merge master by Nic-Ma · Pull Request #344 · Nic-Ma/MONAI

Nic-Ma · 2022-01-10T08:22:35Z

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.

* [DLMED] update highlights Signed-off-by: Nic Ma <nma@nvidia.com>

* release note v0.7 Signed-off-by: Wenqi Li <wenqil@nvidia.com> * adds whatsnew 07 Signed-off-by: Wenqi Li <wenqil@nvidia.com>

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

* [DLMED] update README Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] update what's new Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] use whatsnew link Signed-off-by: Nic Ma <nma@nvidia.com>

* [DLMED] add more doc Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] edit change log Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] add command to get transform backend Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] enhance the doc Signed-off-by: Nic Ma <nma@nvidia.com>

…dGaussianSharpen` (#2971) Torch `GaussianSmooth`, `RandGaussianSmooth`, `GaussianSharpen`, `RandGaussianSharpen`

* apply pyupgrade Signed-off-by: Jirka <jirka.borovec@seznam.cz> * exclude monai/_version.py Signed-off-by: Jirka <jirka.borovec@seznam.cz>

* enhance the release version string check Signed-off-by: GitHub <noreply@github.com> * update the releasing steps Signed-off-by: GitHub <noreply@github.com> Co-authored-by: Nic Ma <nma@nvidia.com>

* [DLMED] update ignite 0.4.6 Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] fix flake8 issues Signed-off-by: Nic Ma <nma@nvidia.com>

* print dtype along with type Signed-off-by: Wenqi Li <wenqil@nvidia.com> * update tests Signed-off-by: Wenqi Li <wenqil@nvidia.com>

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

…SpikeNoise (#2974) GibbsNoise, RandGibbsNoise, KSpaceSpikeNoise, RandKSpaceSpikeNoise

…std (#3044) Signed-off-by: Richard Brown <33289025+rijobro@users.noreply.github.com>

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

Torch `Spacing`, `Spacingd`

* torch fgbgtoindices Signed-off-by: Wenqi Li <wenqil@nvidia.com> * unravel indices Signed-off-by: Wenqi Li <wenqil@nvidia.com> * simplified Signed-off-by: Wenqi Li <wenqil@nvidia.com> Co-authored-by: Nic Ma <nma@nvidia.com>

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

create example transform images

* [DLMED] fix crop performance issue Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] fix CI test Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] use default to avoid overflow Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] fix CI error Signed-off-by: Nic Ma <nma@nvidia.com>

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

* apply yesqa Signed-off-by: Jirka <jirka.borovec@seznam.cz> * rev Signed-off-by: Jirka <jirka.borovec@seznam.cz> * expand Signed-off-by: Jirka <jirka.borovec@seznam.cz> * plugins Signed-off-by: Jirka <jirka.borovec@seznam.cz>

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

* create images Signed-off-by: Richard Brown <33289025+rijobro@users.noreply.github.com> * use brats Signed-off-by: Richard Brown <33289025+rijobro@users.noreply.github.com> * update Signed-off-by: Richard Brown <33289025+rijobro@users.noreply.github.com> * working Signed-off-by: Richard Brown <33289025+rijobro@users.noreply.github.com> * rename file Signed-off-by: Richard Brown <33289025+rijobro@users.noreply.github.com> * optional import matplotlib Signed-off-by: Richard Brown <33289025+rijobro@users.noreply.github.com> * docstrings Signed-off-by: Richard Brown <33289025+rijobro@users.noreply.github.com> * store images in https://github.com/Project-MONAI/DocImages Signed-off-by: Richard Brown <33289025+rijobro@users.noreply.github.com> * extra transform example images Signed-off-by: Richard Brown <33289025+rijobro@users.noreply.github.com> * most transforms Signed-off-by: Richard Brown <33289025+rijobro@users.noreply.github.com> * [pre-commit.ci] auto fixes from pre-commit.com hooks for more information, see https://pre-commit.ci Co-authored-by: Eric Kerfoot <17726042+ericspod@users.noreply.github.com>

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

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

* Adding documentation for AutoEncoder and VarAutoEncoder Signed-off-by: Eric Kerfoot <eric.kerfoot@kcl.ac.uk>

* [pre-commit.ci] pre-commit suggestions updates: - [github.com/asottile/pyupgrade: v2.27.0 → v2.29.0](asottile/pyupgrade@v2.27.0...v2.29.0) * fixes #3071 Signed-off-by: Wenqi Li <wenqil@nvidia.com> Co-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com> Co-authored-by: Wenqi Li <wenqil@nvidia.com>

