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merge master#244

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Nic-Ma merged 95 commits intoNic-Ma:3114-add-fast-integration-testNic-Ma/MONAI:3114-add-fast-integration-testfrom Project-MONAI:devProject-MONAI/MONAI:devCopy head branch name to clipboardOct 13, 2021

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Commits on Sep 8, 2021

• 2901 ndim -> spatial_dims (#2903)

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• 2898 Merge LocalPatchShuffle with RandCoarseDropout (#2907)

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Commits on Sep 9, 2021

• Torch Zoom (#2916)

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• Torch RandRotate90 (#2915)

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Commits on Sep 10, 2021

• CuPy to Tensor (#2919)

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• [DLMED] add dict version shuffle (#2918)

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Commits on Sep 11, 2021

• Add device to ToTensor (#2926)

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Commits on Sep 12, 2021

• 2920 Enhance padding mode for Tensor data (#2921)

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Commits on Sep 13, 2021

• fixes #2939 (#2940)

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• enhance docstring (#2938)

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• [DLMED] enhance scale intensity transforms (#2941)

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• 2715 enhance resnet downsampling block (#2937)

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• ThresholdIntensity, ThresholdIntensityd (#2944)

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• Add dropout arg in DynUNet init (#2947)

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• 2925 Add device option to EnsureType (#2942)

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Commits on Sep 14, 2021

• ScaleIntensityRange, ScaleIntensityRanged, ScaleIntensityRangePercentiles, ScaleIntensityRangePercentilesd (#2943)

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• Rotate, Rotated, RandRotate, RandRotated (#2945)

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• AffineGrid, RandAffineGrid, Resample, Affine, RandAffine, Affined, RandAffined, Rand2dElastic, Rand3dElastic, Rand2dElasticd, Rand3dElasticd (#2922)

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• All transforms support torch and numpy (#2949)

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Commits on Sep 15, 2021

• Add dtype to ToCupy (#2950)

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• 2948 Enhance the transform to delete items (#2952)

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• 2951 Optimize type_conversion logic (#2955)

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• 2231 Fixes tutorial 353 (#2954)

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Commits on Sep 16, 2021

• [DLMED] fix float64 bug (#2961)

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• add multi-modal (vision + language) transformers (#2962)

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• Torch: map_binary_to_indices, map_classes_to_indices, correct_crop_centers, generate_pos_neg_label_crop_centers, generate_label_classes_crop_centers (#2958)

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• cuCIM Transform (#2932)

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• torch SpatialCrop, SpatialCropd (#2963)

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• Update with cupy.ndarray (#2965)

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• Fix for Jupyter plotting (#2964)

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Commits on Sep 17, 2021

• fixes tutorial issue 352 (#2968)

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• 2231 Enhance tensor transforms (#2966)

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Commits on Sep 19, 2021

• Torch RandCropByPosNegLabel, RandCropByPosNegLabeld, RandCropByLabelClasses, RandCropByLabelClassesd (#2967)

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Commits on Sep 20, 2021

• enhance affinegrid to use torch backend (#2969)

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• Add make the name of wsi reader lowercase (#2973)

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• update multimodal doc and model names (Transchex) (#2979)

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• 2914 remove the deprecated API for v0.7 (#2981)

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Commits on Sep 21, 2021

• 2985 - enhance nightly test (#2986)

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• dimension check for pretrained model weights (#2984)

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Commits on Sep 22, 2021

• Refactor unnecessary else / elif when if block has a return statement (#2996)

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• 3000 Support not copy in CacheDataset (#3001)

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• 3002 - compatibility with torch 1.9.1 (#3003)

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• Fix cucim dep compatibility (#3006)

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Commits on Sep 23, 2021

• update cucim dep (#3007)

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• [DLMED] fix CI test (#3008)

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• 3009 Update highlights web page (#3013)

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

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Commits on Sep 24, 2021

• delaying the removal (#3015)

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• update preview version tag (#3016)

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• Enhance 0.7 README doc (#3017)

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• 3020 Enhance what's new for transfomer networks (#3019)

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• Torch GaussianSmooth, RandGaussianSmooth, GaussianSharpen, RandGaussianSharpen (#2971)

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Commits on Sep 25, 2021

• apply pyupgrade (#3026)

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Commits on Sep 27, 2021

• 3018 enhance version string check (#3022)

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• 3028 update ignite CI tests to 0.4.6 (#3029)

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Commits on Sep 28, 2021

• enhance DataStats to include dtype (#3043)

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• enhance error handling (#3042)

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Commits on Sep 29, 2021

• 2792 - Torch GibbsNoise, RandGibbsNoise, KSpaceSpikeNoise, RandKSpaceSpikeNoise (#2974)

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• AdjustContrast, AdjustContrastd, RandAdjustContrast, RandAdjustContrastd (#3044)

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• remove false positive tests (#3046)

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• Torch Spacing, Spacingd (#3045)

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Commits on Sep 30, 2021

• 2975 torch fgbgtoindices (#3038)

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• 3051 Fix dtype issue in Spacing transform (#3052)

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• Create transform images (#3039)

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Commits on Oct 1, 2021

• 2975 Fix the perf issue of RandCropByPosNegLabel (#3050)

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Commits on Oct 2, 2021

• [DLMED] fix broken link (#3059)

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Commits on Oct 3, 2021

• remove redundant noqa (#3027)

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Commits on Oct 4, 2021

• [DLMED] enhance label classes (#3061)

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• [DLMED] enhance ScaleIntensity (#3062)

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• Extra transform examples (#3056)

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• update backend (#3065)

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

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• Ae docs (#3067)

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Commits on Oct 5, 2021

• [pre-commit.ci] pre-commit suggestions (#3069)

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• update workflow (#3073)

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• correct panelled example images (#3068)

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• 2755 Add b-spline kernel option (#2847)

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Commits on Oct 6, 2021

• daily tests for mmar loading (#3066)

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Commits on Oct 7, 2021

• fixes mmar tests (#3077)

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• 2231 enhances a few transform backends (#3075)

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• [DLMED] add more tests (#3080)

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• 2357 Fixes unit test cases to run on GA100 (#3072)

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Commits on Oct 8, 2021

• fix densenet264 error (#3081)

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• fixes figures (#3083)

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• fixes rst format issues (#3088)

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• oneof doc (#3090)

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• 3082 Enhance heavy random computation of transforms (#3086)

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• Torch CropForeground, HistogramNormalize, RandHistogramShift (#3079)

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Commits on Oct 9, 2021

• [DLMED] fix wrong doc-string (#3096)

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Commits on Oct 11, 2021

• 2998 Add MLFlowHandler (#3099)

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• KeepLargestConnectedComponent(d) example transforms (#3108)

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Commits on Oct 12, 2021

• Torch AddCoordinateChannels, ExtremePointsChannel, RandWeightedCrop (#3078)

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• Fix wrong doc-strings in several handlers (#3109)

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• 3097 - deprecated_arg replacing name (#3107)

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• 3087 enhance usage of intensity RandomizableTransform (#3094)

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