napari-tmidas 0.1.2__tar.gz → 0.1.3__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 (38) hide show
  1. {napari_tmidas-0.1.2 → napari_tmidas-0.1.3}/PKG-INFO +9 -10
  2. {napari_tmidas-0.1.2 → napari_tmidas-0.1.3}/README.md +8 -9
  3. {napari_tmidas-0.1.2 → napari_tmidas-0.1.3}/src/napari_tmidas/_version.py +2 -2
  4. {napari_tmidas-0.1.2 → napari_tmidas-0.1.3}/src/napari_tmidas.egg-info/PKG-INFO +9 -10
  5. {napari_tmidas-0.1.2 → napari_tmidas-0.1.3}/.github/dependabot.yml +0 -0
  6. {napari_tmidas-0.1.2 → napari_tmidas-0.1.3}/.github/workflows/test_and_deploy.yml +0 -0
  7. {napari_tmidas-0.1.2 → napari_tmidas-0.1.3}/.gitignore +0 -0
  8. {napari_tmidas-0.1.2 → napari_tmidas-0.1.3}/.napari-hub/DESCRIPTION.md +0 -0
  9. {napari_tmidas-0.1.2 → napari_tmidas-0.1.3}/.napari-hub/config.yml +0 -0
  10. {napari_tmidas-0.1.2 → napari_tmidas-0.1.3}/.pre-commit-config.yaml +0 -0
  11. {napari_tmidas-0.1.2 → napari_tmidas-0.1.3}/LICENSE +0 -0
  12. {napari_tmidas-0.1.2 → napari_tmidas-0.1.3}/MANIFEST.in +0 -0
  13. {napari_tmidas-0.1.2 → napari_tmidas-0.1.3}/pyproject.toml +0 -0
  14. {napari_tmidas-0.1.2 → napari_tmidas-0.1.3}/setup.cfg +0 -0
  15. {napari_tmidas-0.1.2 → napari_tmidas-0.1.3}/src/napari_tmidas/__init__.py +0 -0
  16. {napari_tmidas-0.1.2 → napari_tmidas-0.1.3}/src/napari_tmidas/_file_selector.py +0 -0
  17. {napari_tmidas-0.1.2 → napari_tmidas-0.1.3}/src/napari_tmidas/_label_inspection.py +0 -0
  18. {napari_tmidas-0.1.2 → napari_tmidas-0.1.3}/src/napari_tmidas/_reader.py +0 -0
  19. {napari_tmidas-0.1.2 → napari_tmidas-0.1.3}/src/napari_tmidas/_registry.py +0 -0
  20. {napari_tmidas-0.1.2 → napari_tmidas-0.1.3}/src/napari_tmidas/_sample_data.py +0 -0
  21. {napari_tmidas-0.1.2 → napari_tmidas-0.1.3}/src/napari_tmidas/_tests/__init__.py +0 -0
  22. {napari_tmidas-0.1.2 → napari_tmidas-0.1.3}/src/napari_tmidas/_tests/test_reader.py +0 -0
  23. {napari_tmidas-0.1.2 → napari_tmidas-0.1.3}/src/napari_tmidas/_tests/test_sample_data.py +0 -0
  24. {napari_tmidas-0.1.2 → napari_tmidas-0.1.3}/src/napari_tmidas/_tests/test_widget.py +0 -0
  25. {napari_tmidas-0.1.2 → napari_tmidas-0.1.3}/src/napari_tmidas/_tests/test_writer.py +0 -0
  26. {napari_tmidas-0.1.2 → napari_tmidas-0.1.3}/src/napari_tmidas/_widget.py +0 -0
  27. {napari_tmidas-0.1.2 → napari_tmidas-0.1.3}/src/napari_tmidas/_writer.py +0 -0
  28. {napari_tmidas-0.1.2 → napari_tmidas-0.1.3}/src/napari_tmidas/napari.yaml +0 -0
  29. {napari_tmidas-0.1.2 → napari_tmidas-0.1.3}/src/napari_tmidas/processing_functions/__init__.py +0 -0
  30. {napari_tmidas-0.1.2 → napari_tmidas-0.1.3}/src/napari_tmidas/processing_functions/basic.py +0 -0
  31. {napari_tmidas-0.1.2 → napari_tmidas-0.1.3}/src/napari_tmidas/processing_functions/scipy_filters.py +0 -0
  32. {napari_tmidas-0.1.2 → napari_tmidas-0.1.3}/src/napari_tmidas/processing_functions/skimage_filters.py +0 -0
  33. {napari_tmidas-0.1.2 → napari_tmidas-0.1.3}/src/napari_tmidas.egg-info/SOURCES.txt +0 -0
  34. {napari_tmidas-0.1.2 → napari_tmidas-0.1.3}/src/napari_tmidas.egg-info/dependency_links.txt +0 -0
  35. {napari_tmidas-0.1.2 → napari_tmidas-0.1.3}/src/napari_tmidas.egg-info/entry_points.txt +0 -0
  36. {napari_tmidas-0.1.2 → napari_tmidas-0.1.3}/src/napari_tmidas.egg-info/requires.txt +0 -0
  37. {napari_tmidas-0.1.2 → napari_tmidas-0.1.3}/src/napari_tmidas.egg-info/top_level.txt +0 -0
  38. {napari_tmidas-0.1.2 → napari_tmidas-0.1.3}/tox.ini +0 -0
{napari_tmidas-0.1.2 → napari_tmidas-0.1.3}/PKG-INFO RENAMED
@@ -1,6 +1,6 @@
1
1
  Metadata-Version: 2.2
2
2
  Name: napari-tmidas
3
- Version: 0.1.2
3
+ Version: 0.1.3
4
4
  Summary: Tissue Microscopy Image Data Analysis Suite
5
5
  Author: Marco Meer
6
6
  Author-email: marco.meer@pm.me
@@ -92,33 +92,32 @@ To install the latest development version:
92
92
 