* update workflow Signed-off-by: Wenqi Li <wenqil@nvidia.com> * fixes gpu tests Signed-off-by: Wenqi Li <wenqil@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] update to 21.12 Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] update according to comments Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] add PyTorch 1.9 test Signed-off-by: Nic Ma <nma@nvidia.com>

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

* [DLMED] fix oneof Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] add more unit tests Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] update index Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] update according to comments Signed-off-by: Nic Ma <nma@nvidia.com> * Revert "[DLMED] update according to comments" This reverts commit c6c3a35. Signed-off-by: Nic Ma <nma@nvidia.com> * Revert "[DLMED] update index" This reverts commit 649a7c5. Signed-off-by: Nic Ma <nma@nvidia.com>

* drop py36 support Signed-off-by: Wenqi Li <wenqil@nvidia.com> * drop 20.09 test because of python min version 3.6 Signed-off-by: Wenqi Li <wenqil@nvidia.com> * update tests Signed-off-by: Wenqi Li <wenqil@nvidia.com> * error->warning, revise copyright Signed-off-by: Wenqi Li <wenqil@nvidia.com>

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

* adds min. memory testing utils Signed-off-by: Wenqi Li <wenqil@nvidia.com> * include valueerror for robust outcome Signed-off-by: Wenqi Li <wenqil@nvidia.com> * ensure float Signed-off-by: Wenqi Li <wenqil@nvidia.com> * msg improvements Signed-off-by: Wenqi Li <wenqil@nvidia.com> * update threshold Signed-off-by: Wenqi Li <wenqil@nvidia.com> * remove ref Signed-off-by: Wenqi Li <wenqil@nvidia.com> * separate disttests Signed-off-by: Wenqi Li <wenqil@nvidia.com> * update based on comments Signed-off-by: Wenqi Li <wenqil@nvidia.com>

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

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

* Adding smooth deform transform 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> * Docs update Signed-off-by: Eric Kerfoot <eric.kerfoot@kcl.ac.uk> * Type fixing 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> * Fix Signed-off-by: Eric Kerfoot <eric.kerfoot@kcl.ac.uk> * Fix 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 * Fix for moveaxis Signed-off-by: Eric Kerfoot <eric.kerfoot@kcl.ac.uk> * Fix for moveaxis Signed-off-by: Eric Kerfoot <eric.kerfoot@kcl.ac.uk> * Adding example images, random field sized reduced to (10,10,10) Signed-off-by: Eric Kerfoot <eric.kerfoot@kcl.ac.uk> * Changed backend Signed-off-by: Eric Kerfoot <eric.kerfoot@kcl.ac.uk> * [MONAI] python code formatting Signed-off-by: monai-bot <monai.miccai2019@gmail.com> * Tweak 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>

* runtest.sh defaults to no build/install Signed-off-by: Wenqi Li <wenqil@nvidia.com> * following test case conventions for multiprocessing - adding `_dist` to multiprocessing test cases - decouple multiprocessing LMDB tests from `test_lmdbdataset` Signed-off-by: Wenqi Li <wenqil@nvidia.com> * exclude lmdbdataset tests in min_tests Signed-off-by: Wenqi Li <wenqil@nvidia.com> Co-authored-by: Eric Kerfoot <17726042+ericspod@users.noreply.github.com>

Signed-off-by: Eric Kerfoot <eric.kerfoot@kcl.ac.uk>

…#3558) Signed-off-by: Wenqi Li <wenqil@nvidia.com>

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

* [DLMED] update dataset summary Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] enhance data type Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] fix pickle issue Signed-off-by: Nic Ma <nma@nvidia.com> Co-authored-by: Wenqi Li <wenqil@nvidia.com>

updates: - [github.com/pre-commit/pre-commit-hooks: v4.0.1 → v4.1.0](pre-commit/pre-commit-hooks@v4.0.1...v4.1.0) - [github.com/asottile/pyupgrade: v2.29.0 → v2.31.0](asottile/pyupgrade@v2.29.0...v2.31.0) - [github.com/asottile/yesqa: v1.2.3 → v1.3.0](asottile/yesqa@v1.2.3...v1.3.0) Co-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>

* adds metadata when loading dicom series Signed-off-by: Wenqi Li <wenqil@nvidia.com> * fixes timed tests Signed-off-by: Wenqi Li <wenqil@nvidia.com> * update based on comments Signed-off-by: Wenqi Li <wenqil@nvidia.com>

