spatialcore 0.2.2__tar.gz → 0.2.4__tar.gz

This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
Files changed (51) hide show
  1. {spatialcore-0.2.2 → spatialcore-0.2.4}/PKG-INFO +1 -1
  2. {spatialcore-0.2.2 → spatialcore-0.2.4}/pyproject.toml +1 -1
  3. {spatialcore-0.2.2 → spatialcore-0.2.4}/src/spatialcore/__init__.py +1 -1
  4. {spatialcore-0.2.2 → spatialcore-0.2.4}/src/spatialcore/annotation/training.py +2 -1
  5. {spatialcore-0.2.2 → spatialcore-0.2.4}/src/spatialcore/annotation/validation.py +2 -0
  6. {spatialcore-0.2.2 → spatialcore-0.2.4}/src/spatialcore.egg-info/PKG-INFO +1 -1
  7. {spatialcore-0.2.2 → spatialcore-0.2.4}/LICENSE +0 -0
  8. {spatialcore-0.2.2 → spatialcore-0.2.4}/README.md +0 -0
  9. {spatialcore-0.2.2 → spatialcore-0.2.4}/setup.cfg +0 -0
  10. {spatialcore-0.2.2 → spatialcore-0.2.4}/src/spatialcore/annotation/__init__.py +0 -0
  11. {spatialcore-0.2.2 → spatialcore-0.2.4}/src/spatialcore/annotation/acquisition.py +0 -0
  12. {spatialcore-0.2.2 → spatialcore-0.2.4}/src/spatialcore/annotation/annotate.py +0 -0
  13. {spatialcore-0.2.2 → spatialcore-0.2.4}/src/spatialcore/annotation/cellxgene.py +0 -0
  14. {spatialcore-0.2.2 → spatialcore-0.2.4}/src/spatialcore/annotation/confidence.py +0 -0
  15. {spatialcore-0.2.2 → spatialcore-0.2.4}/src/spatialcore/annotation/discovery.py +0 -0
  16. {spatialcore-0.2.2 → spatialcore-0.2.4}/src/spatialcore/annotation/expression.py +0 -0
  17. {spatialcore-0.2.2 → spatialcore-0.2.4}/src/spatialcore/annotation/loading.py +0 -0
  18. {spatialcore-0.2.2 → spatialcore-0.2.4}/src/spatialcore/annotation/markers.py +0 -0
  19. {spatialcore-0.2.2 → spatialcore-0.2.4}/src/spatialcore/annotation/ontology.py +0 -0
  20. {spatialcore-0.2.2 → spatialcore-0.2.4}/src/spatialcore/annotation/patterns.py +0 -0
  21. {spatialcore-0.2.2 → spatialcore-0.2.4}/src/spatialcore/annotation/pipeline.py +0 -0
  22. {spatialcore-0.2.2 → spatialcore-0.2.4}/src/spatialcore/annotation/synapse.py +0 -0
  23. {spatialcore-0.2.2 → spatialcore-0.2.4}/src/spatialcore/core/__init__.py +0 -0
  24. {spatialcore-0.2.2 → spatialcore-0.2.4}/src/spatialcore/core/cache.py +0 -0
  25. {spatialcore-0.2.2 → spatialcore-0.2.4}/src/spatialcore/core/logging.py +0 -0
  26. {spatialcore-0.2.2 → spatialcore-0.2.4}/src/spatialcore/core/metadata.py +0 -0
  27. {spatialcore-0.2.2 → spatialcore-0.2.4}/src/spatialcore/core/utils.py +0 -0
  28. {spatialcore-0.2.2 → spatialcore-0.2.4}/src/spatialcore/data/gene_mappings/ensembl_to_hugo_human.tsv +0 -0
  29. {spatialcore-0.2.2 → spatialcore-0.2.4}/src/spatialcore/data/markers/canonical_markers.json +0 -0
  30. {spatialcore-0.2.2 → spatialcore-0.2.4}/src/spatialcore/data/ontology_mappings/ontology_index.json +0 -0
  31. {spatialcore-0.2.2 → spatialcore-0.2.4}/src/spatialcore/plotting/__init__.py +0 -0
  32. {spatialcore-0.2.2 → spatialcore-0.2.4}/src/spatialcore/plotting/benchmark.py +0 -0
  33. {spatialcore-0.2.2 → spatialcore-0.2.4}/src/spatialcore/plotting/celltype.py +0 -0
  34. {spatialcore-0.2.2 → spatialcore-0.2.4}/src/spatialcore/plotting/confidence.py +0 -0
  35. {spatialcore-0.2.2 → spatialcore-0.2.4}/src/spatialcore/plotting/spatial.py +0 -0
  36. {spatialcore-0.2.2 → spatialcore-0.2.4}/src/spatialcore/plotting/utils.py +0 -0
  37. {spatialcore-0.2.2 → spatialcore-0.2.4}/src/spatialcore/plotting/validation.py +0 -0
  38. {spatialcore-0.2.2 → spatialcore-0.2.4}/src/spatialcore/r_bridge/__init__.py +0 -0
  39. {spatialcore-0.2.2 → spatialcore-0.2.4}/src/spatialcore/r_bridge/subprocess_runner.py +0 -0
  40. {spatialcore-0.2.2 → spatialcore-0.2.4}/src/spatialcore/spatial/__init__.py +0 -0
  41. {spatialcore-0.2.2 → spatialcore-0.2.4}/src/spatialcore/spatial/autocorrelation.py +0 -0
  42. {spatialcore-0.2.2 → spatialcore-0.2.4}/src/spatialcore/spatial/distance.py +0 -0
  43. {spatialcore-0.2.2 → spatialcore-0.2.4}/src/spatialcore/spatial/domains.py +0 -0
  44. {spatialcore-0.2.2 → spatialcore-0.2.4}/src/spatialcore/spatial/neighborhoods.py +0 -0
  45. {spatialcore-0.2.2 → spatialcore-0.2.4}/src/spatialcore/stats/__init__.py +0 -0
  46. {spatialcore-0.2.2 → spatialcore-0.2.4}/src/spatialcore/stats/_thresholding.py +0 -0
  47. {spatialcore-0.2.2 → spatialcore-0.2.4}/src/spatialcore/stats/classify.py +0 -0
  48. {spatialcore-0.2.2 → spatialcore-0.2.4}/src/spatialcore.egg-info/SOURCES.txt +0 -0
  49. {spatialcore-0.2.2 → spatialcore-0.2.4}/src/spatialcore.egg-info/dependency_links.txt +0 -0
  50. {spatialcore-0.2.2 → spatialcore-0.2.4}/src/spatialcore.egg-info/requires.txt +0 -0