93
93
  ## Usage
94
94
 
95
- ### File inspector
96
-
97
- 1. You can find the installed plugin here:
95
+ You can find the installed plugin here:
98
96
 
99
97
  ![image](https://github.com/user-attachments/assets/504db09a-d66e-49eb-90cd-3237024d9d7a)
100
98
 
99
+ ### File inspector
101
100
 
102
- 3. After opening the plugin, select the folder with the images to be processed (currently supports TIF, later also ZARR). You can also filter for filename suffix.
101
+ 1. After opening `Plugins > T-MIDAS > File selector`, enter the path to the folder containing the images to be processed (currently supports TIF, later also ZARR). You can also filter for filename suffix.
103
102
 
104
103
  ![image](https://github.com/user-attachments/assets/41ecb689-9abe-4371-83b5-9c5eb37069f9)
105
104
 
106
- 5. As a result, a table appears with the found images.
105
+ 2. As a result, a table appears with the found images.
107
106
 
108
107
  ![image](https://github.com/user-attachments/assets/8360942a-be8f-49ec-bc25-385ee43bd601)
109
108
 
110
- 7. Next, select a processing function, set parameters if applicable and start batch processing.
109
+ 3. Next, select a processing function, set parameters if applicable and `Start Batch Processing`.
111
110
 
112
111
  ![image](https://github.com/user-attachments/assets/05929660-6672-4f76-89da-4f17749ccfad)
113
112
 
114
- 9. You can click on the images to show them in the viewer. For example first click on one of the `Original Files`, and then the corresponding `Processed File` to see an overlay.
113
+ 4. You can click on the images in the table to show them in the viewer. For example first click on one of the `Original Files`, and then the corresponding `Processed File` to see an overlay.
115
114
 
116
115
  ![image](https://github.com/user-attachments/assets/cfe84828-c1cc-4196-9a53-5dfb82d5bfce)
117
116
 
118
- Whenever you click on an `Original File` or `Processed File` in the table, it will replace the one that is currently shown in the viewer. So naturally, you'd first select the original image, and then the processed image to correctly overlay the image pair that you want to inspect.
117
+ Note that whenever you click on an `Original File` or `Processed File` in the table, it will replace the one that is currently shown in the viewer. So naturally, you'd first select the original image, and then the processed image to correctly see the image pair that you want to inspect.
119
118
 
