spatialdata-io 0.1.3__tar.gz → 0.1.3.post0__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 (65) hide show
  1. {spatialdata_io-0.1.3 → spatialdata_io-0.1.3.post0}/.pre-commit-config.yaml +3 -3
  2. {spatialdata_io-0.1.3 → spatialdata_io-0.1.3.post0}/PKG-INFO +2 -2
  3. {spatialdata_io-0.1.3 → spatialdata_io-0.1.3.post0}/_version.py +1 -1
  4. {spatialdata_io-0.1.3 → spatialdata_io-0.1.3.post0}/pyproject.toml +1 -1
  5. {spatialdata_io-0.1.3 → spatialdata_io-0.1.3.post0}/src/spatialdata_io/readers/mcmicro.py +1 -1
  6. {spatialdata_io-0.1.3 → spatialdata_io-0.1.3.post0}/.bumpversion.cfg +0 -0
  7. {spatialdata_io-0.1.3 → spatialdata_io-0.1.3.post0}/.codecov.yaml +0 -0
  8. {spatialdata_io-0.1.3 → spatialdata_io-0.1.3.post0}/.editorconfig +0 -0
  9. {spatialdata_io-0.1.3 → spatialdata_io-0.1.3.post0}/.flake8 +0 -0
  10. {spatialdata_io-0.1.3 → spatialdata_io-0.1.3.post0}/.github/codecov.yml +0 -0
  11. {spatialdata_io-0.1.3 → spatialdata_io-0.1.3.post0}/.github/workflows/build.yaml +0 -0
  12. {spatialdata_io-0.1.3 → spatialdata_io-0.1.3.post0}/.github/workflows/prepare_test_data.yaml +0 -0
  13. {spatialdata_io-0.1.3 → spatialdata_io-0.1.3.post0}/.github/workflows/release.yaml +0 -0
  14. {spatialdata_io-0.1.3 → spatialdata_io-0.1.3.post0}/.github/workflows/test.yaml +0 -0
  15. {spatialdata_io-0.1.3 → spatialdata_io-0.1.3.post0}/.gitignore +0 -0
  16. {spatialdata_io-0.1.3 → spatialdata_io-0.1.3.post0}/.mypy.ini +0 -0
  17. {spatialdata_io-0.1.3 → spatialdata_io-0.1.3.post0}/.readthedocs.yaml +0 -0
  18. {spatialdata_io-0.1.3 → spatialdata_io-0.1.3.post0}/CHANGELOG.md +0 -0
  19. {spatialdata_io-0.1.3 → spatialdata_io-0.1.3.post0}/LICENSE +0 -0
  20. {spatialdata_io-0.1.3 → spatialdata_io-0.1.3.post0}/README.md +0 -0
  21. {spatialdata_io-0.1.3 → spatialdata_io-0.1.3.post0}/docs/Makefile +0 -0
  22. {spatialdata_io-0.1.3 → spatialdata_io-0.1.3.post0}/docs/_static/.gitkeep +0 -0
  23. {spatialdata_io-0.1.3 → spatialdata_io-0.1.3.post0}/docs/_templates/.gitkeep +0 -0
  24. {spatialdata_io-0.1.3 → spatialdata_io-0.1.3.post0}/docs/_templates/autosummary/class.rst +0 -0
  25. {spatialdata_io-0.1.3 → spatialdata_io-0.1.3.post0}/docs/api.md +0 -0
  26. {spatialdata_io-0.1.3 → spatialdata_io-0.1.3.post0}/docs/changelog.md +0 -0
  27. {spatialdata_io-0.1.3 → spatialdata_io-0.1.3.post0}/docs/conf.py +0 -0
  28. {spatialdata_io-0.1.3 → spatialdata_io-0.1.3.post0}/docs/contributing.md +0 -0
  29. {spatialdata_io-0.1.3 → spatialdata_io-0.1.3.post0}/docs/extensions/.gitkeep +0 -0
  30. {spatialdata_io-0.1.3 → spatialdata_io-0.1.3.post0}/docs/extensions/typed_returns.py +0 -0
  31. {spatialdata_io-0.1.3 → spatialdata_io-0.1.3.post0}/docs/index.md +0 -0
  32. {spatialdata_io-0.1.3 → spatialdata_io-0.1.3.post0}/docs/make.bat +0 -0
  33. {spatialdata_io-0.1.3 → spatialdata_io-0.1.3.post0}/docs/references.bib +0 -0
