SchmollerLab/Cell_ACDC issues and pull requests

#482 - Cannot add more than one click point to point layer

Issue - State: closed - Opened by ptlzon 12 months ago - 5 comments
Labels: :bug: Bug

#481 - unexpected keyword argument 'net_avg' error when loading cellpose model

Issue - State: open - Opened by ptlzon 12 months ago - 5 comments
Labels: :bug: Bug

#480 - Error loading segment anything model running on CPU

Issue - State: closed - Opened by ptlzon 12 months ago - 2 comments
Labels: :bug: Bug

#479 - When changing z-slice with object highlighted in 3D segmentation the object loses highlighting

Issue - State: closed - Opened by ElpadoCan about 1 year ago
Labels: :bug: Bug

#478 - Z-slices scrollbar never enabled after switching viewed plane

Issue - State: closed - Opened by ElpadoCan about 1 year ago
Labels: :bug: Bug

#477 - Prompt to restart acdc after installing tables

Issue - State: closed - Opened by ElpadoCan about 1 year ago
Labels: :balloon: Enhancement

#476 - Do not allow swapping mothers if division was annotated on wrong bud

Issue - State: closed - Opened by ElpadoCan about 1 year ago
Labels: :balloon: Enhancement

#475 - Scrolling through frames with `Next` pressed causes slow-down in cell cycle analysis mode

Issue - State: closed - Opened by ElpadoCan about 1 year ago - 1 comment
Labels: :balloon: Enhancement

#474 - Saving acdc_output CSV file from tracker must convert boolean columns to integer

Issue - State: closed - Opened by ElpadoCan about 1 year ago
Labels: :bug: Bug

#473 - Add a "Switch viewed plane" button besides z-slice scrollbar

Issue - State: closed - Opened by ElpadoCan about 1 year ago
Labels: :rocket: New feature

#472 - CellACDC_normal_division_tracker lineage tree has funny values when saved

Issue - State: closed - Opened by Teranis about 1 year ago
Labels: :bug: Bug

#471 - Show tree info does not seem to work

Issue - State: closed - Opened by ElpadoCan about 1 year ago
Labels: :bug: Bug

#470 - New cell cycle columns

Issue - State: closed - Opened by ElpadoCan about 1 year ago
Labels: :balloon: Enhancement

#469 - Cell cycle annotations edge case when swapping mother-buds pairs

Issue - State: closed - Opened by ElpadoCan about 1 year ago
Labels: :bug: Bug

#468 - Cell_ACDC_normal_division tracker lost tracked IDs are not ignored

Issue - State: closed - Opened by ElpadoCan about 1 year ago
Labels: :bug: Bug

#467 - Probable error when adding a new object and going to next frame

Issue - State: closed - Opened by ElpadoCan about 1 year ago
Labels: :bug: Bug

#466 - Error when using Cellpose with two 3D channels

Issue - State: closed - Opened by ElpadoCan about 1 year ago
Labels: :bug: Bug

#465 - Improve and add descriptions of variables in pomBseen and pomBseen nuclear

Issue - State: closed - Opened by Teranis about 1 year ago
Labels: :balloon: Enhancement

#464 - Do not ignore `ValueError` in `gui.guiWin.tracking`

Issue - State: closed - Opened by ElpadoCan about 1 year ago
Labels: :bug: Bug

#463 - Initialise real time tracker only when switching to segm and track mode

Issue - State: closed - Opened by ElpadoCan about 1 year ago
Labels: :balloon: Enhancement

#462 - Visual annotations disappear when switching from viewer to segm and track on future non visited frame

Issue - State: closed - Opened by ElpadoCan about 1 year ago - 2 comments
Labels: :bug: Bug

#461 - Real-time tracking in GUI should return a list of IDs where the reason why they are missing is known

Issue - State: closed - Opened by ElpadoCan about 1 year ago
Labels: :rocket: New feature

#460 - Background worker for integrity checking of cell cycle annotations

Issue - State: closed - Opened by ElpadoCan about 1 year ago - 1 comment
Labels: :balloon: Enhancement