120
119
  ### Label inspector
121
- If you have already segmented a folder full of images and now you want to maybe inspect and edit each label image, you can use the Label inspector, which automatically saves your changes to the existing label image once you click the `Save and Continue` button.
120
+ If you have already segmented a folder full of images and now you want to maybe inspect and edit each label image, you can use the `Plugins > T-MIDAS > Label inspector`, which automatically saves your changes to the existing label image once you click the `Save Changes and Continue` button (bottom right).
122
121
 
123
122
  ![image](https://github.com/user-attachments/assets/0bf8c6ae-4212-449d-8183-e91b23ba740e)
124
123
 
{napari_tmidas-0.1.2 → napari_tmidas-0.1.3}/README.md RENAMED
@@ -24,33 +24,32 @@ To install the latest development version:
24
24
 
25
25
  ## Usage
26
26
 
27
- ### File inspector
28
-
29
- 1. You can find the installed plugin here:
27
+ You can find the installed plugin here:
30
28
 
31
29
  ![image](https://github.com/user-attachments/assets/504db09a-d66e-49eb-90cd-3237024d9d7a)
32
30
 
31
+ ### File inspector
33
32
 
34
- 3. After opening the plugin, select the folder with the images to be processed (currently supports TIF, later also ZARR). You can also filter for filename suffix.
33
+ 1. After opening `Plugins > T-MIDAS > File selector`, enter the path to the folder containing the images to be processed (currently supports TIF, later also ZARR). You can also filter for filename suffix.
35
34
 
36
35
  ![image](https://github.com/user-attachments/assets/41ecb689-9abe-4371-83b5-9c5eb37069f9)
37
36
 
38
- 5. As a result, a table appears with the found images.
37
+ 2. As a result, a table appears with the found images.
39
38
 
40
39
  ![image](https://github.com/user-attachments/assets/8360942a-be8f-49ec-bc25-385ee43bd601)
41
40
 
42
- 7. Next, select a processing function, set parameters if applicable and start batch processing.
41
+ 3. Next, select a processing function, set parameters if applicable and `Start Batch Processing`.
43
42
 
44
43
  ![image](https://github.com/user-attachments/assets/05929660-6672-4f76-89da-4f17749ccfad)
45
44
 
46
- 9. You can click on the images to show them in the viewer. For example first click on one of the `Original Files`, and then the corresponding `Processed File` to see an overlay.
45
+ 4. You can click on the images in the table to show them in the viewer. For example first click on one of the `Original Files`, and then the corresponding `Processed File` to see an overlay.
47
46
 
48
47
  ![image](https://github.com/user-attachments/assets/cfe84828-c1cc-4196-9a53-5dfb82d5bfce)
49
48
 
50
- Whenever you click on an `Original File` or `Processed File` in the table, it will replace the one that is currently shown in the viewer. So naturally, you'd first select the original image, and then the processed image to correctly overlay the image pair that you want to inspect.
49
+ Note that whenever you click on an `Original File` or `Processed File` in the table, it will replace the one that is currently shown in the viewer. So naturally, you'd first select the original image, and then the processed image to correctly see the image pair that you want to inspect.
51
50
 
52
51
  ### Label inspector
53
- If you have already segmented a folder full of images and now you want to maybe inspect and edit each label image, you can use the Label inspector, which automatically saves your changes to the existing label image once you click the `Save and Continue` button.
52
+ If you have already segmented a folder full of images and now you want to maybe inspect and edit each label image, you can use the `Plugins > T-MIDAS > Label inspector`, which automatically saves your changes to the existing label image once you click the `Save Changes and Continue` button (bottom right).
54
53
 
55
54
  ![image](https://github.com/user-attachments/assets/0bf8c6ae-4212-449d-8183-e91b23ba740e)
56
55
 
{napari_tmidas-0.1.2 → napari_tmidas-0.1.3}/src/napari_tmidas/_version.py RENAMED
@@ -17,5 +17,5 @@ __version__: str
17
17
  __version_tuple__: VERSION_TUPLE
18
18
  version_tuple: VERSION_TUPLE
19
19
 