  34. {spatialdata_io-0.1.3 → spatialdata_io-0.1.3.post0}/docs/references.md +0 -0
  35. {spatialdata_io-0.1.3 → spatialdata_io-0.1.3.post0}/docs/template_usage.md +0 -0
  36. {spatialdata_io-0.1.3 → spatialdata_io-0.1.3.post0}/src/spatialdata_io/__init__.py +0 -0
  37. {spatialdata_io-0.1.3 → spatialdata_io-0.1.3.post0}/src/spatialdata_io/_constants/__init__.py +0 -0
  38. {spatialdata_io-0.1.3 → spatialdata_io-0.1.3.post0}/src/spatialdata_io/_constants/_constants.py +0 -0
  39. {spatialdata_io-0.1.3 → spatialdata_io-0.1.3.post0}/src/spatialdata_io/_constants/_enum.py +0 -0
  40. {spatialdata_io-0.1.3 → spatialdata_io-0.1.3.post0}/src/spatialdata_io/_docs.py +0 -0
  41. {spatialdata_io-0.1.3 → spatialdata_io-0.1.3.post0}/src/spatialdata_io/_utils.py +0 -0
  42. {spatialdata_io-0.1.3 → spatialdata_io-0.1.3.post0}/src/spatialdata_io/converters/__init__.py +0 -0
  43. {spatialdata_io-0.1.3 → spatialdata_io-0.1.3.post0}/src/spatialdata_io/converters/legacy_anndata.py +0 -0
  44. {spatialdata_io-0.1.3 → spatialdata_io-0.1.3.post0}/src/spatialdata_io/experimental/__init__.py +0 -0
  45. {spatialdata_io-0.1.3 → spatialdata_io-0.1.3.post0}/src/spatialdata_io/readers/__init__.py +0 -0
  46. {spatialdata_io-0.1.3 → spatialdata_io-0.1.3.post0}/src/spatialdata_io/readers/_utils/__init__.py +0 -0
  47. {spatialdata_io-0.1.3 → spatialdata_io-0.1.3.post0}/src/spatialdata_io/readers/_utils/_read_10x_h5.py +0 -0
  48. {spatialdata_io-0.1.3 → spatialdata_io-0.1.3.post0}/src/spatialdata_io/readers/_utils/_utils.py +0 -0
  49. {spatialdata_io-0.1.3 → spatialdata_io-0.1.3.post0}/src/spatialdata_io/readers/codex.py +0 -0
  50. {spatialdata_io-0.1.3 → spatialdata_io-0.1.3.post0}/src/spatialdata_io/readers/cosmx.py +0 -0
  51. {spatialdata_io-0.1.3 → spatialdata_io-0.1.3.post0}/src/spatialdata_io/readers/curio.py +0 -0
  52. {spatialdata_io-0.1.3 → spatialdata_io-0.1.3.post0}/src/spatialdata_io/readers/dbit.py +0 -0
  53. {spatialdata_io-0.1.3 → spatialdata_io-0.1.3.post0}/src/spatialdata_io/readers/iss.py +0 -0
  54. {spatialdata_io-0.1.3 → spatialdata_io-0.1.3.post0}/src/spatialdata_io/readers/merscope.py +0 -0
  55. {spatialdata_io-0.1.3 → spatialdata_io-0.1.3.post0}/src/spatialdata_io/readers/seqfish.py +0 -0
  56. {spatialdata_io-0.1.3 → spatialdata_io-0.1.3.post0}/src/spatialdata_io/readers/steinbock.py +0 -0
  57. {spatialdata_io-0.1.3 → spatialdata_io-0.1.3.post0}/src/spatialdata_io/readers/stereoseq.py +0 -0
  58. {spatialdata_io-0.1.3 → spatialdata_io-0.1.3.post0}/src/spatialdata_io/readers/visium.py +0 -0
  59. {spatialdata_io-0.1.3 → spatialdata_io-0.1.3.post0}/src/spatialdata_io/readers/visium_hd.py +0 -0
  60. {spatialdata_io-0.1.3 → spatialdata_io-0.1.3.post0}/src/spatialdata_io/readers/xenium.py +0 -0
  61. {spatialdata_io-0.1.3 → spatialdata_io-0.1.3.post0}/tests/__init__.py +0 -0
  62. {spatialdata_io-0.1.3 → spatialdata_io-0.1.3.post0}/tests/converters/__init__.py +0 -0
