merge master by Nic-Ma · Pull Request #159 · Nic-Ma/MONAI

Nic-Ma · 2021-07-05T14:46:08Z

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.

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

* [DLMED] metrics support a list of tensor Signed-off-by: Nic Ma <nma@nvidia.com> * update workflow test Signed-off-by: Wenqi Li <wenqil@nvidia.com> * [DLMED] fix engine.state.output dict copy issue Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] add num_workers Signed-off-by: Nic Ma <nma@nvidia.com> * fixes typos Signed-off-by: Wenqi Li <wenqil@nvidia.com> * update tests Signed-off-by: Wenqi Li <wenqil@nvidia.com> * update docstrings Signed-off-by: Wenqi Li <wenqil@nvidia.com> * tests Signed-off-by: Wenqi Li <wenqil@nvidia.com> Co-authored-by: Wenqi Li <wenqil@nvidia.com>

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

* handling error Signed-off-by: Wenqi Li <wenqil@nvidia.com> * temp test Signed-off-by: Wenqi Li <wenqil@nvidia.com> * fixes tests Signed-off-by: Wenqi Li <wenqil@nvidia.com> * Revert "temp test" This reverts commit 60661ae. Signed-off-by: Wenqi Li <wenqil@nvidia.com>

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

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

TTA progress bar, use torch for mode, add label meta_data

* follow up of #1992 Signed-off-by: Wenqi Li <wenqil@nvidia.com> * update spacing inverse Signed-off-by: Wenqi Li <wenqil@nvidia.com>

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

* [DLMED] add more tests Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] add nearest test cases Signed-off-by: Nic Ma <nma@nvidia.com>

* adds a what's new page Signed-off-by: Wenqi Li <wenqil@nvidia.com>

* [DLMED] add SaliencyInferer Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] enhance CAM logic Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] add unit tests Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] fix flake8 Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] fix typo Co-authored-by: Richard Brown <33289025+rijobro@users.noreply.github.com> Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] fix flake8 issue Signed-off-by: Nic Ma <nma@nvidia.com> Co-authored-by: Richard Brown <33289025+rijobro@users.noreply.github.com>

* [DLMED] enhance unit tests 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>

* [DLMED] add warning 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>

* Jupyter and other additions Signed-off-by: Eric Kerfoot <eric.kerfoot@kcl.ac.uk>

* allow slicing with SpatialCrop(d) Signed-off-by: Richard Brown <33289025+rijobro@users.noreply.github.com>

Signed-off-by: chaliebudd <charles.budd@kcl.ac.uk>

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

* [DLMED] add alias Signed-off-by: Nic Ma <nma@nvidia.com> * [MONAI] python code formatting Signed-off-by: monai-bot <monai.miccai2019@gmail.com> * [DLMED] add unit tests 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 more alias 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>

* Implement RandTorchVisionD Signed-off-by: Behrooz <3968947+behxyz@users.noreply.github.com> * Add unittest for RandTorchVisiond Signed-off-by: Behrooz <3968947+behxyz@users.noreply.github.com> * Update docs Signed-off-by: Behrooz <3968947+behxyz@users.noreply.github.com> * Formatting Signed-off-by: Behrooz <3968947+behxyz@users.noreply.github.com>

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

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

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

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

* [DLMED] check the label data for Tensor 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] add `device` and `to_tensor` args Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] add support for non-tensor output Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] remove detach.cpu Signed-off-by: Nic Ma <nma@nvidia.com>

no need for default orig_size stored for invertible transforms

Signed-off-by: Can Zhao <canz@nvidia.com>

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

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

#2455) * add clara_train_covid19_3d_ct_classification and clara_train_covid19_annotation_ct_lung_1 point to pt version of covid19 lung annotation model Signed-off-by: Holger Roth <hroth@nvidia.com>

* [DLMED] add pad options Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] add to dict transforms Signed-off-by: Nic Ma <nma@nvidia.com> * [MONAI] python code formatting Signed-off-by: monai-bot <monai.miccai2019@gmail.com> * [DLMED] update according to comments Signed-off-by: Nic Ma <nma@nvidia.com> Co-authored-by: monai-bot <monai.miccai2019@gmail.com>

