merge master by Nic-Ma · Pull Request #113 · Nic-Ma/MONAI

Nic-Ma · 2021-05-25T02:08:25Z

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.

* fixes data type in switching Signed-off-by: Wenqi Li <wenqil@nvidia.com> * [MONAI] python code formatting Signed-off-by: monai-bot <monai.miccai2019@gmail.com> Co-authored-by: monai-bot <monai.miccai2019@gmail.com>

* Implement CuImageReader and OpenSlideReader Signed-off-by: Behrooz <3968947+behxyz@users.noreply.github.com> * Add unittests for CuImageReader Signed-off-by: Behrooz <3968947+behxyz@users.noreply.github.com> * Add unittests for OpenSlideReader Signed-off-by: Behrooz <3968947+behxyz@users.noreply.github.com> * Sort imports Signed-off-by: Behrooz <3968947+behxyz@users.noreply.github.com> * Add correct boundaries Signed-off-by: Behrooz <3968947+behxyz@users.noreply.github.com> * Add test cases for reading patches on a grid for CuImage Signed-off-by: Behrooz <3968947+behxyz@users.noreply.github.com> * Add patch whole slide imaging dataset for pathology Signed-off-by: Behrooz <3968947+behxyz@users.noreply.github.com> * Add test case for read patches for OpenSlide Signed-off-by: Behrooz <3968947+behxyz@users.noreply.github.com> * flake8 and few minor changes Signed-off-by: Behrooz <3968947+behxyz@users.noreply.github.com> * black Signed-off-by: Behrooz <3968947+behxyz@users.noreply.github.com> * flake8 Signed-off-by: Behrooz <3968947+behxyz@users.noreply.github.com> * Add kwargs to CuImageReader and OpenSlideReader's read method Signed-off-by: Behrooz <3968947+behxyz@users.noreply.github.com> * Change the type hint from np.dtype to DTypeLike Signed-off-by: Behrooz <3968947+behxyz@users.noreply.github.com> * Fix a bug Signed-off-by: Behrooz <3968947+behxyz@users.noreply.github.com> * Implement WSIReader and unittests Signed-off-by: Behrooz <3968947+behxyz@users.noreply.github.com> * Minor updates Signed-off-by: Behrooz <3968947+behxyz@users.noreply.github.com> * Fix few typing issues Signed-off-by: Behrooz <3968947+behxyz@users.noreply.github.com> * Revert datasets Signed-off-by: Behrooz <3968947+behxyz@users.noreply.github.com> * Add shape property to openslide image object Reverse size to be compatible with output size (hxw) Signed-off-by: Behrooz <3968947+behxyz@users.noreply.github.com> * Add untittest for loading the whole image Reverse the size accroding to the WSIReader Signed-off-by: Behrooz <3968947+behxyz@users.noreply.github.com> * Update the whole image size Signed-off-by: Behrooz <3968947+behxyz@users.noreply.github.com> * Remove optional size Signed-off-by: Behrooz <3968947+behxyz@users.noreply.github.com> * Remove optional dtype Signed-off-by: Behrooz <3968947+behxyz@users.noreply.github.com> * Remove _get_spatial_shape return type Signed-off-by: Behrooz <3968947+behxyz@users.noreply.github.com> * Reverse the orders of dimensions of `location` to be compatible with image shape Signed-off-by: Behrooz <3968947+behxyz@users.noreply.github.com> * Change test cases to use smaller image and revese location's dimensions Signed-off-by: Behrooz <3968947+behxyz@users.noreply.github.com> * Replace the test TIFF and some upgrades Signed-off-by: Behrooz <3968947+behxyz@users.noreply.github.com> * Update dependencies for OpenSlide Signed-off-by: Behrooz <3968947+behxyz@users.noreply.github.com> * Update unittests for OpenSlide and CuImage Signed-off-by: Behrooz <3968947+behxyz@users.noreply.github.com> * Fix openslide dependency Signed-off-by: Behrooz <3968947+behxyz@users.noreply.github.com> * Fix doc dependencies Signed-off-by: Behrooz <3968947+behxyz@users.noreply.github.com> * Minor changes Signed-off-by: Behrooz <3968947+behxyz@users.noreply.github.com> * Few variable name changes Signed-off-by: Behrooz <3968947+behxyz@users.noreply.github.com> * Add EnsureChannelFirst Signed-off-by: Behrooz <3968947+behxyz@users.noreply.github.com> * Add metadata to WSIReader Signed-off-by: Behrooz <3968947+behxyz@users.noreply.github.com>

