kreshuklab/plant-seg

Issues

• Areas of GUI improvement before v2.0.0-alpha

  #324 opened 12 days ago by qin-yu
  4

• Qt Warning: `QMainWindowLayout::count: ?`

  #329 opened 11 days ago by qin-yu
  0

• 2D Segmentation CNN Postprocessing Dimensions Error

  #301 opened a month ago by FliFlaFlock
  2

• Need to use `Enum` in a better way

  #325 opened 12 days ago by qin-yu
  0

• Cancel split/merge in proofreading

  #244 opened 4 months ago by Buglakova
  1

• Use of `Enum` should be consistent

  #319 opened 18 days ago by qin-yu
  0

• 2D watershed errors in v2

  #315 opened 19 days ago by qin-yu
  2

• Proofreading initialisation doesn't give proofreading buttons in v2

  #316 opened 19 days ago by qin-yu
  1

• Complexity in prediction widget

  #308 opened a month ago by qin-yu
  3

• GL ES 2.0 error

  #309 opened 22 days ago by z-lumley
  3

• Error while trying to open GUI in the latest PlantSeg version

  #274 opened 4 months ago by adkrishnan
  9

• Plantseg --gui, no buttons to begin the workflow

  #241 opened 5 months ago by Giannisbiol
  11

• Heuristics for parameters: patch size, halo, and rescale factor

  #250 opened 4 months ago by qin-yu
  1

• Model resolution should allow `None` to avoid a default like `(1.0, 1.0, 1.0)`

  #254 opened 4 months ago by qin-yu
  2

• PlantSeg v2 `handle_multichannel` should handle output not input

  #292 opened 2 months ago by qin-yu
  0

• PlantSeg pipelines do not reuse code

  #222 opened 6 months ago by qin-yu
  1

• "Open File" widget cannot load two datasets from the same HDF5 file

  #282 opened 4 months ago by qin-yu
  0

• Remove layout ZCXY

  #294 opened a month ago by lorenzocerrone
  0

• No semantic type for probability maps

  #295 opened a month ago by qin-yu
  0

• Axis order might have been inconsistent

  #289 opened 2 months ago by qin-yu
  3

• Should functionals take PlantSeg classes e.g. `VoxelSize` or `tuple[float, float, float]`

  #290 opened 2 months ago by qin-yu
  1

• Failed to load or parse config_train.yml: 'loaders'

  #293 opened 2 months ago by Yifan-debug
  0

• PlantSeg v2 uses `napari` as folder name which conflicts with Napari

  #287 opened 2 months ago by qin-yu
  1

• PlantSeg v2 I/O Utility's `VoxelSize` only allows `µm`

  #288 opened 2 months ago by qin-yu
  1

• Non-OOM error raised by PyTorch during `find_batch_size()`

  #286 opened 2 months ago by OriKovacsiKatz
  4

• Refactor Actions because docs build contains conda build

  #283 opened 3 months ago by qin-yu
  0

• Proofreading tool doesn't allow adding scribbles

  #280 opened 4 months ago by Buglakova
  1

• `Need more labels` error from `vigra` during watershed in classic GUI

  #281 opened 4 months ago by athulrv
  1

• Cropping widget allows float, should be int only

  #278 opened 4 months ago by qin-yu
  0

• CUDA memory not freed after OOM error

  #268 opened 4 months ago by qin-yu
  1

• PlantSeg crash on apple silicon

  #273 opened 4 months ago by lorenzocerrone
  2

• Pin python=3.11 for MacOS

  #276 opened 4 months ago by lorenzocerrone
  0

• Watershed uses only one CPU and runs very slow on large volumes

  #270 opened 4 months ago by qin-yu
  2

• Rearrange tabs in napari

  #246 opened 4 months ago by lorenzocerrone
  2

• Tests for model zoo is always skipped

  #261 opened 4 months ago by qin-yu
  0

• Provide a theoretical minimum halo for each model

  #251 opened 4 months ago by qin-yu
  0

• Need tests for core functionalities

  #253 opened 4 months ago by qin-yu
  0

• Error reading and writing tiff in plantseg environment

  #243 opened 4 months ago by Buglakova
  3

• Documentation deployment failure

  #245 opened 4 months ago by qin-yu
  1

• No cuda selection at predictions on Napari GUI

  #242 opened 5 months ago by Giannisbiol
  5

• AttributeError: 'str' object has no attribute 'open'

  #236 opened 5 months ago by Giannisbiol
  6

• Headless mode cannot handle multi-channel output

  #238 opened 5 months ago by qin-yu
  1

• Mirror pad (and halo?) doesn't consider 4D (`CZYX`) cases

  #232 opened 5 months ago by qin-yu
  0

• Some tests for Zarr are invalid

  #234 opened 5 months ago by qin-yu
  0

• Type bug in headless.py

  #235 opened 5 months ago by qin-yu
  1

• Need to make use of predictions from multiple models

  #225 opened 5 months ago by qin-yu
  0

• Conda build workflow fails because of branch name has `/` or `-`

  #219 opened 6 months ago by qin-yu
  3

• Napari UI: Add model widget only takes two decimal in resolution

  #226 opened 5 months ago by qin-yu
  1

• Broken Environment - RuntimeError: GET was unable to find an engine to execute this computation

  #228 opened 5 months ago by qin-yu
  4

• Re-train all PlantSeg models to eliminate hallucination during inference

  #224 opened 6 months ago by qin-yu
  0