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Spatially chunked and sharding compatible annotation writer #522

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40d27b9
initial sharding compatible version using cloudvolume
fcollman Jan 28, 2024
aa0b558
make cloud volume import optional
fcollman Jan 30, 2024
04e623b
changed to write via tensorstore
fcollman Jan 31, 2024
b058f78
formatting fixes
fcollman Jan 31, 2024
331b523
spatial sharding WIP
fcollman Feb 1, 2024
196f8b5
fix big endian encoding of spatial index and description
fcollman Feb 2, 2024
074b6e2
formatting fixes
fcollman Feb 2, 2024
7862de0
change shard spec to NamedTuple
fcollman Feb 2, 2024
4e6ebb8
make tensorstore import optional
fcollman Feb 2, 2024
29e9f75
fixing typing errors
fcollman Feb 3, 2024
6efd7bc
fixing type hinting
fcollman Feb 3, 2024
8c9169a
fixing lint issues
fcollman Feb 3, 2024
949f22b
fix more linting
fcollman Feb 3, 2024
fd77f40
fixing import linting
fcollman Feb 3, 2024
3bc1a64
fix: numpy.cast removal
fcollman Feb 3, 2024
dc2fd57
another import block fix
fcollman Feb 3, 2024
cd1e0dd
ruff formatting
fcollman Feb 4, 2024
5ce8665
feat: dynamic lower bounds
fcollman Feb 4, 2024
8f08c24
removing annotation reader
fcollman Feb 4, 2024
f147932
remove unused max annotations
fcollman Feb 4, 2024
e6211c0
make chunk_size default dynamic to size of the coordinate system
fcollman Feb 4, 2024
38eb529
fixing mypy with cast
fcollman Feb 4, 2024
073573b
mypy fix: value error print formatting
fcollman Feb 4, 2024
aece02d
fix doc string
fcollman Feb 7, 2024
d8aa858
fix chunk_size typing
fcollman Feb 7, 2024
34ac02a
renaming chunk size
fcollman Feb 7, 2024
b15286b
add better handling of multiple point annotations
fcollman Feb 8, 2024
d073bea
adding ellipsoid
fcollman Feb 8, 2024
75ba944
fix ellipsoid logic
fcollman Feb 8, 2024
a2c1932
fixing typing
fcollman Feb 8, 2024
ed4761a
ruff formatting
fcollman Feb 8, 2024
bbabf64
fix: relationship key encoded incorrectly
fcollman Feb 11, 2024
524cca2
fixing dtypes of chunk size
fcollman Feb 13, 2024
5f80c3c
fix: missing related IDs in by_id index
fcollman Feb 14, 2024
987659e
fix: typo
fcollman Feb 14, 2024
ca9f066
bugfix: byid endian encoding fix
fcollman Feb 14, 2024
8119007
fixing np.asarray case
fcollman Feb 14, 2024
fcd47a6
fix single layer chunks
fcollman Feb 16, 2024
667d203
fixing chunk size for single planes
fcollman Feb 16, 2024
cf5579e
fix num_chunks
fcollman Feb 16, 2024
20c40e6
fixing spatial indices for points
fcollman Feb 18, 2024
e6398e8
fixed sharded spatial index writing
fcollman Feb 18, 2024
afbc23d
generlizing spatial bins with rtree
fcollman Feb 18, 2024
a8c7a0f
improved generalization of upper and lower bound
fcollman Feb 19, 2024
2a5eeea
remove comments, add sharded option, fix generator
fcollman Feb 19, 2024
1d502ee
adding rtree dependancy
fcollman Feb 19, 2024
a781732
switch to sharded writing as default
fcollman Feb 20, 2024
066b801
removing chunks with no items
fcollman Feb 22, 2024
109726a
Merge branch 'master' into annotationwriter_improvements
fcollman Apr 13, 2024
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