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

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

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

* [DLMED] add Affined transform 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>

* update for torch 1.8.0 Signed-off-by: Wenqi Li <wenqil@nvidia.com> * mute codecov upload error Signed-off-by: Wenqi Li <wenqil@nvidia.com>

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

with allow_missing_keys_mode

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

* fixes #1500 update grid dataset to support patch level transforms Signed-off-by: Wenqi Li <wenqil@nvidia.com>

* [DLMED] update type of arg in workflows 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] fix flake8 issue 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>

* 1651 implement RegUNet Signed-off-by: kate-sann5100 <yiwen.li@st-annes.ox.ac.uk>

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

* Update MONAI Docker with OpenSlide dependencies Signed-off-by: Behrooz <3968947+behxyz@users.noreply.github.com> * Update cron job to install apt dependencies Signed-off-by: Behrooz <3968947+behxyz@users.noreply.github.com>

* use eval for getting class_idx for gradcam

* fixes unit test Signed-off-by: Wenqi Li <wenqil@nvidia.com> * fixes timed call tests Signed-off-by: Wenqi Li <wenqil@nvidia.com>

basic inverse API

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

* addresses testing instance memory errors Signed-off-by: Wenqi Li <wenqil@nvidia.com>

* update coverage config Signed-off-by: Wenqi Li <wenqil@nvidia.com> * temp tests Signed-off-by: Wenqi Li <wenqil@nvidia.com> * fixes https://github.com/Project-MONAI/MONAI/runs/2083800079?check_suite_focus=true#step:5:13886 Signed-off-by: Wenqi Li <wenqil@nvidia.com> * test cases matching in runner Signed-off-by: Wenqi Li <wenqil@nvidia.com> * fixes openslide tests Signed-off-by: Wenqi Li <wenqil@nvidia.com> * fixes https://github.com/Project-MONAI/MONAI/runs/2086767998?check_suite_focus=true#step:7:5955 Signed-off-by: Wenqi Li <wenqil@nvidia.com> * fixes print stats Signed-off-by: Wenqi Li <wenqil@nvidia.com> * remove temp tests Signed-off-by: Wenqi Li <wenqil@nvidia.com> * remove unused Signed-off-by: Wenqi Li <wenqil@nvidia.com> * remove global logging config Signed-off-by: Wenqi Li <wenqil@nvidia.com> * omit setup.py Signed-off-by: Wenqi Li <wenqil@nvidia.com>

* 1651 implement RegUNet Signed-off-by: kate-sann5100 <yiwen.li@st-annes.ox.ac.uk>

* 1651 implement RegUNet Signed-off-by: kate-sann5100 <yiwen.li@st-annes.ox.ac.uk> * 1651 reformat code Signed-off-by: kate-sann5100 <yiwen.li@st-annes.ox.ac.uk> * 1651 reformat code Signed-off-by: kate-sann5100 <yiwen.li@st-annes.ox.ac.uk> * 1651 add globalnet Signed-off-by: kate-sann5100 <yiwen.li@st-annes.ox.ac.uk> * 1651 reformat code Signed-off-by: kate-sann5100 <yiwen.li@st-annes.ox.ac.uk> * 1651 reformat code Signed-off-by: kate-sann5100 <yiwen.li@st-annes.ox.ac.uk> * 1651 reformat code Signed-off-by: kate-sann5100 <yiwen.li@st-annes.ox.ac.uk> * 1651 reformat code Signed-off-by: kate-sann5100 <yiwen.li@st-annes.ox.ac.uk>

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

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

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

…seeds (#1761) * TEST: Check for identical MedNISTDataset length for different seeds Signed-off-by: Adam Aji <3487395+adamaji@users.noreply.github.com> * BUG: MedNISTDataset returns differently sized datasets for diff seeds Signed-off-by: Adam Aji <3487395+adamaji@users.noreply.github.com>

* [DLMED] add length API Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] remove replacement arg Signed-off-by: Nic Ma <nma@nvidia.com>

