Commits · a91b885ddd15f16eb7417fa5fae64073d599cc14 · ALMF / SVLT

Oct 16, 2023
- Populate input data in object classification model · a91b885d
  Christopher Randolph Rhodes authored 1 year ago
  
  a91b885d
- Populate input data in object classification model · ecf4bdfe
  Christopher Randolph Rhodes authored 1 year ago
  
  ecf4bdfe
- Can set input dataset parameters · f6429ae3
  Christopher Randolph Rhodes authored 1 year ago
  
  f6429ae3
- Start end-to-end transfer method to ilastik object model · ed29f8f6
  Christopher Randolph Rhodes authored 1 year ago
  
  ed29f8f6
Oct 14, 2023
- Harmonized unit index of object class · 9e018533
  Christopher Randolph Rhodes authored 1 year ago
  
  9e018533
- Export test zstacks, too · 68f0f8a9
  Christopher Randolph Rhodes authored 1 year ago
  
  68f0f8a9
Oct 13, 2023
- Apply labels to ilastik project file from training data · 75eacb9f
  Christopher Randolph Rhodes authored 1 year ago
  
  75eacb9f
- Changed label in existing project file · 215a8002
  Christopher Randolph Rhodes authored 1 year ago
  
  215a8002
- Export table of z-stack patch files and annotations · a7d1a717
  Christopher Randolph Rhodes authored 1 year ago
  
  a7d1a717
- Export table of z-stack patch files and annotations · 2a2cb813
  Christopher Randolph Rhodes authored 1 year ago
  
  2a2cb813
- Export binary masks, too · a2ace075
  Christopher Randolph Rhodes authored 1 year ago
  
  a2ace075
- Export patches as z-stack, too · a877929b
  Christopher Randolph Rhodes authored 1 year ago
  
  a877929b
- Implemented training-test split in label mask export · da091a5d
  Christopher Randolph Rhodes authored 1 year ago
  
  da091a5d
Oct 12, 2023
- Export z-stack of masks, encoded with object class from EcoTaxa table · 05af7b71
  Christopher Randolph Rhodes authored 1 year ago
  
  05af7b71
- Working on export zstack of object labels for ilastik ingest · 6f3aae76
  Christopher Randolph Rhodes authored 1 year ago
  
  6f3aae76
- Corrected translational error in mask file output · a2c2fa51
  Christopher Randolph Rhodes authored 1 year ago
  
  a2c2fa51
- Confirmed able to catch failures · f8295af0
  Christopher Randolph Rhodes authored 1 year ago
  
  f8295af0
- Moved more of batch runner into utility methods · cd2fe9b8
  Christopher Randolph Rhodes authored 1 year ago
  
  cd2fe9b8
- Cleaned up batch runner script with filepath utility functions · 7695e1f0
  Christopher Randolph Rhodes authored 1 year ago
  
  7695e1f0
- Exposed export product flags in batch runner · b7738938
  Christopher Randolph Rhodes authored 1 year ago
  
  b7738938
Oct 11, 2023

Maintain DataFrame index throughout workflow, export patch filenames and... · 8fd758a5

Christopher Randolph Rhodes authored 1 year ago

Maintain DataFrame index throughout workflow, export patch filenames and complete source filepaths to workflow DataFrame; prepopulate patch UUID

8fd758a5

Oct 10, 2023
- Cleaned up RGB export work · 8ce0262f
  Christopher Randolph Rhodes authored 1 year ago
  
  8ce0262f
- Corrected slicing mistake that caused error in edge cases · 61130b78
  Christopher Randolph Rhodes authored 1 year ago
  
  61130b78
- Chasing down bug in overlay annotations · aade8740
  Christopher Randolph Rhodes authored 1 year ago
  
  aade8740
- Implemented and tested rendering of contours and mask overlays · 00672758
  Christopher Randolph Rhodes authored 1 year ago
  
  00672758
- Support balanced multichannel overlay as RGB export · dc7d49bb
  Christopher Randolph Rhodes authored 1 year ago
  
  dc7d49bb
- Now test against multichannel TIF that includes chlorophyl · 6364418b
  Christopher Randolph Rhodes authored 1 year ago
  
  6364418b
Oct 09, 2023
- Export patch masks · 82e538b2
  Christopher Randolph Rhodes authored 1 year ago
  
  82e538b2
- Auto-increment folder number from highest number in root folder, tolerant of deleted intermediaries · c3a620f0
  Christopher Randolph Rhodes authored 1 year ago
  
  c3a620f0
- Focus 3d patches now brought into workflow parameters · c4884883
  Christopher Randolph Rhodes authored 1 year ago
  
  c4884883
- Corrected problem with autofocusing patches · 22210950
  Christopher Randolph Rhodes authored 1 year ago
  
  22210950
- Apply focus metric filters on unflattened arrays · 336ee16e
  Christopher Randolph Rhodes authored 1 year ago
  
  336ee16e
- Corrected bounding box annotation · 9161ccbf
  Christopher Randolph Rhodes authored 1 year ago
  
  9161ccbf
- Batch-export 3d patches and table of focus metrics; optionally annotate... · c35f657e
  Christopher Randolph Rhodes authored 1 year ago
  
  Batch-export 3d patches and table of focus metrics; optionally annotate bounding box at plane of best focus
  c35f657e
Oct 08, 2023
- comments only · ac54d240
  Christopher Randolph Rhodes authored 1 year ago
  
  ac54d240
Oct 05, 2023
- Prototyping adaptive sobel-based projection within 3d patch export · 4f53ce0c
  Christopher Randolph Rhodes authored 1 year ago
  
  4f53ce0c
- Allow parameterization of 3D patch projection · 0ba95284
  Christopher Randolph Rhodes authored 1 year ago
  
  0ba95284
- Finished implementing point-based projection · 8a5486aa
  Christopher Randolph Rhodes authored 1 year ago
  
  8a5486aa
- Corrected upper clipping range in focus-adaptive projection · 0c660d2b
  Christopher Randolph Rhodes authored 1 year ago
  
  0c660d2b
- Generalized to flattening multichannel images · 9bce8268
  Christopher Randolph Rhodes authored 1 year ago
  
  9bce8268