---
# System prepended metadata

title: IDR-NGFF-2020-10-02
tags: [NGFF]

---

---
tags: NGFF
---

# IDR-NGFF-2020-10-02

Attending: Petr, Seb, Dom, Will, J-M, Josh, David

## Clients
- vizarr (Will): No Z/T sliders, no HCS. But otherwise :thumbsup: on the strategy.

## Datasets
 - Seb
     - decoupled idr0033 metadata repo to simplify work.
     - investigated PNGs: they are masks of the *outlines* (info lost)
     - Simon has proposed recreating the masks; Seb thinnks it's non trivial.
     - Attempting to in-place attach the inline PNGs perhaps on prod89
     - Then someone can consume these as overlays
     - Likely better regenerating them ourselves
     - Where will the ROIs go? orig. or illum corrected. Propose on corrected.
  - J-m: do we have a pipeline? Yes. Under /uod/idr/filesets
  - Seb: should we attach the pipeline at the screen level? 

## Format

- Josh: investigated ome-cli-zarr
  - Need for a test-suite linking ome-zarr-py, omero-ms-zarr, have server deployed in Docker, import/export
  - Prototype to be pushed in repository
  - Modelled on ecdp publication repository/ome-files-performance
  - 1 test suite per ngff space. Test upload/export, Java/Python

## Microservices

- Dom: trying to get image-region ms running
    - Josh: Simon had Docker-based one running
    - Dom: issue with java/gradle version. Josh: see appveyor for Gradle version
    - Eventually ansible files deploying micro-service

## AOB
- Josh and Will away next week
- Jean-Marie: rename guides sooner rather than later. Will test CellProfiler pipeline