* reduce randomly cropped amount to appease CI Signed-off-by: Richard Brown <33289025+rijobro@users.noreply.github.com> * fixes rand inverse Signed-off-by: Wenqi Li <wenqil@nvidia.com>

* better way of managing Cache Signed-off-by: Coen <coengruijt@gmail.com> * Update test_smartcachedataset.py Signed-off-by: Coen <coengruijt@gmail.com>

* fixes docstring Signed-off-by: Wenqi Li <wenqil@nvidia.com> * 2099 docstring updates Signed-off-by: Wenqi Li <wenqil@nvidia.com>

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

test network consistency

* enhance norm and act layers Signed-off-by: Yiheng Wang <vennw@nvidia.com> * write generic norm and act layers Signed-off-by: Yiheng Wang <vennw@nvidia.com> * Fix flake8 errors Signed-off-by: Yiheng Wang <vennw@nvidia.com>

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

gibbs transform

* enhance get layers Signed-off-by: Wenqi Li <wenqil@nvidia.com> * codeformat/typo fixes Signed-off-by: Wenqi Li <wenqil@nvidia.com> * fixes type errors Signed-off-by: Wenqi Li <wenqil@nvidia.com>

* [DLMED] add RandScaleCrop Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] update according to comments Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] update for corner case Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] fix typo 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: Wenqi Li <wenqil@nvidia.com>

* Add array and dictionary based CoordConv transforms Signed-off-by: Mark <mark.graham@kcl.ac.uk> * Add comments and input checks Signed-off-by: Mark Graham <markgraham539@gmail.com> * Add docs for CoordConv Signed-off-by: Mark Graham <markgraham539@gmail.com> * Add tests for CoordConv Signed-off-by: Mark Graham <markgraham539@gmail.com> * Renames to AddCoordinateChannels and simplifies transform code Signed-off-by: Mark Graham <markgraham539@gmail.com> * Test input channel is unchanged and shorten code more Signed-off-by: Mark Graham <markgraham539@gmail.com> * [MONAI] python code formatting Signed-off-by: monai-bot <monai.miccai2019@gmail.com> Co-authored-by: Richard Brown <33289025+rijobro@users.noreply.github.com> Co-authored-by: monai-bot <monai.miccai2019@gmail.com>

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

* [DLMED] add CenterScaleCrop Signed-off-by: Nic Ma <nma@nvidia.com> * [MONAI] python code formatting Signed-off-by: monai-bot <monai.miccai2019@gmail.com> * [DLMED] fix typo Signed-off-by: Nic Ma <nma@nvidia.com> Co-authored-by: monai-bot <monai.miccai2019@gmail.com>

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

* [DLMED] enhance CSVSaver Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] add unit tests Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] fix test errors 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> * [MONAI] python code formatting Signed-off-by: monai-bot <monai.miccai2019@gmail.com> * [DLMED] update accoring to comments Signed-off-by: Nic Ma <nma@nvidia.com> Co-authored-by: monai-bot <monai.miccai2019@gmail.com>

)

* [DLMED] add meta_key arg to components Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] fix CI test 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> * [MONAI] python code formatting Signed-off-by: monai-bot <monai.miccai2019@gmail.com> * [DLMED] read-only transforms can share same meta data for keys Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] add more unit tests Signed-off-by: Nic Ma <nma@nvidia.com> Co-authored-by: monai-bot <monai.miccai2019@gmail.com>

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>

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

* [DLMED] temp combine batch and output 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> Co-authored-by: Wenqi Li <wenqil@nvidia.com> Co-authored-by: monai-bot <monai.miccai2019@gmail.com>

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

* cache grid Signed-off-by: Wenqi Li <wenqil@nvidia.com> * update based on comments Signed-off-by: Wenqi Li <wenqil@nvidia.com> * adds cache tests Signed-off-by: Wenqi Li <wenqil@nvidia.com>