Signed-off-by: ahatamizadeh <ahatamizadeh@nvidia.com>

* [DLMED] update ignite to 0.4.5 Signed-off-by: Nic Ma <nma@nvidia.com>

* [DLMED] add dynamic data list in CacheDataset Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] add support to PersistentDataset Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] fix flake8 issue Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] fix CI tests Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] enhance dataset 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] update_data -> set_data Signed-off-by: Nic Ma <nma@nvidia.com>

Signed-off-by: Holger Roth <hroth@nvidia.com>

…grow (#2442) Signed-off-by: vnath <vnath@nvidia.com>

…2315) * [WIP] 2220 Decollate batch into list of tensors after model forward (#2244) * [DLMED] add support for Activation transform Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] change all the array level post transforms to channel-first Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] update all the IO, utility, post transforms Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] update engines for list of dict Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] update all the event handlers Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] support non-batch data Signed-off-by: Nic Ma <nma@nvidia.com> * [MONAI] python code formatting Signed-off-by: monai-bot <monai.miccai2019@gmail.com> * [DLMED] update according to comments Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] update based on the latest APIs Signed-off-by: Nic Ma <nma@nvidia.com> Co-authored-by: monai-bot <monai.miccai2019@gmail.com> * [MONAI] python code formatting Signed-off-by: monai-bot <monai.miccai2019@gmail.com> * [DLMED] fix all the unit tests Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] fix unit tests Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] fix flake8 issues Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] remove unused import Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] fix flake8 issue Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] fix integration test Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] fix integration tests Signed-off-by: Nic Ma <nma@nvidia.com> * [MONAI] python code formatting Signed-off-by: monai-bot <monai.miccai2019@gmail.com> * [DLMED] fix integration tests 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 support to copy scalar Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] fix flake8 issue Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] fix wrong unit tests Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] fix doc issue Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] fix broken tests Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] fix unit tests Signed-off-by: Nic Ma <nma@nvidia.com> * [MONAI] python code formatting Signed-off-by: monai-bot <monai.miccai2019@gmail.com> * [DLMED] simplify CSV saver Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] update according to comments Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] add copy_scalar_to_batch util Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] fix flake8 issue Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] change to preprocessing and postprocessing Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] change file name to postprocessing Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] fix flake8 Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] fix typo in doc-string Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] add Decollated back Signed-off-by: Nic Ma <nma@nvidia.com> * [MONAI] python code formatting Signed-off-by: monai-bot <monai.miccai2019@gmail.com> * [DLMED] update according to comments Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] update to use ignite v0.4.5 metrics API Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] fix flake8 issue Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] fix conflicts Signed-off-by: Nic Ma <nma@nvidia.com> * [MONAI] python code formatting Signed-off-by: monai-bot <monai.miccai2019@gmail.com> * fixes #2452 Signed-off-by: Wenqi Li <wenqil@nvidia.com> Co-authored-by: monai-bot <monai.miccai2019@gmail.com>

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

* enhance version compare Signed-off-by: Wenqi Li <wenqil@nvidia.com> * update Signed-off-by: Wenqi Li <wenqil@nvidia.com> * remove unused Signed-off-by: Wenqi Li <wenqil@nvidia.com> * remove unused vars Signed-off-by: Wenqi Li <wenqil@nvidia.com> * update debug info Signed-off-by: Wenqi Li <wenqil@nvidia.com> * temp tests Signed-off-by: Wenqi Li <wenqil@nvidia.com> * non integer comparison Signed-off-by: Wenqi Li <wenqil@nvidia.com> * adds tests Signed-off-by: Wenqi Li <wenqil@nvidia.com> * no temp tests Signed-off-by: Wenqi Li <wenqil@nvidia.com> * update test Signed-off-by: Wenqi Li <wenqil@nvidia.com> Co-authored-by: Nic Ma <nma@nvidia.com>

* [DLMED] add deprecated decorator Signed-off-by: Nic Ma <nma@nvidia.com> * [MONAI] python code formatting Signed-off-by: monai-bot <monai.miccai2019@gmail.com> * [DLMED] update according to comments Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] enhance doc-string Signed-off-by: Nic Ma <nma@nvidia.com> Co-authored-by: monai-bot <monai.miccai2019@gmail.com>

