datamint 2.3.3__py3-none-any.whl → 2.9.0__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 (59) hide show
  1. datamint/__init__.py +1 -3
  2. datamint/api/__init__.py +0 -3
  3. datamint/api/base_api.py +286 -54
  4. datamint/api/client.py +76 -13
  5. datamint/api/endpoints/__init__.py +2 -2
  6. datamint/api/endpoints/annotations_api.py +186 -28
  7. datamint/api/endpoints/deploy_model_api.py +78 -0
  8. datamint/api/endpoints/models_api.py +1 -0
  9. datamint/api/endpoints/projects_api.py +38 -7
  10. datamint/api/endpoints/resources_api.py +227 -100
  11. datamint/api/entity_base_api.py +66 -7
  12. datamint/apihandler/base_api_handler.py +0 -1
  13. datamint/apihandler/dto/annotation_dto.py +2 -0
  14. datamint/client_cmd_tools/datamint_config.py +0 -1
  15. datamint/client_cmd_tools/datamint_upload.py +3 -1
  16. datamint/configs.py +11 -7
  17. datamint/dataset/base_dataset.py +24 -4
  18. datamint/dataset/dataset.py +1 -1
  19. datamint/entities/__init__.py +1 -1
  20. datamint/entities/annotations/__init__.py +13 -0
  21. datamint/entities/{annotation.py → annotations/annotation.py} +81 -47
  22. datamint/entities/annotations/image_classification.py +12 -0
  23. datamint/entities/annotations/image_segmentation.py +252 -0
  24. datamint/entities/annotations/volume_segmentation.py +273 -0
  25. datamint/entities/base_entity.py +100 -6
  26. datamint/entities/cache_manager.py +129 -15
  27. datamint/entities/datasetinfo.py +60 -65
  28. datamint/entities/deployjob.py +18 -0
  29. datamint/entities/project.py +39 -0
  30. datamint/entities/resource.py +310 -46
  31. datamint/lightning/__init__.py +1 -0
  32. datamint/lightning/datamintdatamodule.py +103 -0
  33. datamint/mlflow/__init__.py +65 -0
  34. datamint/mlflow/artifact/__init__.py +1 -0
  35. datamint/mlflow/artifact/datamint_artifacts_repo.py +8 -0
  36. datamint/mlflow/env_utils.py +131 -0
  37. datamint/mlflow/env_vars.py +5 -0
  38. datamint/mlflow/flavors/__init__.py +17 -0
  39. datamint/mlflow/flavors/datamint_flavor.py +150 -0
  40. datamint/mlflow/flavors/model.py +877 -0
  41. datamint/mlflow/lightning/callbacks/__init__.py +1 -0
  42. datamint/mlflow/lightning/callbacks/modelcheckpoint.py +410 -0
  43. datamint/mlflow/models/__init__.py +93 -0
  44. datamint/mlflow/tracking/datamint_store.py +76 -0
  45. datamint/mlflow/tracking/default_experiment.py +27 -0
  46. datamint/mlflow/tracking/fluent.py +91 -0
  47. datamint/utils/env.py +27 -0
  48. datamint/utils/visualization.py +21 -13
  49. datamint-2.9.0.dist-info/METADATA +220 -0
  50. datamint-2.9.0.dist-info/RECORD +73 -0
  51. {datamint-2.3.3.dist-info → datamint-2.9.0.dist-info}/WHEEL +1 -1
  52. datamint-2.9.0.dist-info/entry_points.txt +18 -0
  53. datamint/apihandler/exp_api_handler.py +0 -204
  54. datamint/experiment/__init__.py +0 -1
  55. datamint/experiment/_patcher.py +0 -570
  56. datamint/experiment/experiment.py +0 -1049
  57. datamint-2.3.3.dist-info/METADATA +0 -125
  58. datamint-2.3.3.dist-info/RECORD +0 -54
  59. datamint-2.3.3.dist-info/entry_points.txt +0 -4
datamint-2.3.3.dist-info/METADATA DELETED
@@ -1,125 +0,0 @@
1
- Metadata-Version: 2.4
2
- Name: datamint
3
- Version: 2.3.3
4
- Summary: A library for interacting with the Datamint API, designed for efficient data management, processing and Deep Learning workflows.
