lamindb 0.76.8__py3-none-any.whl → 0.76.10__py3-none-any.whl

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 (62) hide show
  1. lamindb/__init__.py +114 -113
  2. lamindb/_artifact.py +1206 -1205
  3. lamindb/_can_validate.py +621 -579
  4. lamindb/_collection.py +390 -387
  5. lamindb/_curate.py +1603 -1601
  6. lamindb/_feature.py +155 -155
  7. lamindb/_feature_set.py +244 -242
  8. lamindb/_filter.py +23 -23
  9. lamindb/_finish.py +250 -256
  10. lamindb/_from_values.py +403 -382
  11. lamindb/_is_versioned.py +40 -40
  12. lamindb/_parents.py +476 -476
  13. lamindb/_query_manager.py +125 -125
  14. lamindb/_query_set.py +364 -362
  15. lamindb/_record.py +668 -649
  16. lamindb/_run.py +60 -57
  17. lamindb/_save.py +310 -308
  18. lamindb/_storage.py +14 -14
  19. lamindb/_transform.py +130 -127
  20. lamindb/_ulabel.py +56 -56
  21. lamindb/_utils.py +9 -9
  22. lamindb/_view.py +72 -72
  23. lamindb/core/__init__.py +94 -94
  24. lamindb/core/_context.py +590 -574
  25. lamindb/core/_data.py +510 -438
  26. lamindb/core/_django.py +209 -0
  27. lamindb/core/_feature_manager.py +994 -867
  28. lamindb/core/_label_manager.py +289 -253
  29. lamindb/core/_mapped_collection.py +631 -597
  30. lamindb/core/_settings.py +188 -187
  31. lamindb/core/_sync_git.py +138 -138
  32. lamindb/core/_track_environment.py +27 -27
  33. lamindb/core/datasets/__init__.py +59 -59
  34. lamindb/core/datasets/_core.py +581 -571
  35. lamindb/core/datasets/_fake.py +36 -36
  36. lamindb/core/exceptions.py +90 -90
  37. lamindb/core/fields.py +12 -12
  38. lamindb/core/loaders.py +164 -164
  39. lamindb/core/schema.py +56 -56
  40. lamindb/core/storage/__init__.py +25 -25
  41. lamindb/core/storage/_anndata_accessor.py +741 -740
  42. lamindb/core/storage/_anndata_sizes.py +41 -41
  43. lamindb/core/storage/_backed_access.py +98 -98
  44. lamindb/core/storage/_tiledbsoma.py +204 -204
  45. lamindb/core/storage/_valid_suffixes.py +21 -21
  46. lamindb/core/storage/_zarr.py +110 -110
  47. lamindb/core/storage/objects.py +62 -62
  48. lamindb/core/storage/paths.py +172 -172
  49. lamindb/core/subsettings/__init__.py +12 -12
  50. lamindb/core/subsettings/_creation_settings.py +38 -38
  51. lamindb/core/subsettings/_transform_settings.py +21 -21
  52. lamindb/core/types.py +19 -19
  53. lamindb/core/versioning.py +146 -158
  54. lamindb/integrations/__init__.py +12 -12
  55. lamindb/integrations/_vitessce.py +107 -107
  56. lamindb/setup/__init__.py +14 -14
  57. lamindb/setup/core/__init__.py +4 -4
  58. {lamindb-0.76.8.dist-info → lamindb-0.76.10.dist-info}/LICENSE +201 -201
  59. {lamindb-0.76.8.dist-info → lamindb-0.76.10.dist-info}/METADATA +8 -8
  60. lamindb-0.76.10.dist-info/RECORD +61 -0
  61. {lamindb-0.76.8.dist-info → lamindb-0.76.10.dist-info}/WHEEL +1 -1
  62. lamindb-0.76.8.dist-info/RECORD +0 -60
lamindb/__init__.py CHANGED
@@ -1,113 +1,114 @@
1
- """A data framework for biology.
2
-
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- Core registries.
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-
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- .. autosummary::
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- :toctree: .
7
-
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- Artifact
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- Collection
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- Transform
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- Run
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- User
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- Storage
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- ULabel
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- Feature
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- FeatureSet
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- Param
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-
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- Key functionality.
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-
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- .. autosummary::
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- :toctree: .
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-
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- context
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- connect
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- Curator
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- view
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- save
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-
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- Modules and settings.
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-
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- .. autosummary::
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- :toctree: .
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-
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- integrations
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- settings
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- setup
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- UPath
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- core
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-
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- """
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-
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- # denote a release candidate for 0.1.0 with 0.1rc1, 0.1a1, 0.1b1, etc.