20
- __version__ = version = '0.1.2'
21
- __version_tuple__ = version_tuple = (0, 1, 2)
20
+ __version__ = version = '0.1.3'
21
+ __version_tuple__ = version_tuple = (0, 1, 3)
{napari_tmidas-0.1.2 → napari_tmidas-0.1.3}/src/napari_tmidas.egg-info/PKG-INFO RENAMED
@@ -1,6 +1,6 @@
1
1
  Metadata-Version: 2.2
2
2
  Name: napari-tmidas
3
- Version: 0.1.2
3
+ Version: 0.1.3
4
4
  Summary: Tissue Microscopy Image Data Analysis Suite
5
5
  Author: Marco Meer
6
6
  Author-email: marco.meer@pm.me
@@ -92,33 +92,32 @@ To install the latest development version:
92
92
 
93
93
  ## Usage
94
94
 
95
- ### File inspector
96
-
97
- 1. You can find the installed plugin here:
95
+ You can find the installed plugin here:
98
96
 
99
97
  ![image](https://github.com/user-attachments/assets/504db09a-d66e-49eb-90cd-3237024d9d7a)
100
98
 
99
+ ### File inspector
101
100
 
102
- 3. After opening the plugin, select the folder with the images to be processed (currently supports TIF, later also ZARR). You can also filter for filename suffix.
101
+ 1. After opening `Plugins > T-MIDAS > File selector`, enter the path to the folder containing the images to be processed (currently supports TIF, later also ZARR). You can also filter for filename suffix.
103
102
 
104
103
  ![image](https://github.com/user-attachments/assets/41ecb689-9abe-4371-83b5-9c5eb37069f9)
105
104
 
106
- 5. As a result, a table appears with the found images.
105
+ 2. As a result, a table appears with the found images.
107
106
 
108
107
  ![image](https://github.com/user-attachments/assets/8360942a-be8f-49ec-bc25-385ee43bd601)
109
108
 
110
- 7. Next, select a processing function, set parameters if applicable and start batch processing.
109
+ 3. Next, select a processing function, set parameters if applicable and `Start Batch Processing`.
111
110
 
112
111
  ![image](https://github.com/user-attachments/assets/05929660-6672-4f76-89da-4f17749ccfad)
113
112
 
114
- 9. You can click on the images to show them in the viewer. For example first click on one of the `Original Files`, and then the corresponding `Processed File` to see an overlay.
113
+ 4. You can click on the images in the table to show them in the viewer. For example first click on one of the `Original Files`, and then the corresponding `Processed File` to see an overlay.
115
114
 
116
115
  ![image](https://github.com/user-attachments/assets/cfe84828-c1cc-4196-9a53-5dfb82d5bfce)
117
116
 
118
- Whenever you click on an `Original File` or `Processed File` in the table, it will replace the one that is currently shown in the viewer. So naturally, you'd first select the original image, and then the processed image to correctly overlay the image pair that you want to inspect.
117
+ Note that whenever you click on an `Original File` or `Processed File` in the table, it will replace the one that is currently shown in the viewer. So naturally, you'd first select the original image, and then the processed image to correctly see the image pair that you want to inspect.
119
118
 
120
119
  ### Label inspector
121
- If you have already segmented a folder full of images and now you want to maybe inspect and edit each label image, you can use the Label inspector, which automatically saves your changes to the existing label image once you click the `Save and Continue` button.
120
+ If you have already segmented a folder full of images and now you want to maybe inspect and edit each label image, you can use the `Plugins > T-MIDAS > Label inspector`, which automatically saves your changes to the existing label image once you click the `Save Changes and Continue` button (bottom right).
122
121
 
123
122
  ![image](https://github.com/user-attachments/assets/0bf8c6ae-4212-449d-8183-e91b23ba740e)
124
123
 
{napari_tmidas-0.1.2 → napari_tmidas-0.1.3}/.gitignore RENAMED
File without changes
{napari_tmidas-0.1.2 → napari_tmidas-0.1.3}/LICENSE RENAMED
File without changes
{napari_tmidas-0.1.2 → napari_tmidas-0.1.3}/MANIFEST.in RENAMED
File without changes
{napari_tmidas-0.1.2 → napari_tmidas-0.1.3}/setup.cfg RENAMED
File without changes
{napari_tmidas-0.1.2 → napari_tmidas-0.1.3}/tox.ini RENAMED
File without changes