5
- Requires-Python: >=3.10
6
- Classifier: Programming Language :: Python :: 3
7
- Classifier: Programming Language :: Python :: 3.10
8
- Classifier: Programming Language :: Python :: 3.11
9
- Classifier: Programming Language :: Python :: 3.12
10
- Classifier: Programming Language :: Python :: 3.13
11
- Classifier: Programming Language :: Python :: 3.14
12
- Provides-Extra: dev
13
- Provides-Extra: docs
14
- Requires-Dist: Deprecated (>=1.2.0)
15
- Requires-Dist: aiohttp (>=3.0.0,<4.0.0)
16
- Requires-Dist: aioresponses (>=0.7.8,<0.8.0) ; extra == "dev"
17
- Requires-Dist: albumentations (>=2.0.0)
18
- Requires-Dist: backports-strenum ; python_version < "3.11"
19
- Requires-Dist: datamintapi (==0.0.*)
20
- Requires-Dist: httpx
21
- Requires-Dist: humanize (>=4.0.0,<5.0.0)
22
- Requires-Dist: lazy-loader (>=0.3.0)
23
- Requires-Dist: lightning
24
- Requires-Dist: matplotlib
25
- Requires-Dist: medimgkit (>=0.7.2)
26
- Requires-Dist: nest-asyncio (>=1.0.0,<2.0.0)
27
- Requires-Dist: nibabel (>=4.0.0)
28
- Requires-Dist: numpy
29
- Requires-Dist: opencv-python (>=4.0.0)
30
- Requires-Dist: pandas (>=2.0.0)
31
- Requires-Dist: platformdirs (>=4.0.0,<5.0.0)
32
- Requires-Dist: pydantic (>=2.6.4)
33
- Requires-Dist: pydicom (>=3.0.0,<4.0.0)
34
- Requires-Dist: pylibjpeg (>=2.0.0,<3.0.0)
35
- Requires-Dist: pylibjpeg-libjpeg (>=2.0.0,<3.0.0)
36
- Requires-Dist: pytest (>=7.0.0,<8.0.0) ; extra == "dev"
37
- Requires-Dist: pytest-cov (>=4.0.0,<5.0.0) ; extra == "dev"
38
- Requires-Dist: pyyaml (>=5.0.0)
39
- Requires-Dist: requests (>=2.0.0,<3.0.0)
40
- Requires-Dist: responses (>=0.20.0,<0.21.0) ; extra == "dev"
41
- Requires-Dist: rich (>=10.0.0)
42
- Requires-Dist: setuptools (>=57.0) ; extra == "docs"
43
- Requires-Dist: sphinx (>=5.0) ; extra == "docs"
44
- Requires-Dist: sphinx-tabs (>=3.0.0) ; extra == "docs"
45
- Requires-Dist: sphinx_rtd_theme (>=2.0.0) ; extra == "docs"
46
- Requires-Dist: torch (>=1.2.0,!=2.3.0)
47
- Requires-Dist: torchvision (>=0.18.0)
48
- Requires-Dist: tqdm (>=4.0.0,<5.0.0)
49
- Requires-Dist: typing_extensions (>=4.0.0)
50
- Description-Content-Type: text/markdown
51
-
52
-
53
- # Datamint python API
54
-
55
- ![Build Status](https://github.com/SonanceAI/datamint-python-api/actions/workflows/run_test.yaml/badge.svg)
56
-
57
- See the full documentation at https://sonanceai.github.io/datamint-python-api/
58
-
59
- ## Installation
60
-
61
- Datamint requires Python 3.10+.
