---
# System prepended metadata

title: Agenda 2022-12-01
tags: [meeting, update]

---

# Agenda 2022-12-01

###### tags: `meeting` `update`
- Attendees
    - [x] Adam
    - [x] Chi-Li
    - [x] Eric
    - [x] Micah
    - [x] Nathan
    - [x] Nenad
    - [ ] Joshua
    - [x] Justine
    - [x] Tamie
- Previous Action Items
    - AIND data will be kept on AWS, but won't stay long
        - [x] Adam will sync with David on how to best go about this
            - [ ] Need to revisit language in CRA re: data sharing (esp. w/ hosting on BioHub)
    - [ ] Metadata support
        - [x] Nathan: Design doc on Data Model
        - [x] Nathan: Implementing API
        - [x] Nathan: file format support (TIFF side-by-side w/ JSON)
        - [ ] Alan: Zarr MVP

- Topics
    - diSPIM update
    - Pixel size metadata
    - dimension sequence metadata
    - General metadata approach
    - Micah GUI demo
    - Zarr MVP demo

- Meeting Minutes
    - diSPIM update
        - Team has been running Paulina's samples
            - 6 datasets acquired (same volume; 12 TB)
        - **Current bottleneck**: downstream processing of stitching 
        - Adam will be sending data to another group to run processing using Matlab as a POC
        - Acquire software is not crashing on acquisitions
    - Pixel size metadata
        - [ ] Nathan : add parameters around pixel size
            - pixel size is optional in the API
            - TIFF spec requires pixel size
    - dimension sequence metadata
        - ImageJ has this, however, z and t planes do get swapped/interchanged
        - This is relevant in both ZAR and TIFF because the user needs to specify context for dimension planes (z & t)
    - General metadata approach
        - AI team to provide requirements
        - Nathan to fit to those req. as needed
        - Adam receiving template in coming week
    - Micah GUI demo
        - 3D map depecting acquisition location in relation
    - Zarr MVP demo
        - Alan got a Zarr MVP working!
            - Zarr folders are created; Single Zarr chunk file at ~10GB in example shown
            - Takes napari a while to load
            - New fix will replace '.' separators with '-'
        - New fix will need to implement chunking during acquisition

- Action Items
    - [ ] Nathan : add parameters around pixel size
    - AIND-CZI/Biohub data sharing
        - [ ] David needs to get info back to Adam
        - [ ] Need to revisit language in CRA re: data sharing (esp. w/ hosting on BioHub)