Signed-off-by: Jeff VanOss <jeff.vanoss@bamfhealth.com>

* [DLMED] add support to compare metrics 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>

* add UNETR, ViT Signed-off-by: ahatamizadeh <ahatamizadeh@nvidia.com> * add UNETR, ViT Signed-off-by: ahatamizadeh <ahatamizadeh@nvidia.com> * add UNETR, ViT Signed-off-by: ahatamizadeh <ahatamizadeh@nvidia.com> * add UNETR, ViT Signed-off-by: ahatamizadeh <ahatamizadeh@nvidia.com> * add UNETR, ViT Signed-off-by: ahatamizadeh <ahatamizadeh@nvidia.com> * add UNETR, ViT Signed-off-by: ahatamizadeh <ahatamizadeh@nvidia.com> * add UNETR, ViT Signed-off-by: ahatamizadeh <ahatamizadeh@nvidia.com>

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

* [DLMED] fix PatchEmbeddingBlock Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] correct typehint Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] fix pos_embed and Rearrange types Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] fix nn.module Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] fix vit Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] update docs Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] fix UNetr Signed-off-by: Nic Ma <nma@nvidia.com>

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

* 21.04->21.06 Signed-off-by: Wenqi Li <wenqil@nvidia.com> * temp tests Signed-off-by: Wenqi Li <wenqil@nvidia.com> * temp test Signed-off-by: Wenqi Li <wenqil@nvidia.com> * Revert "temp test" This reverts commit f5385c2. Signed-off-by: Wenqi Li <wenqil@nvidia.com> * Revert "temp tests" This reverts commit 4468dcc. Signed-off-by: Wenqi Li <wenqil@nvidia.com> * update version number Signed-off-by: Wenqi Li <wenqil@nvidia.com>

* [DLMED] add ignite dist support Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] fix flake8 Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] fix typo Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] change key_metric_score_sign to a bool flag Signed-off-by: Nic Ma <nma@nvidia.com> * [MONAI] python code formatting Signed-off-by: monai-bot <monai.miccai2019@gmail.com> * [DLMED] update according to comments Signed-off-by: Nic Ma <nma@nvidia.com> Co-authored-by: monai-bot <monai.miccai2019@gmail.com>

* [DLMED] add decollate logic Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] fix plot Signed-off-by: Nic Ma <nma@nvidia.com> * [MONAI] python code formatting Signed-off-by: monai-bot <monai.miccai2019@gmail.com> * [DLMED] update classification integration test Signed-off-by: Nic Ma <nma@nvidia.com> * [MONAI] python code formatting Signed-off-by: monai-bot <monai.miccai2019@gmail.com> * [DLMED] restore decollate logic 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] fix strict_shape Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] add warning message Signed-off-by: Nic Ma <nma@nvidia.com> * [MONAI] python code formatting Signed-off-by: monai-bot <monai.miccai2019@gmail.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] add links Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] Enhance doc-strings Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] enhance CI tests 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> Co-authored-by: monai-bot <monai.miccai2019@gmail.com>

* [DLMED] make get_model_spec API Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] unit tests Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] fix flake8 issue Signed-off-by: Nic Ma <nma@nvidia.com>

…2518) * [DLMED] update lr_scheduler links Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] update all the other links Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] fix typo Signed-off-by: Nic Ma <nma@nvidia.com>

kate-sann5100 and others added 30 commits April 10, 2021 15:50

test runner (#1986)

a625d38

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

add timeout (#1989)

f5d5737

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

1889 update preview version number (#1991)

b4d8780

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

fix comprehension error (#1995)

d1f4e6f

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

TTA progress bar, use torch for mode, add label meta_data (#1992)

b3eb73a

TTA progress bar, use torch for mode, add label meta_data

include meta when inverting (#1997)

d72f61e

* follow up of #1992 Signed-off-by: Wenqi Li <wenqil@nvidia.com> * update spacing inverse Signed-off-by: Wenqi Li <wenqil@nvidia.com>

update (#2000)

2707407

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

Add more test for nearest interpolation in TransformInverter (#2001)