62
- You can install/update Datamint and its dependencies using pip
63
-
64
- ```bash
65
- pip install -U datamint
66
- ```
67
-
68
- We recommend that you install Datamint in a dedicated virtual environment, to avoid conflicting with your system packages.
69
- Create the enviroment once with `python3 -m venv datamint-env` and then activate it whenever you need it with:
70
- - `source datamint-env/bin/activate` (Linux/MAC)
71
- - `datamint-env\Scripts\activate.bat` (Windows CMD)
72
- - `datamint-env\Scripts\Activate.ps1` (Windows PowerShell)
73
-
74
-
75
- ## Setup API key
76
-
77
- To use the Datamint API, you need to setup your API key (ask your administrator if you don't have one). Use one of the following methods to setup your API key:
78
-
79
- ### Method 1: Command-line tool (recommended)
80
-
81
- Run ``datamint-config`` in the terminal and follow the instructions. See [command_line_tools](https://sonanceai.github.io/datamint-python-api/command_line_tools.html) for more details.
82
-
83
- ### Method 2: Environment variable
84
-
85
- Specify the API key as an environment variable.
86
-
87
- **Bash:**
88
- ```bash
89
- export DATAMINT_API_KEY="my_api_key"
90
- # run your commands (e.g., `datamint-upload`, `python script.py`)
91
- ```
92
-
93
- **Python:**
94
- ```python
95
- import os
96
- os.environ["DATAMINT_API_KEY"] = "my_api_key"
97
- ```
98
-
99
- ### Method 3: Api constructor
100
-
101
- Specify API key in the Api constructor:
102
-
103
- ```python
104
- from datamint import Api
105
- api = Api(api_key='my_api_key')
106
- ```
107
-
108
- ## Tutorials
109
-
110
-
111
- You can find example notebooks in the `notebooks` folder:
112
-
113
- - [Uploading your resources](notebooks/upload_data.ipynb)
114
- - [Uploading model segmentations](notebooks/upload_model_segmentations.ipynb)
115
-
116
- and example scripts in [examples](examples) folder:
117
-
118
- - [API usage examples](examples/api_usage.ipynb)
119
- - [Project and entity usage](examples/project_entity_usage.ipynb)
120
- - [Channels example](examples/channels_example.ipynb)
121
-
122
- ## Full documentation
123
-
124
- See all functionalities in the full documentation at https://sonanceai.github.io/datamint-python-api/
125
-
datamint-2.3.3.dist-info/RECORD DELETED
@@ -1,54 +0,0 @@
1
- datamint/__init__.py,sha256=ucsnxrYClh6pdy7psRJXWam_9rjAQB4NXzvy7xLovmo,824
2
- datamint/api/__init__.py,sha256=7QYkmDBXbKh8-zchV7k6Lpolaw6h-IK6ezfXROIWh2A,43
3
- datamint/api/base_api.py,sha256=UmNEgcFt1czkqyVCM3t5P9UvA1F9AEZITPqdakojvJs,18810
