Mercurial > repos > lldelisle > omero_hyperstack_to_gastruloid_measurements
comparison README.md @ 1:bd5771ff6aa3 draft
planemo upload for repository https://github.com/lldelisle/tools-lldelisle/tree/master/tools/omero_hyperstack_to_gastruloid_measurements commit aec2e2ead02236551c1e9c6d333034057daf0bca
| author | lldelisle |
|---|---|
| date | Wed, 20 Dec 2023 20:07:13 +0000 |
| parents | |
| children | 45375dc5dd8d |
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| 0:5396ab665901 | 1:bd5771ff6aa3 |
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| 1 # OMERO hyperstack to gastruloid measurements | |
| 2 | |
| 3 ## CHANGELOG | |
| 4 | |
| 5 ### 20231220 | |
| 6 | |
| 7 - Add a new parameter: segmentation_method which can be 'ilastik' or 'convert_to_mask'. If 'convert_to_mask' is chosen, it does an autothreshold. | |
| 8 - The tool_version has been changed from Phase to White | |
| 9 | |
| 10 ### 20230728 | |
| 11 | |
| 12 - Add a new parameter: keep_only_largest which allows to keep only the largest ROI for each stack | |
| 13 | |
| 14 ### 20230727 | |
| 15 | |
| 16 - Add new parameters (ilastik_label_BG and probability_threshold_BG) to be able to generate a ROI for background. | |
| 17 - Add XCentroid and YCentroid to the result table | |
| 18 | |
| 19 ### 20230628 | |
| 20 | |
| 21 - Change RoiWrapper to ROIWrapper | |
| 22 | |
| 23 ### 20230623 | |
| 24 | |
| 25 - Be more robust to OMERO reboot: | |
| 26 - 'rescue' allows to only process images which does not have ROIs and tables and generate final table | |
| 27 - When making a query to omero repeat it after 0 minutes if it fails and again with 10, 60, 360, 600. | |
| 28 | |
| 29 ### 20230405 | |
| 30 | |
| 31 - New parameter 'use_existing' allows to recompute only the spine | |
| 32 | |
| 33 ### 20230324 | |
| 34 | |
| 35 First release |