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- __version__ = "0.76.8"
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-
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- import os as _os
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-
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- import lamindb_setup as _lamindb_setup
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- from lamindb_setup._check_setup import InstanceNotSetupError as _InstanceNotSetupError
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- from lamindb_setup._check_setup import _check_instance_setup
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- from lamindb_setup._connect_instance import connect
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- from lamindb_setup.core.upath import UPath
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-
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- from . import setup
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-
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-
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- def __getattr__(name):
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- raise _InstanceNotSetupError()
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-
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-
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- if _check_instance_setup(from_lamindb=True):
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- del _InstanceNotSetupError
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- del __getattr__ # delete so that imports work out
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- from lnschema_core.models import (
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- Artifact,
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- Collection,
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- Feature,
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- FeatureSet,
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- Param,
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- Run,
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- Storage,
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- Transform,
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- ULabel,
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- User,
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- )
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-
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- from . import core # isort: split
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- from . import (
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- _artifact,
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- _can_validate,
81
- _collection,
82
- _curate,
83
- _feature,
84
- _feature_set,
85
- _is_versioned,
86
- _parents,
87
- _record,
88
- _run,
89
- _storage,
90
- _transform,
91
- _ulabel,
92
- integrations,
93
- )
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- from ._curate import Curator
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- from ._save import save
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- from ._view import view
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- from .core._context import context
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- from .core._settings import settings
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-
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- # schema modules
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- if not _os.environ.get("LAMINDB_MULTI_INSTANCE") == "true":
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- from lamindb_setup._init_instance import (
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- reload_schema_modules as _reload_schema_modules,
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- )
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-
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- _reload_schema_modules(_lamindb_setup.settings.instance)
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-
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- track = context.track # backward compat
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- finish = context.finish # backward compat
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- Curate = Curator # backward compat
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- settings.__doc__ = """Global settings (:class:`~lamindb.core.Settings`)."""
112
- context.__doc__ = """Global run context (:class:`~lamindb.core.Context`)."""
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- from django.db.models import Q
1
+ """A data framework for biology.
2
+
3
+ Core registries.
4
+
5
+ .. autosummary::
6
+ :toctree: .
7
+
8
+ Artifact
9
+ Collection
10
+ Transform
11
+ Run
12
+ User
13
+ Storage
14
+ ULabel
15
+ Feature
16
+ FeatureSet
17
+ Param
18
+
19
+ Key functionality.
20
+
21
+ .. autosummary::
22
+ :toctree: .
23
+
24
+ track
25
+ finish
26
+ connect
27
+ Curator
28
+ view
29
+ save
30
+
31
+ Modules and settings.
32
+
33
+ .. autosummary::
34
+ :toctree: .
35
+
36
+ integrations
37
+ context
38
+ settings
39
+ setup
40
+ UPath
41
+ core
42
+
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+ """
44
+
45
+ # denote a release candidate for 0.1.0 with 0.1rc1, 0.1a1, 0.1b1, etc.
46
+ __version__ = "0.76.10"
47
+
48
+ import os as _os
49
+
50
+ import lamindb_setup as _lamindb_setup
51
+ from lamindb_setup._check_setup import InstanceNotSetupError as _InstanceNotSetupError
52
+ from lamindb_setup._check_setup import _check_instance_setup
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+ from lamindb_setup._connect_instance import connect
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+ from lamindb_setup.core.upath import UPath
55
+
56
+ from . import setup
57
+
58
+
59
+ def __getattr__(name):
60
+ raise _InstanceNotSetupError()
61
+
62
+
63
+ if _check_instance_setup(from_module="lnschema_core"):
64
+ del _InstanceNotSetupError
65
+ del __getattr__ # delete so that imports work out
66
+ from lnschema_core.models import (
67
+ Artifact,
68
+ Collection,
69
+ Feature,
70
+ FeatureSet,
71
+ Param,
72
+ Run,
73
+ Storage,
74
+ Transform,
75
+ ULabel,
76
+ User,
77
+ )
78
+
79
+ from . import core # isort: split
80
+ from . import (
81
+ _artifact,
82
+ _can_validate,
83
+ _collection,
84
+ _curate,
85
+ _feature,
86
+ _feature_set,
87
+ _is_versioned,
88
+ _parents,
89
+ _record,
90
+ _run,
91
+ _storage,
92
+ _transform,
93
+ _ulabel,
94
+ integrations,
95
+ )
96
+ from ._curate import Curator
97
+ from ._save import save
98
+ from ._view import view
99
+ from .core._context import context
100
+ from .core._settings import settings
101
+
102
+ track = context.track # simple access because these are so common
103
+ finish = context.finish # simple access because these are so common
104
+ Curate = Curator # backward compat
105
+ settings.__doc__ = """Global settings (:class:`~lamindb.core.Settings`)."""
106
+ context.__doc__ = """Global run context (:class:`~lamindb.core.Context`).
107
+
108
+ Note that you can access:
109
+
110
+ - `ln.context.track()` as `ln.track()`
111
+ - `ln.context.finish()` as `ln.finish()`
112
+
113
+ """
114
+ from django.db.models import Q