* Create codeql-analysis.yml Signed-off-by: Wenqi Li <wenqil@nvidia.com> * build cpp Signed-off-by: Wenqi Li <wenqil@nvidia.com> * fixes Multiplication result converted to larger type Signed-off-by: Wenqi Li <wenqil@nvidia.com> * fixes url parsing Signed-off-by: Wenqi Li <wenqil@nvidia.com>

* [DLMED] add log handler Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] fix CI tests Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] fix CI test Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] test CI Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] fix logging Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] temp test Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] fix wrong unit test Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] fix wrong test cases Signed-off-by: Nic Ma <nma@nvidia.com>

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

* [DLMED] enhance slice_channels 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> * [DLMED] remove test Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] add flag Signed-off-by: Nic Ma <nma@nvidia.com>

* [DLMED] add kwargs Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] add unit test Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] fix doc 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: Richard Brown <33289025+rijobro@users.noreply.github.com>

* [DLMED] add ascontiguous Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] add doc Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] enhance CacheDataset Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] add unit test Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] export to utility Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] add to subclasses Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] update according to comments Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] fix antipatterns Signed-off-by: Nic Ma <nma@nvidia.com>

* adds a conda test Signed-off-by: Wenqi Li <wenqil@nvidia.com> * openslide windows Signed-off-by: Wenqi Li <wenqil@nvidia.com> * conda create Signed-off-by: Wenqi Li <wenqil@nvidia.com> * fixes lmdb Signed-off-by: Wenqi Li <wenqil@nvidia.com> * fixes windows paging Signed-off-by: Wenqi Li <wenqil@nvidia.com> * fixes matplotlib version Signed-off-by: Wenqi Li <wenqil@nvidia.com> * fixes openslide conda Signed-off-by: Wenqi Li <wenqil@nvidia.com> * remove temp tests Signed-off-by: Wenqi Li <wenqil@nvidia.com> * try to fix windows paging Signed-off-by: Wenqi Li <wenqil@nvidia.com> * update cpuonly tests Signed-off-by: Wenqi Li <wenqil@nvidia.com> * fixes windows install Signed-off-by: Wenqi Li <wenqil@nvidia.com> * update comments Signed-off-by: Wenqi Li <wenqil@nvidia.com>

* 3616 test downloading issues Signed-off-by: Wenqi Li <wenqil@nvidia.com> * update based on comments Signed-off-by: Wenqi Li <wenqil@nvidia.com>

Nic-Ma and others added 30 commits September 23, 2021 15:30

3009 Update highlights web page (#3013)

46bf30d

* [DLMED] update highlights Signed-off-by: Nic Ma <nma@nvidia.com>

2914 release note, and what's new for v0.7 (#2992)

64fa255

* release note v0.7 Signed-off-by: Wenqi Li <wenqil@nvidia.com> * adds whatsnew 07 Signed-off-by: Wenqi Li <wenqil@nvidia.com>

delaying the removal (#3015)

bfa054b

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

update preview version tag (#3016)

f06de43

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

Enhance 0.7 README doc (#3017)

aa4eb5d

* [DLMED] update README Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] update what's new Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] use whatsnew link Signed-off-by: Nic Ma <nma@nvidia.com>

Torch GaussianSmooth, RandGaussianSmooth, GaussianSharpen, `Ran…

453a9c0

…dGaussianSharpen` (#2971) Torch `GaussianSmooth`, `RandGaussianSmooth`, `GaussianSharpen`, `RandGaussianSharpen`

apply pyupgrade (#3026)

a477905

* apply pyupgrade Signed-off-by: Jirka <jirka.borovec@seznam.cz> * exclude monai/_version.py Signed-off-by: Jirka <jirka.borovec@seznam.cz>

3018 enhance version string check (#3022)

a0130d1

* enhance the release version string check Signed-off-by: GitHub <noreply@github.com> * update the releasing steps Signed-off-by: GitHub <noreply@github.com> Co-authored-by: Nic Ma <nma@nvidia.com>

3028 update ignite CI tests to 0.4.6 (#3029)

fe93596

* [DLMED] update ignite 0.4.6 Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] fix flake8 issues Signed-off-by: Nic Ma <nma@nvidia.com>

enhance DataStats to include dtype (#3043)

28fb7d6

* print dtype along with type Signed-off-by: Wenqi Li <wenqil@nvidia.com> * update tests Signed-off-by: Wenqi Li <wenqil@nvidia.com>

enhance error handling (#3042)

e4dd504

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

2792 - Torch GibbsNoise, RandGibbsNoise, KSpaceSpikeNoise, RandKSpace…

fc478b0

…SpikeNoise (#2974) GibbsNoise, RandGibbsNoise, KSpaceSpikeNoise, RandKSpaceSpikeNoise

