v2.5.3

What's Changed

• ENH: Bump version to 2.5.3 by @Leengit in #139

Full Changelog: v2.5.1...v2.5.3

v2.5.0

What's Changed

• issue 131 try to use tiff source first by @cooperlab in #132
• Arrange imports with isort by @Leengit in #133
• ENH: Make tensorflow,torch,zarr packages optional by @Leengit in #135

Full Changelog: v2.4.0...v2.5.0

v2.4.0

What's Changed

• Use (int, np.integer) in isinstance by @cooperlab in #126
• BUG: Allow types np.integer and np.floating by @Leengit in #127
• ENH: Return level as type int if it is very close to an integer by @Leengit in #128
• TEST: Add scripts for performance profiling by @Leengit in #129
• ENH: Bump version to 2.4.0 by @Leengit in #130

Full Changelog: v2.3.3...v2.4.0

v2.3.3

What's Changed

• TEST: Add test for mask, imports by @Leengit in #120
• ENH: Make test_mask.py work with older histomics_stream versions by @Leengit in #121
• PERF: Check for mask non-zero more efficiently by @Leengit in #123
• ENH: Check file name suffix for large_image_source_tiff by @Leengit in #122
• ENH: Bump version to 2.3.3 by @Leengit in #124

Full Changelog: v2.3.2...v2.3.3

v2.3.2

What's Changed

• ENH: Add scipy as dependency by @Leengit in #119

Full Changelog: v2.3.1...v2.3.2

v2.3.1

What's Changed

• COMP: git ignore .ipynb_checkpoints/ and pycache/ by @Leengit in #116
• BUG: Slide height and width confusion by @Leengit in #118

Full Changelog: v2.3.0...v2.3.1

v2.3.0

What's Changed

• ENH: Remove deprecated --use-feature=in-tree-build
• ENH: Versions as strings, not numbers, so that 3.1 != 3.10, etc.
• COMP: Use numpy<1.24 so that np.bool* used by other packages does not give errors
• STYLE: Simplify study dictionary keys
• COMP: Use current versions of flake8, itk, pytest
• ENH: Bump version to 2.3.0
• ENH: Make predictions with wrapped model
• ENH: Implement CreateTorchDataloader
• ENH: Spin off read_large_image functionality from CreateTensorFlowDataset
• ENH: Remove Tensorflow from framework-agnostic functionality
• ENH: Spin off ChunkLocations functionality from CreateTensorFlowDataset
• ENH: Add tensorflow (cpu & gpu) as dependency
• STYLE: Format Python with black -C
• BUG: Upper bound of mask_threshold is 1.0 not 1.1
• ENH: Demonstrate predictions in pytorch_stream.ipynb
• STYLE: Simplify study dictionary keys
• STYLE: Shorten variable names
• ENH: Support both deprecated and current keys in study_description
• ENH: Concatenate tensorflow.Datasets more performantly
• DOC: Simplify study dictionary creation
• ENH: Record overlap_width and overlap_height in study dictionary
• ENH: Add get_tiles method to get just tiles from a study dictionary
• PERF: Make _py_read_chunk be @staticmethod
• PERF: Support num_workers and worker_index in CreateTensorFlowDataset
• PERF: More efficiently create input to tf.data.Dataset.from_tensor_slices
• PERF: Use large_image_source_tiff to read a chunk from disk
• PERF: Use N log N approach for splitting tiles into chunks
• STYLE: Remove unused code for tensorflow.data.Dataset.from_generator
• PERF: Avoid large-memory intermediates when building one_chunk_per_slice
• PERF: Have tensorflow.py_function implicitly convert response to a tensor
• PERF: Create frequently used tensorflow.constant values only once
• PERF: Convert some class methods to @staticmethod
• PERF: Replace some for loops with Python comprehensions
• BUG: Limit private_threadpool_size to 1 to keep Tensorflow from freezing on GPU
• ENH: update pooch links - pytorch
• BUG: Fix confusion between mask width and height
• PERF: Use numpy/scipy/itertools instead of loops/comprehensions for masks
• COMP: Placate Python 3.6, which cannot handle dtype=(np.int64, (2,))
• COMP: Install Python package large_image[tiff]

New Contributors

• @cooperlab made their first contribution in #114

Full Changelog: v2.2.4...v2.3.0

v2.2.4

What's Changed

• Large image by @Leengit in #70
• DOC: Describe the Python study dict by @Leengit in #71
• DOC: Show internals, image in tensorflow_stream.ipynb by @Leengit in #72
• DOC: Explain keys of chunks dictionary by @Leengit in #73
• DOC: Clarify returned_magnification by @Leengit in #77
• ENH: Explicitly apt install libcudnn8 libcudnn8-dev by @Leengit in #78
• DOC: Clear output of the example installation cell by @Leengit in #81

Full Changelog: v2.2.3...v2.2.4

v2.2.3

What's Changed

• ENH: Bump version to 2.2.3 by @Leengit in #68
• ENH: Use large_image for NDPI, etc., not just SVS files by @Leengit in #69

Full Changelog: v2.2.2...v2.2.3

v2.2.2

What's Changed

• ENH: Bump version to 2.2.2 by @Leengit in #65
• DOC: Change mentions of repository name from histomics_stream to HistomicsStream by @Leengit in #66
• ENH: Find histomics_detect on PyPI by @Leengit in #67

Full Changelog: v2.2.1...v2.2.2