#459 - Error on post processing with custom features

Issue - State: closed - Opened by ElpadoCan about 1 year ago
Labels: :bug: Bug

#458 - Critical error on using brush

Issue - State: closed - Opened by ElpadoCan about 1 year ago - 1 comment
Labels: :bug: Bug

#457 - Timelapse tracks visualization and correction tool

Issue - State: open - Opened by ElpadoCan about 1 year ago
Labels: :rocket: New feature

#456 - CellACDC_normal_division

Pull Request - State: closed - Opened by Teranis about 1 year ago

#455 - Visualize features data from the `acdc_output` file

Issue - State: open - Opened by ElpadoCan about 1 year ago
Labels: :rocket: New feature

#454 - Add second step to Cell-ACDC tracker to track based on distance

Issue - State: closed - Opened by ElpadoCan about 1 year ago
Labels: :bangbang: Priority, :rocket: New feature

#453 - Store settings for keeping tools active or not after using them

Issue - State: closed - Opened by ElpadoCan about 1 year ago
Labels: :bug: Bug

#452 - Error on repeating segmentation on new frames after last segmented

Issue - State: closed - Opened by ElpadoCan about 1 year ago
Labels: :bug: Bug

#451 - Custom annotations are not cleared in Viewer when dragging frames scrollbar to the right

Issue - State: closed - Opened by ElpadoCan about 1 year ago
Labels: :bug: Bug

#450 - Custom annotations with timelapse data are duplicated

Issue - State: closed - Opened by ElpadoCan about 1 year ago
Labels: :bug: Bug

#449 - Add togglable option to annotate movement between consecutive frames

Issue - State: open - Opened by ElpadoCan about 1 year ago
Labels: :balloon: Enhancement

#448 - When running BABY warn user that it is better to crop single traps

Issue - State: open - Opened by ElpadoCan about 1 year ago
Labels: :balloon: Enhancement

#447 - Flatten BABY masks starting from largest cell down to smallest

Issue - State: closed - Opened by ElpadoCan about 1 year ago
Labels: :balloon: Enhancement

#446 - Add `pixel_size` parameter to segmentation with BABY

Issue - State: closed - Opened by ElpadoCan about 1 year ago - 1 comment
Labels: :balloon: Enhancement

#445 - Save additional information when using BABY

Issue - State: open - Opened by ElpadoCan about 1 year ago
Labels: :balloon: Enhancement

#444 - When using BABY in module 3 GUI warn that only 2D model can be tested

Issue - State: open - Opened by ElpadoCan about 1 year ago
Labels: :balloon: Enhancement

#443 - Annotate cell cycle with BABY

Issue - State: open - Opened by ElpadoCan about 1 year ago
Labels: :rocket: New feature

#442 - Right-side dock widget with list of objects and checkboxes for `Visible` and `Done`

Issue - State: open - Opened by ElpadoCan about 1 year ago - 1 comment
Labels: :rocket: New feature

#441 - Allow disabling mirrored cursor on the two-images layout GUI

Issue - State: closed - Opened by ElpadoCan about 1 year ago
Labels: :balloon: Enhancement

#440 - Feat: added pomBseen_nuclear segmentation model

Pull Request - State: closed - Opened by Teranis about 1 year ago

#439 - Multi exp concat should also save the full path

Issue - State: closed - Opened by ElpadoCan about 1 year ago
Labels: :balloon: Enhancement

#438 - Disable second channel selector for cellpose models if they do not require it

Issue - State: closed - Opened by ElpadoCan about 1 year ago
Labels: :balloon: Enhancement

#437 - Allow skipping segmentation in module 2 if segmentation file is found

Issue - State: open - Opened by ElpadoCan about 1 year ago
Labels: :balloon: Enhancement

#436 - Feat: Updated GUI element in segementation module, closes #435

Pull Request - State: closed - Opened by Teranis about 1 year ago

#435 - UI prompts in the "Segmentation Module"

Issue - State: closed - Opened by Teranis about 1 year ago
Labels: :balloon: Enhancement

