signed-off-by: Wenqi Li <wenqil@nvidia.com> * update copyright headers Signed-off-by: Wenqi Li <wenqil@nvidia.com>

3521 - adds a util to check the licence info (#3523)

299a0d1

* util to check the licence info Signed-off-by: Wenqi Li <wenqil@nvidia.com> * update flags Signed-off-by: Wenqi Li <wenqil@nvidia.com> * update based on comments Signed-off-by: Wenqi Li <wenqil@nvidia.com>

3350 Remove PyTorch 1.5.x related logic and mark versions for all new…

58ded72

… APIs (#3526) * [DLMED] clarify old APIs Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] update according to comments Signed-off-by: Nic Ma <nma@nvidia.com>

Nic-Ma and others added 29 commits March 15, 2022 15:43

3943 Enhance LoadImage transform for customized readers (#3944)

3b771bb

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

3919 Use enums for reduction in DiceCELoss (#3953)

6ff8535

* use enum for dicece reduction Signed-off-by: Yiheng Wang <vennw@nvidia.com> * use look up option Signed-off-by: Yiheng Wang <vennw@nvidia.com>

Workaround OOM issue in classification 2D integration tests (#3949)

6ea9742

* [DLMED] update to 21.10 Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] fix typo in integration test config Signed-off-by: Nic Ma <nma@nvidia.com>

optional meta_file (#3952)

55e6018

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

update cachedataset num workers (#3963)

7ee3488

Signed-off-by: Yiheng Wang <vennw@nvidia.com>

[DLMED] update installation doc (#3970)

be25a72

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

fix fstring bugs (#3972)

459b188

Signed-off-by: Yiheng Wang <vennw@nvidia.com>

Contain WSIReader to colored 2D images (#3979)

bdeb662

* Check images dimensions and color channels Signed-off-by: Behrooz <3968947+drbeh@users.noreply.github.com>

3987 - fixes docstrings and adds checks (#3988)

7d8bb9b

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

[DLMED] fix flake8 (#3991)

f11f58c

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

remove ambiguous or ops for optional args (#3997)

b91faa2

Signed-off-by: Yiheng Wang <vennw@nvidia.com>

Update cuCIM min dependency to support randomized transforms (#4004)

a676e38

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

[DLMED] disable recursive macro (#4033)

af725d7

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

[DLMED] update to 22.02 (#4041)

4526b68

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

fixes typo ver (#4045)

167a320

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

Nic-Ma merged commit ec463d6 into Nic-Ma:main Apr 4, 2022

Provide feedback

Saved searches

Use saved searches to filter your results more quickly

merge master #397

merge master #397

Nic-Ma commented Apr 4, 2022

merge master #397

merge master #397

Conversation

Nic-Ma commented Apr 4, 2022

Description

Status

Types of changes