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We should have a class called ExpProtocol s.t.
`ExpProtocol([Algo1, Algo2, Algo3], Task, StrategyOfTaskVariantion) `can generate a plot where the x-coordinate is the degree of domain mixture or a c…
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The deploy_docker.py scripts works, but is cryptic to maintain. Now that docker-compose can do almost everything we need, we should switch to that. There needs to be a migration path as well.
We …
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The simple WSI viewer in DSA is close to **seemless**. Extremely impressive. Using this viewer is great for simple quality assessment of the database. I believe the pathologists at my department will …
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Hi Chandler,
Are you interested in a pull request to implement an H&E deconvolution and normalization pre-processing based on the work of Macenko et al. ([2009](https://doi.org/10.1109/ISBI.2009.51…
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I want make a better UI of DSA Web, but DSA is deployed in Docker.
I had do this of my DSA.
`$ cd digital_slide_archive
$ export HISTOMICS_TESTDATA_FOLDER=~/data/histomicsTK
$ mkdir -p $HISTOMIC…
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Use HistomicsTK (perhaps running in a container) to run a job to produce a nucleus ID pixel map image. This is an image with an integer value at each pixel encoding a numeric ID for the nucleus found …
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Make `SuperpixelSegmentation.py`, `FeatureExtraction.py` `Predict.py` also work within the context of girder / HistomicsTK. In particular allow them to get their inputs from and write their outputs t…
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I don't know why, but there is always significant delay when I right click to get the context menu. It may be querying the database and looping though all annotations or something, but it's definitely…
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I would like to have GPU enabled Slicer CLI tasks and would like to know how to pass additional flags for the task Docker container, as per official Docker guideline (or nvidia-docker), you need to sp…