  63. {spatialdata_io-0.1.3 → spatialdata_io-0.1.3.post0}/tests/converters/test_legacy_anndata.py +0 -0
  64. {spatialdata_io-0.1.3 → spatialdata_io-0.1.3.post0}/tests/test_basic.py +0 -0
  65. {spatialdata_io-0.1.3 → spatialdata_io-0.1.3.post0}/tests/test_xenium.py +0 -0
{spatialdata_io-0.1.3 → spatialdata_io-0.1.3.post0}/.pre-commit-config.yaml RENAMED
@@ -15,7 +15,7 @@ repos:
15
15
  hooks:
16
16
  - id: prettier
17
17
  - repo: https://github.com/asottile/blacken-docs
18
- rev: 1.16.0
18
+ rev: 1.18.0
19
19
  hooks:
20
20
  - id: blacken-docs
21
21
  - repo: https://github.com/PyCQA/isort
@@ -23,7 +23,7 @@ repos:
23
23
  hooks:
24
24
  - id: isort
25
25
  - repo: https://github.com/pre-commit/mirrors-mypy
26
- rev: v1.10.0
26
+ rev: v1.10.1
27
27
  hooks:
28
28
  - id: mypy
29
29
  additional_dependencies: [numpy, types-PyYAML]
@@ -59,7 +59,7 @@ repos:
59
59
  - --remove-unused-variable
60
60
  - --ignore-init-module-imports
61
61
  - repo: https://github.com/PyCQA/flake8
62
- rev: 7.0.0
62
+ rev: 7.1.0
63
63
  hooks:
64
64
  - id: flake8
65
65
  additional_dependencies:
{spatialdata_io-0.1.3 → spatialdata_io-0.1.3.post0}/PKG-INFO RENAMED
@@ -1,6 +1,6 @@
1
1
  Metadata-Version: 2.3
2
2
  Name: spatialdata-io
3
- Version: 0.1.3
3
+ Version: 0.1.3.post0
4
4
  Summary: SpatialData IO for common techs
5
5
  Project-URL: Documentation, https://spatialdata-io.readthedocs.io/
6
6
  Project-URL: Source, https://github.com/scverse/spatialdata-io
@@ -48,7 +48,7 @@ Requires-Dist: pyarrow
48
48
  Requires-Dist: readfcs
49
49
  Requires-Dist: scanpy
50
50
  Requires-Dist: scikit-image
51
- Requires-Dist: spatialdata>=0.1.2
51
+ Requires-Dist: spatialdata>=0.2.1
52
52
  Provides-Extra: dev
53
53
  Requires-Dist: bump2version; extra == 'dev'
54
54
  Requires-Dist: pre-commit; extra == 'dev'
{spatialdata_io-0.1.3 → spatialdata_io-0.1.3.post0}/_version.py RENAMED
@@ -12,5 +12,5 @@ __version__: str
12
12
  __version_tuple__: VERSION_TUPLE
13
13
  version_tuple: VERSION_TUPLE
14
14
 
15
- __version__ = version = '0.1.3'
15
+ __version__ = version = '0.1.3.post0'
16
16
  __version_tuple__ = version_tuple = (0, 1, 3)
{spatialdata_io-0.1.3 → spatialdata_io-0.1.3.post0}/pyproject.toml RENAMED
@@ -25,7 +25,7 @@ dependencies = [
25
25
  "anndata",
26
26
  "numpy",
27
27
  "scanpy",
28
- "spatialdata>=0.1.2",
28
+ "spatialdata>=0.2.1",
29
29
  "scikit-image",
30
30
  "h5py",
31
31
  "joblib",
{spatialdata_io-0.1.3 → spatialdata_io-0.1.3.post0}/src/spatialdata_io/readers/mcmicro.py RENAMED
@@ -258,7 +258,7 @@ def _create_anndata(
258
258
  obs=table.drop(columns=var + coords),
259
259
  var=markers,
260
260
  obsm={"spatial": table[coords].to_numpy()},
261
- dtype=np.float_,
261
+ dtype=float,
262
262
  )
263
263
  adata.obs["region"] = pd.Categorical([region_value] * len(adata))
264
264
  return adata, region_value