* thread safety impl. Signed-off-by: Wenqi Li <wenqil@nvidia.com> * fixes croppad Signed-off-by: Wenqi Li <wenqil@nvidia.com> * fixed intensity Signed-off-by: Wenqi Li <wenqil@nvidia.com> * fixes spatial Signed-off-by: Wenqi Li <wenqil@nvidia.com> * fixes util Signed-off-by: Wenqi Li <wenqil@nvidia.com> * autofix Signed-off-by: Wenqi Li <wenqil@nvidia.com> * update docstring Signed-off-by: Wenqi Li <wenqil@nvidia.com> * update datastats Signed-off-by: Wenqi Li <wenqil@nvidia.com> * fixes docstring Signed-off-by: Wenqi Li <wenqil@nvidia.com> * fixes torch 1.7 issue Signed-off-by: Wenqi Li <wenqil@nvidia.com> * fixes mac/win n_workers Signed-off-by: Wenqi Li <wenqil@nvidia.com> * update based on comments Signed-off-by: Wenqi Li <wenqil@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: ambroslins <ambros.lins@gmail.com>

* add pypi quick tests Signed-off-by: Wenqi Li <wenqil@nvidia.com> * temp tests Signed-off-by: Wenqi Li <wenqil@nvidia.com> * update Signed-off-by: Wenqi Li <wenqil@nvidia.com> * cron pypi tests Signed-off-by: Wenqi Li <wenqil@nvidia.com> * temp tests Signed-off-by: Wenqi Li <wenqil@nvidia.com> * Revert "temp tests" This reverts commit b6d86d6. Signed-off-by: Wenqi Li <wenqil@nvidia.com> * update Signed-off-by: Wenqi Li <wenqil@nvidia.com> * revise cron Signed-off-by: Wenqi Li <wenqil@nvidia.com> * Revert "temp tests" This reverts commit 44cddc0. Signed-off-by: Wenqi Li <wenqil@nvidia.com> * docstring Signed-off-by: Wenqi Li <wenqil@nvidia.com> * update setup.cfg Signed-off-by: Wenqi Li <wenqil@nvidia.com>

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

* [DLMED] fix CopyItemsd transform 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: Wenqi Li <wenqil@nvidia.com>

wyli and others added 30 commits March 5, 2021 00:52

fixes data type in switching (#1694)

75b5772

* fixes data type in switching Signed-off-by: Wenqi Li <wenqil@nvidia.com> * [MONAI] python code formatting Signed-off-by: monai-bot <monai.miccai2019@gmail.com> Co-authored-by: monai-bot <monai.miccai2019@gmail.com>

[DLMED] add WSIReader to LoadImage (#1695)

232e8a5

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

Raise import error for openslide and cuimage (#1699)

66811fe

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

1604 Revise docstring cam (#1705)

b25b3d3

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

1704 Add Affined transform (#1709)

ce6628a

* [DLMED] add Affined transform 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>

1693 update for pytorch 1.8 (#1700)

133f42a

* update for torch 1.8.0 Signed-off-by: Wenqi Li <wenqil@nvidia.com> * mute codecov upload error Signed-off-by: Wenqi Li <wenqil@nvidia.com>

[DLMED] update datasets (#1712)

634b32d

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

with allow_missing_keys_mode (#1714)

08af0cc

with allow_missing_keys_mode

update links (#1717)

f4560a1

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

1500-update grid dataset to support patch level transforms (#1679)

cbddce9

* fixes #1500 update grid dataset to support patch level transforms Signed-off-by: Wenqi Li <wenqil@nvidia.com>

1651 implement RegUNet (#1658)

78ec66f

* 1651 implement RegUNet Signed-off-by: kate-sann5100 <yiwen.li@st-annes.ox.ac.uk>

remove print msg (#1730)

ea1d04b

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

Fix MONAI docker dependency (#1731)

a462714

* Update MONAI Docker with OpenSlide dependencies Signed-off-by: Behrooz <3968947+behxyz@users.noreply.github.com> * Update cron job to install apt dependencies Signed-off-by: Behrooz <3968947+behxyz@users.noreply.github.com>

[1710] Gradcam eval (#1734)

d4c201e

* use eval for getting class_idx for gradcam

fixes unit test (#1735)

c362beb

* fixes unit test Signed-off-by: Wenqi Li <wenqil@nvidia.com> * fixes timed call tests Signed-off-by: Wenqi Li <wenqil@nvidia.com>

basic inverse API (#1720)

0b1fc4e

basic inverse API

improve decollate test for set_determinism (#1736)

c3e5a69

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

1236 integration test memory (#1738)