  51. {spatialcore-0.2.2 → spatialcore-0.2.4}/src/spatialcore.egg-info/top_level.txt +0 -0
{spatialcore-0.2.2 → spatialcore-0.2.4}/PKG-INFO RENAMED
@@ -1,6 +1,6 @@
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  Metadata-Version: 2.4
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  Name: spatialcore
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- Version: 0.2.2
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+ Version: 0.2.4
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  Summary: Standardized spatial statistics tools for computational biology
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  Author: SpatialCore Contributors
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  License-Expression: Apache-2.0
{spatialcore-0.2.2 → spatialcore-0.2.4}/pyproject.toml RENAMED
@@ -4,7 +4,7 @@ build-backend = "setuptools.build_meta"
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  [project]
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  name = "spatialcore"
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- version = "0.2.2"
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+ version = "0.2.4"
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  description = "Standardized spatial statistics tools for computational biology"
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  readme = "README.md"
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  license = "Apache-2.0"
{spatialcore-0.2.2 → spatialcore-0.2.4}/src/spatialcore/__init__.py RENAMED
@@ -5,7 +5,7 @@ A thin, robust wrapper around standard libraries to ensure Python and R users
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  get the exact same result for the same biological question.
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  """
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- __version__ = "0.2.2"
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+ __version__ = "0.2.4"
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  # Track which modules are available in this installation
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  _available_modules: list[str] = []
{spatialcore-0.2.2 → spatialcore-0.2.4}/src/spatialcore/annotation/training.py RENAMED
@@ -366,7 +366,8 @@ def combine_references(
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  and adata.raw is not None
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  and not adata.raw.var_names.equals(adata.var_names)
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  ):
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- adata.raw = adata.raw[:, adata.var_names].copy()
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+ raw_adata = adata.raw.to_adata()[:, adata.var_names].copy()
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+ adata.raw = raw_adata
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  adata = ensure_normalized(adata, copy=False)
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  logger.info(f" {source_name}: applied log1p(10k) normalization")
{spatialcore-0.2.2 → spatialcore-0.2.4}/src/spatialcore/annotation/validation.py RENAMED
@@ -349,6 +349,8 @@ def validate_cell_type_column(
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  return result
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+ return result
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+
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  @dataclass
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  class LabelOntologyConsistencyResult:
{spatialcore-0.2.2 → spatialcore-0.2.4}/src/spatialcore.egg-info/PKG-INFO RENAMED
@@ -1,6 +1,6 @@
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  Metadata-Version: 2.4
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  Name: spatialcore
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- Version: 0.2.2
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+ Version: 0.2.4
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  Summary: Standardized spatial statistics tools for computational biology
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  Author: SpatialCore Contributors
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  License-Expression: Apache-2.0
{spatialcore-0.2.2 → spatialcore-0.2.4}/LICENSE RENAMED
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{spatialcore-0.2.2 → spatialcore-0.2.4}/README.md RENAMED
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{spatialcore-0.2.2 → spatialcore-0.2.4}/setup.cfg RENAMED
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