deepcell-tf

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Setting up development environment via `requirements` currently broken for Python >=3.10

1

I failed to update the `deepcell-toolbox` dependency in `requirements.txt` for the 0.12.4 release - this means that setting up a development environment with pip (i.e. `pip install -r requirements.txt`) is...

rossbar

Why do I perform so poorly on the tissuenet dataset?

4

i cropped the training images so that the length and width are both 256. my training code is as follows: ``` classes = { 'inner_distance': 1, # inner distance 'outer_distance':...

wzr0108

Define `split_datasets` in `data.tracking` module instead of `data` package

2

The `split_datasets` function is only used internally in the `data.tracking` module - it would clean things up a bit to define the function there rather than at the package level...

rossbar

Empty test suite for model_zoo.tracking

1

The linter pointed out that `deepcell/model_zoo/tracking_test.py` doesn't actually contain any tests. Perhaps this is because tests live in `deepcell_tracking` instead, or should we be focused on adding tests here?

rossbar

There are several instances in the test suite which create `keras_preprocessing.image.ImageDataGenerator` instances where both `zca_whitening` and `featurewise_std_normalization` are set to `True`, for example: https://github.com/vanvalenlab/deepcell-tf/blob/17b54eb26ebcf0e373b7e46b2ca353b5374da2f9/deepcell/image_generators/image_generators_test.py#L484-L490 However, when `zca_whitening` is set, `featurewise_std_normalization`...

rossbar

PanopticNet train four head error

2

## I use deepcell model train four head, prompt loss error. this is my code and error. ``` from deepcell.model_zoo.panopticnet import PanopticNet classes = { 'inner_distance': 1, # inner distance...

fanweiya

cropped the training images to 256*256, i met some errors

2

I cropped the training images so that the length and width are both 256, and the original image will become 4 small images, but the result of this training is...

wzr0108

Segmentation fault with large image segmentation

1

Hello, I am using Mesmer to segment large images from CODEX multiplexed imaging. This has worked well for all of the data, but since beginning to generate images of larger...

jonhsussman

- Update Dynamic Nuclear Net with addition of Hela CTC movies to version 1.1 - Update nuclear segmentation and tracking models after retraining on the updated dataset

msschwartz21

Mesmer flaky instantiation on HPC cluster

2

**Describe the bug** It seems like Mesmer reads the TF SavedModel in write mode which means that multiple processes cannot load Mesmer simultaneously. This results in flaky instantiation when running...

colganwi