AdjustContrast, AdjustContrastd, RandAdjustContrast, RandAdjustContra…

0c03376

…std (#3044) Signed-off-by: Richard Brown <33289025+rijobro@users.noreply.github.com>

remove false positive tests (#3046)

f85ad48

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

Torch Spacing, Spacingd (#3045)

bf561bb

Torch `Spacing`, `Spacingd`

2975 torch fgbgtoindices (#3038)

f909a6b

* torch fgbgtoindices Signed-off-by: Wenqi Li <wenqil@nvidia.com> * unravel indices Signed-off-by: Wenqi Li <wenqil@nvidia.com> * simplified Signed-off-by: Wenqi Li <wenqil@nvidia.com> Co-authored-by: Nic Ma <nma@nvidia.com>

3051 Fix dtype issue in Spacing transform (#3052)

d15cedd

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

Create transform images (#3039)

a589c82

create example transform images

[DLMED] fix broken link (#3059)

3b5af50

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

remove redundant noqa (#3027)

8271d8e

* apply yesqa Signed-off-by: Jirka <jirka.borovec@seznam.cz> * rev Signed-off-by: Jirka <jirka.borovec@seznam.cz> * expand Signed-off-by: Jirka <jirka.borovec@seznam.cz> * plugins Signed-off-by: Jirka <jirka.borovec@seznam.cz>

[DLMED] enhance label classes (#3061)

87e2ecd

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

[DLMED] enhance ScaleIntensity (#3062)

15c1f77

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

update backend (#3065)

26f20f4

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

3063 Fix the complex Tensor issue in type conversion (#3064)

7ad0f6e

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

Ae docs (#3067)

4618e85

* Adding documentation for AutoEncoder and VarAutoEncoder Signed-off-by: Eric Kerfoot <eric.kerfoot@kcl.ac.uk>

update workflow (#3073)

51b2380

* update workflow Signed-off-by: Wenqi Li <wenqil@nvidia.com> * fixes gpu tests Signed-off-by: Wenqi Li <wenqil@nvidia.com>

Nic-Ma and others added 29 commits December 21, 2021 09:03

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>

3533 Update PyTorch docker to 21.12 (#3534)

08f9bac

* [DLMED] update to 21.12 Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] update according to comments Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] add PyTorch 1.9 test Signed-off-by: Nic Ma <nma@nvidia.com>

3531 Add args to subclass of CacheDataset (#3532)

9caa1d0

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

3541 has cupy check (#3544)

21c5f6d

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

3539 Remove decollate warning (#3545)

29bc93b

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

[DLMED] enhance set_determinism (#3547)

df75199

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

Remove apply_same_field (#3556)

c8e7fe1

Signed-off-by: Eric Kerfoot <eric.kerfoot@kcl.ac.uk>

skipping pretraining network loading when downloading is unsuccessful (…

885d5b9

…#3558) Signed-off-by: Wenqi Li <wenqil@nvidia.com>

[DLMED] fix mypy errors (#3562)

ba23afd

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

3565 - adds metadata when loading dicom series (#3566)

a7835ab

* adds metadata when loading dicom series Signed-off-by: Wenqi Li <wenqil@nvidia.com> * fixes timed tests Signed-off-by: Wenqi Li <wenqil@nvidia.com> * update based on comments Signed-off-by: Wenqi Li <wenqil@nvidia.com>

update issue template for questions (#3597)

cdcd524

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

conda environment yaml file (#3584)

a93b8cc

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

3616 test downloading issues (#3617)

a0d2558

* 3616 test downloading issues Signed-off-by: Wenqi Li <wenqil@nvidia.com> * update based on comments Signed-off-by: Wenqi Li <wenqil@nvidia.com>

Nic-Ma merged commit c1cdf75 into Nic-Ma:update-grid-patch Jan 10, 2022

Provide feedback

Saved searches

Use saved searches to filter your results more quickly

merge master#344

merge master#344
Nic-Ma merged 295 commits intoNic-Ma:update-grid-patchfrom
Project-MONAI:dev

Nic-Ma commented Jan 10, 2022

Uh oh!

Reviewers

Assignees

Labels

Projects

Milestone

Development

Uh oh!

18 participants

Conversation

Nic-Ma commented Jan 10, 2022

Description

Status

Types of changes

Uh oh!

Reviewers

Assignees

Labels

Projects

Milestone

Development

Uh oh!

18 participants