4
- datamint/api/client.py,sha256=ndKSj2QnveRNOtaQhE9qM4tCGtgrTxfInDy9FhdReCo,3922
5
- datamint/api/dto/__init__.py,sha256=fUi901Zs-q5XHyWwZ4dMi2fEO8-CUEVEdYbpd17lahc,416
6
- datamint/api/endpoints/__init__.py,sha256=wi4liAb5-wOohwyzKUD6TxHGeZmUPaZerFUGa2IUju4,529
7
- datamint/api/endpoints/annotations_api.py,sha256=B21oGgNXO7xoir3ynNvhnbo1JyRvWZ9sbsc7VVjghhM,49713
8
- datamint/api/endpoints/annotationsets_api.py,sha256=NIsPIjGGptiUBxHft-EhOMRG-DsQAthheVqd7ph0id4,409
9
- datamint/api/endpoints/channels_api.py,sha256=oQqxSw9DJzAqtVQI7-tc1llTdnsm-URx8jwtXNXnhio,867
10
- datamint/api/endpoints/datasetsinfo_api.py,sha256=WdzrUzK63w9gvAP6U--P65FbD-3X-jm9TPCcYnRNjas,597
11
- datamint/api/endpoints/models_api.py,sha256=tbVuajc-mCsIp5AKSCoq3uQRDWgKnJaIA6tf_ck8-XY,1502
12
- datamint/api/endpoints/projects_api.py,sha256=C5IqKXaYRrg5LDBjIRSo4NBCvbN2619X3SSgKqGe8pc,7929
13
- datamint/api/endpoints/resources_api.py,sha256=Ez-mGYElCpwHZ8T8NlqXH188mCFBZGfs8b320xa43tc,50142
14
- datamint/api/endpoints/users_api.py,sha256=pnkuTZ1B9Y0FtwwvXO8J64e02RSkRxnBmTl9UGSuC5I,1186
15
- datamint/api/entity_base_api.py,sha256=-8SIt4M8P9G2b8SQznuWpFuFE8zEQjQxkRkw0s_w0Y4,11692
16
- datamint/apihandler/annotation_api_handler.py,sha256=W3vV4z3BqX1OQe1r7zr8dI-IVu4zUDxED4QttdiWV-E,57098
17
- datamint/apihandler/api_handler.py,sha256=mL0gMaWePYa7zwkw92E-VMK2WjpcPt7au0KqnmsWSYw,439
18
- datamint/apihandler/base_api_handler.py,sha256=Hqt3oUvXfEqF25DJkk0WOWAtNLnKaZRGtnCchKFA1ag,11669
19
- datamint/apihandler/dto/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
20
- datamint/apihandler/dto/annotation_dto.py,sha256=8gcTFsvbXQQU4QjdW6lcUI_De1fyNyF49_a2uIyBOpg,7220
21
- datamint/apihandler/exp_api_handler.py,sha256=hFUgUgBc5rL7odK7gTW3MnrvMY1pVfJUpUdzRNobMQE,6226
22
- datamint/apihandler/root_api_handler.py,sha256=jBof_XPTeq4o41CW-l-I5GHQKVa76kaX75RovS_qAM4,63384
23
- datamint/client_cmd_tools/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
24
- datamint/client_cmd_tools/datamint_config.py,sha256=MpR5UHv_xpElOOYyEESBkDg2n3JjP_PNLI2jqmZgYQ8,16222
25
- datamint/client_cmd_tools/datamint_upload.py,sha256=rZEqBRZZDBFSlwMvIg_DbipqgBtQD31v7DC1C6tysqA,36058
26
- datamint/configs.py,sha256=ArVD5QxuohLcM6NB0dMxcEfrD1-x5lPRDLcBdY8jhMU,1625
27
- datamint/dataset/__init__.py,sha256=4PlUKSvVhdfQvvuq8jQXrkdqnot-iTTizM3aM1vgSwg,47
28
- datamint/dataset/annotation.py,sha256=qN1IMjdfLD2ceQ6va3l76jOXA8Vb_c-eBk1oWQu6hW0,7994
29
- datamint/dataset/base_dataset.py,sha256=2m_5nBayFCzXSjuPLb6mM9NLQ43wIUqeFUfm-6WVg_U,49827