#434 - Fata error after selecting not to align images again

Issue - State: closed - Opened by Teranis about 1 year ago - 1 comment
Labels: :bug: Bug

#433 - Trying to install delta2 segmentation model automatically causes a fatal error

Issue - State: closed - Opened by Teranis about 1 year ago - 1 comment
Labels: :bug: Bug

#432 - Error when visitng previous frame in viewer mode

Issue - State: closed - Opened by ElpadoCan about 1 year ago
Labels: :bug: Bug

#431 - Edit toolbar gets disabled on first frame

Issue - State: closed - Opened by ElpadoCan about 1 year ago - 1 comment
Labels: :bug: Bug

#430 - Keep manual tracking messagebox is broken

Issue - State: closed - Opened by ElpadoCan about 1 year ago
Labels: :bug: Bug

#429 - GUI: Ruler measurement should be communicated more clearly and it should stay even if mouse moves away from image

Issue - State: closed - Opened by ElpadoCan about 1 year ago
Labels: :balloon: Enhancement

#428 - Help button in `QDialogModelParams` is broken

Issue - State: closed - Opened by ElpadoCan about 1 year ago
Labels: :bug: Bug

#427 - Communicate whether segmentation is 3D or not in the GUI

Issue - State: closed - Opened by ElpadoCan about 1 year ago
Labels: :balloon: Enhancement

#426 - Add info button besides models parameters with text from docstring

Issue - State: closed - Opened by ElpadoCan over 1 year ago
Labels: :balloon: Enhancement

#425 - Feat: pomBseen tracker

Pull Request - State: closed - Opened by Teranis over 1 year ago

#424 - Feat: pomBseen tracker

Pull Request - State: closed - Opened by Teranis over 1 year ago

#423 - Utility to filter segmented objects based on list of coordinates

Issue - State: closed - Opened by ElpadoCan over 1 year ago
Labels: :balloon: Enhancement, :moon: New utility

#422 - Unable to install ACDC (Failed building wheel for opencv-python-headless) on intel based Mac

Issue - State: closed - Opened by emilyjyang over 1 year ago - 10 comments
Labels: :bug: Bug

#421 - Support for Python 3.11

Issue - State: open - Opened by ElpadoCan over 1 year ago
Labels: :rocket: New feature

#420 - Critical error in prep data

Issue - State: open - Opened by bjc45276 over 1 year ago - 6 comments
Labels: :bug: Bug

#419 - When right image is segmentation labels the IDs are not displayed

Issue - State: closed - Opened by ElpadoCan over 1 year ago
Labels: :bug: Bug

#418 - Issue with segmenting very long S. pombe cells, where ACDC breaks up a given cell into multiple cells

Issue - State: open - Opened by makotojohira over 1 year ago - 4 comments
Labels: :bug: Bug

#417 - LabelItem on top left corner when adding manual background obejct

Issue - State: closed - Opened by ElpadoCan over 1 year ago
Labels: :bug: Bug

#416 - The parameter for post-processing "Minimum number of z-slices" should not be visible with 2D segm

Issue - State: closed - Opened by ElpadoCan over 1 year ago
Labels: :balloon: Enhancement

#415 - Shift+brush is not functional

Issue - State: open - Opened by ElpadoCan over 1 year ago
Labels: :bug: Bug

#414 - Feat: Overhaul of docs; Addition of bdir to docs and updating format to .rst; Update of README to .rst and content; Addition of Tooltip to docs with extraction to the program

Pull Request - State: closed - Opened by Teranis over 1 year ago

#413 - Feat: Overhaul of docs; Addition of bdir to docs and updating format to .rst; Update of README to .rst and content; Addition of Tooltip to docs with extraction to the program

Pull Request - State: closed - Opened by Teranis over 1 year ago

#412 - Feat: Overhaul of docs; Addition of bdir to docs and updating format to .rst; Update of README to .rst and content; Addition of Tooltip to docs with extraction to the program

Pull Request - State: closed - Opened by Teranis over 1 year ago - 1 comment

GitHub / SchmollerLab/Cell_ACDC issues and pull requests