Deepak Roy Chittajallu

This issue concerns enhancing the NucleiDetection CLIs to use overlapping tiles. This may result in issues such as * same nuclei being detected in neighboring overlapping tiles * nuclei cut...

Currently we are using TravisCI for CI testing on linux. This issue is about using CircleCI and AppVeyor for CI testing on OSX and Windows, respectively. Once this is done,...

converter_path raises NetworkXNoPath exception without specifying src and dest types

9

@zachmullen @danlamanna [worker.format.converter_path](https://github.com/girder/girder_worker/blob/master/girder_worker/format/__init__.py#L95-L113) raises NetworkXNoPath but does not specify source and target types between which the conversion is being made. Below is my task spec: ``` { "auto_convert": true, "cleanup":...

Support enumeration parameters in girder-worker task spec

6

Enumeration parameters (wherein one of a discrete set of values are allowed for the parameter) are a common need for many tasks. The Slicer CLI [XML spec](https://www.slicer.org/wiki/Documentation/Nightly/Developers/SlicerExecutionModel#XML_Schema) supports string, integer,...

This issue involves developing a way to enable girder_worker tasks to report progress using named pipes that are currently used to stream read/write inputs/outputs. It would be nice to abstract...

Ability to track progress of an ffmpeg command

16

Is there a way to track a progress after running an ffmpeg? For example, below is what i would like to do: ```python import ffmpeg ffmpeg.input('test.mp4').output('frame_%06d.jpg').run() ``` This command writes...

Make augment_images return augmentation parameters instead of augmented images

2

I just landed at this package and am amazed by the functionality it provides. Will be using it a lot on my computer vision + machine learning projects. I was...

Add a menu for Dask cluster setup and configuration in the HistomicsTK front-end

1

[Here](https://distributed.readthedocs.io/en/latest/setup.html) is some info on how to setup a Dask cluster Once the cluster is setup, the cluster scheduler address can then be passed to Slicer CLIs of HistomicsTK that...

Thank you for the great work on siglip paper. In particular, the gains in metrics at small batch sizes are impressive. [Sigmoid Loss for Language Image Pre-Training](https://arxiv.org/abs/2303.15343) I tried using...