6d3bf2f

* addresses testing instance memory errors Signed-off-by: Wenqi Li <wenqil@nvidia.com>

1665 adjust localnet (#1752)

ce8f92a

* 1651 implement RegUNet Signed-off-by: kate-sann5100 <yiwen.li@st-annes.ox.ac.uk>

[DLMED] update WSIReader for typos and docs (#1758)

e001d2a

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

1742 Add DistributedWeightedRandomSampler (#1745)

21a3c16

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

Croppad inverse transform (#1737)

f56058d

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

TEST: Fix failing pytype check for predict_segmentation (#1762)

e17e158

Add __len__ for DistributedWeightedRandomSampler (#1766)

4670fd2

* [DLMED] add length API Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] remove replacement arg Signed-off-by: Nic Ma <nma@nvidia.com>

reduce randomly cropped amount to appease CI (#1769)

1badb41

* reduce randomly cropped amount to appease CI Signed-off-by: Richard Brown <33289025+rijobro@users.noreply.github.com> * fixes rand inverse Signed-off-by: Wenqi Li <wenqil@nvidia.com>

cgrain and others added 29 commits May 12, 2021 17:30

More efficient SmartCacheLoader (#2181)

4ef7d22

* better way of managing Cache Signed-off-by: Coen <coengruijt@gmail.com> * Update test_smartcachedataset.py Signed-off-by: Coen <coengruijt@gmail.com>

2099 - enhances dataloader/randomizable docstrings (#2188)

a5cf253

* fixes docstring Signed-off-by: Wenqi Li <wenqil@nvidia.com> * 2099 docstring updates Signed-off-by: Wenqi Li <wenqil@nvidia.com>

tested (#2192)

b94fe25

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

initial network consistency test (#2171)

e68af74

test network consistency

enhance norm and act layers (#2166)

29a0373

* enhance norm and act layers Signed-off-by: Yiheng Wang <vennw@nvidia.com> * write generic norm and act layers Signed-off-by: Yiheng Wang <vennw@nvidia.com> * Fix flake8 errors Signed-off-by: Yiheng Wang <vennw@nvidia.com>

update msg (#2197)

05e1ec2

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

Added Gibbs transform (#2163)

0e6f945

gibbs transform

enhance get layers API (#2199)

95726b0

* enhance get layers Signed-off-by: Wenqi Li <wenqil@nvidia.com> * codeformat/typo fixes Signed-off-by: Wenqi Li <wenqil@nvidia.com> * fixes type errors Signed-off-by: Wenqi Li <wenqil@nvidia.com>

fixes logo link (#2202)

bbca50d

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

Add warnings for inf/nan surface distance (#2205)

ca0bda1

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

allow sequence for network consistency (#2209)

fed0136

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

2041 - fixing main/releasing branch CI/CD; update contributing.md (#2123

e6258c9

)

cleaning allocated memory (#2216)

26ee695

Signed-off-by: chaliebudd <charles.budd@kcl.ac.uk> Co-authored-by: Wenqi Li <wenqil@nvidia.com>

array transforms inherit Transform (#2219)

ba03150

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

inverse adjust contrast (#2217)

4c6af53

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

improve error msg (#2229)

ebfd550

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

2172 caching grid for randaffine (#2228)

2fb4b21

* cache grid Signed-off-by: Wenqi Li <wenqil@nvidia.com> * update based on comments Signed-off-by: Wenqi Li <wenqil@nvidia.com> * adds cache tests Signed-off-by: Wenqi Li <wenqil@nvidia.com>

fix type for margin argument in CropForegroundd (#2234)

33539db

Signed-off-by: ambroslins <ambros.lins@gmail.com>

SaveImage print_log (#2237)

fac9350

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

2236 Fix the duplicated key issue in CopyItemsd transform (#2238)

81994d2

* [DLMED] fix CopyItemsd transform 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>

fixes network docs (#2240)

5d46589

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

Nic-Ma merged commit 44882b7 into Nic-Ma:2223-post-transform-handler May 25, 2021

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merge master#113

merge master#113
Nic-Ma merged 277 commits into
Nic-Ma:2223-post-transform-handlerfrom
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Nic-Ma commented May 25, 2021

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Nic-Ma commented May 25, 2021

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