30
- datamint/dataset/dataset.py,sha256=c0887PcI6fEWG3FjM3gz_EYb9maH8v4ormZhm7vf4gE,28929
31
- datamint/entities/__init__.py,sha256=ePkFeNATE5tJ9Lulsn2VTGWBJGwPtoRT1zsfbg1bkPw,504
32
- datamint/entities/annotation.py,sha256=4qsm3yO8bTgu5SNxY91P0LGXx3d7mxF1OGWpMNir1CA,8956
33
- datamint/entities/base_entity.py,sha256=QX381VdnrisQeQKg2kkHNDUvczYm03VsDHlHZQXr78U,3307
34
- datamint/entities/cache_manager.py,sha256=ZN5_HeyM6c0ocWFsJuJEF4CkuOHr6RPErwhZNYYq7WU,10282
35
- datamint/entities/channel.py,sha256=9fl22eSx_ng98NosfQGs18cdaRdbeC3wXL61KhSg4Zo,1601
36
- datamint/entities/datasetinfo.py,sha256=yeGy5CVxqc7h0SFBJROr0UObeIMkOVZKwrOBsZ-iCEg,4151
37
- datamint/entities/project.py,sha256=QQXBOe6FzupPrCunBcqOlY6d3uqxvnYvGeCq8hZy_U8,4192
38
- datamint/entities/resource.py,sha256=Ai36-dJ9PhrRYho8QLRnySfsAPWPW8QpKMiVra_jCgA,9316
39
- datamint/entities/user.py,sha256=MREHDOsV9NOBEbXqiQ2ww6DmetN07CELId-ZQVpZCb8,620
40
- datamint/examples/__init__.py,sha256=zcYnd5nLVme9GCTPYH-1JpGo8xXK2WEYvhzcy_2alZc,39
41
- datamint/examples/example_projects.py,sha256=sU-Gxy7PPqA0WUfN-ZmXV-0YnwrnzpJ79lMXTJp2DzU,2804
42
- datamint/exceptions.py,sha256=Or-NNj8pgChzAZNaWtkX1WyHJ2q5GziyvHdFLYymvX0,1661
43
- datamint/experiment/__init__.py,sha256=5qQOMzoG17DEd1YnTF-vS0qiM-DGdbNh42EUo91CRhQ,34
44
- datamint/experiment/_patcher.py,sha256=ZgbezoevAYhJsbiJTvWPALGTcUiMT371xddcTllt3H4,23296
45
- datamint/experiment/experiment.py,sha256=aHK9dRFdQTi569xgUg1KqlCZLHZpDmSH3g3ndPIZvXw,44546
46
- datamint/logging.yaml,sha256=tOMxtc2UmwlIMTK6ljtnBwTco1PNrPeq3mx2iMuSbiw,482
47
- datamint/types.py,sha256=2OaY5QJvQIJKxyMNJYzxBksKCa9ZS2gb_ayJrByvu2Y,410
48
- datamint/utils/logging_utils.py,sha256=9pRoaPrWu2jOdDCiAoUsjEdP5ZwaealWL3hjUqFvx9g,4022
49
- datamint/utils/torchmetrics.py,sha256=lwU0nOtsSWfebyp7dvjlAggaqXtj5ohSEUXOg3L0hJE,2837
50
- datamint/utils/visualization.py,sha256=yaUVAOHar59VrGUjpAWv5eVvQSfztFG0eP9p5Vt3l-M,4470
51
- datamint-2.3.3.dist-info/METADATA,sha256=Cl4QTN2lWp65r0Sot2NP-n5h0A-1B-PqH0l_gT94XUY,4262
52
- datamint-2.3.3.dist-info/WHEEL,sha256=zp0Cn7JsFoX2ATtOhtaFYIiE2rmFAD4OcMhtUki8W3U,88
53
- datamint-2.3.3.dist-info/entry_points.txt,sha256=mn5H6jPjO-rY0W0CAZ6Z_KKWhMLvyVaSpoqk77jlTI4,145
54
- datamint-2.3.3.dist-info/RECORD,,
datamint-2.3.3.dist-info/entry_points.txt DELETED
@@ -1,4 +0,0 @@
1
- [console_scripts]
2
- datamint-config=datamint.client_cmd_tools.datamint_config:main
3
- datamint-upload=datamint.client_cmd_tools.datamint_upload:main
4
-