583e35b

* [DLMED] add more tests Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] add nearest test cases Signed-off-by: Nic Ma <nma@nvidia.com>

2003 - adds a what's new page (#2005)

2c6d688

* adds a what's new page Signed-off-by: Wenqi Li <wenqil@nvidia.com>

2007 Enhance the unit tests of MapLabelValue transform (#2008)

5f47407

* [DLMED] enhance unit tests 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>

2011 Add warning for resample in SegnmentationSaver (#2013)

88806e1

* [DLMED] add warning 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>

Plot engine fix (#2015)

357e6d4

* Jupyter and other additions Signed-off-by: Eric Kerfoot <eric.kerfoot@kcl.ac.uk>

allow slicing with SpatialCrop(d) (#1954)

9f4da6a

* allow slicing with SpatialCrop(d) Signed-off-by: Richard Brown <33289025+rijobro@users.noreply.github.com>

raising error tolerance to prevent rare failure (#2025)

abcca9b

Signed-off-by: chaliebudd <charles.budd@kcl.ac.uk>

fixes tutorial issue 183 (#2031)

9f409c1

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

[DLMED] enhance error message (#2038)

a7a9430

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

2032 Add more alias for other networks (#2040)

170fc91

* [DLMED] add more alias 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>

[DLMED] add post_func arg (#2049)

fc1546a

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

update docstring example (#2055)

de677ca

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

fixes tutorial issue 184 (#2053)

14976b5

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

Update cucim to 0.19.0 (#2057)

8057ae8

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

2044 Add check for label data type (#2060)

13bf996

* [DLMED] check the label data for Tensor Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] update according to comments Signed-off-by: Nic Ma <nma@nvidia.com>

[DLMED] enhance metrics (#2061)

51ecc48

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

rijobro and others added 29 commits June 25, 2021 13:06

no need for default orig_size stored for invertible transforms (#2441)

6401c5e

no need for default orig_size stored for invertible transforms

add annotation for brain and spleen (#2448)

079fcd4

Signed-off-by: Can Zhao <canz@nvidia.com>

Fix docstring error (#2461)

eb29e99

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

2453 Enhance ToTensor transform to support data with no dim (#2454)

9f9b63a

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

add clara_train_covid19_3d_ct_classification and clara_train_covid19_… (

1a707f0

#2455) * add clara_train_covid19_3d_ct_classification and clara_train_covid19_annotation_ct_lung_1 point to pt version of covid19 lung annotation model Signed-off-by: Holger Roth <hroth@nvidia.com>

update_model_desc_prostate_spleen (#2466)

7b08d40

Signed-off-by: ahatamizadeh <ahatamizadeh@nvidia.com>

2399 update ignite to v0.4.5 (#2451)

91ea1b6

* [DLMED] update ignite to 0.4.5 Signed-off-by: Nic Ma <nma@nvidia.com>

update clara_pt_covid19_3d_ct_classification model description (#2472)

cdf05b0

Signed-off-by: Holger Roth <hroth@nvidia.com>

Model Description in apps/mmars updated with NGC description for Deep…

0aa936f

…grow (#2442) Signed-off-by: vnath <vnath@nvidia.com>

2273 update model items (#2473)

f831c7f

Update blossom-ci.yml (#2484)

50d8391

match keys in doc code examples (#2469)

11af59a

Signed-off-by: Jeff VanOss <jeff.vanoss@bamfhealth.com>

update google drive links (#2491)

f4894bb

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

fixes pillow version (#2503)

ce45640

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

2512 Make get_model_spec API (#2515)

f3d436a

* [DLMED] make get_model_spec API Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] unit tests Signed-off-by: Nic Ma <nma@nvidia.com> * [DLMED] fix flake8 issue Signed-off-by: Nic Ma <nma@nvidia.com>

Nic-Ma merged commit abc9546 into Nic-Ma:2511-add-ensure-tensor Jul 5, 2021

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merge master#159

merge master#159
Nic-Ma merged 419 commits into
Nic-Ma:2511-add-ensure-tensorfrom
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Nic-Ma commented Jul 5, 2021

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