---
# System prepended metadata

title: Agenda 2023-04-27
tags: [meeting, update]

---

# Agenda 2023-04-27

###### tags: `meeting` `update`
- Attendees
    - [x] Adam
    - [x] Alan
    - [x] Chi-Li
    - [x] Eric
    - [x] Lucy
    - [x] Micah
    - [x] Nathan
    - [x] Nenad
    - [ ] Joshua
    - [x] Tamie
- Previous Action Items
    - [ ] Micah : send Alan corrupt image file example via [Zulip ](https://calliphlox.zulipchat.com/#narrow/stream/321223-general/topic/Setting.20Chunk.20Size.20Problems)
    - [ ] [Micah : don't delete 1k frame files on next run and point Cameron for benchmarking (visualizing chunk size)](https://calliphlox.zulipchat.com/user_uploads/42608/iguwsjkkARupFVR_GqpEFpXS/chunking_2023-04-20.log)

- Topics
    - Micah ExA-SPIM integration update
    - [Acquire is open-sourced! ](https://github.com/acquire-project)
    - Preprint status
    - Potential for Hackathon/Workshop event (target H2 2023?)
    - 2023 - 2025 CRA focus
        - CZI focus:
            - Learning what type of challenges occur when scaling to a new system
            - Input from continued usage and experimentation w/ new-different sample types
            - What were the requirements Adam/AIND specified to get to where they are now/future?
        - **What is AIND looking for?**


- Meeting Minutes
    - Corrupt image file
        - Runtime.abort doesn't abort; stuck on setting runtime in the next iteration - also noticing this on the new computer
        - Stalls for 30 seconds and then goes back to the top of the loop - stalls forever after setting new configs on the next loop/stack at runtime config
        - Micah writing to TIFF and ZARR and to trash - issue still persists
        - [ ] Alan : to investigate abort
    - Acquire on ExA-SPIM computer
        - Micah ran into build issues on both ExA-SPIM and diSPIM computer when running open sourced Acquire
        - Nathan suggests to stick with cpx-python
            - ReadMe needs to be updated
        - Nathan wants to get Acquire into PyPI and install can run through there
    - Acquire is open sourced; updates still needed:
        - Build tests passing
        - Documentation
        - Licensing check
        - Demo video?
    - Support additional camera types?
        - Refactor enables us to conveniently add more camera driver support
            - ANDOR
            - Photometrics (PCO)
    - Update on MindScope system
        - Software is deployed and working. But system is quite old and hardware updates/repairs are needed
        - Frames are dropped during acquisition due to stage issue
        - [x] Nathan : investigate trigger mode (enable frame trigger on camera, start acq, call abort - test)
    - Preprint status
        - Under review at AIND - deadline shifted to Friday, 5/26
        - [x] Eric : Share value prop documentation w/ AIND team
        - E2E workflow YouTube videos will be uploaded to AI channel
    - Hackathon/community event for H2 2023?
        - Gather a collection of partners (AIND, CZI, Janelia, BioHub, Kevin Eliceri, Mesospim team, ImSwitch etc.) together to discuss and brainstorm
        - Host at the BioHub HQ? They have hardware there.
        - [ ] Team : Identify representatives from each of the institutions and begin conversation on who/what/where/when
    - AIND needs & wants
        - multiscale pyramid
        - "on the fly" processing
        - revisit downstream pipeline requirements
        - support on the Python side of Acquire

- Action Items
    - [ ] Alan : to investigate runtime.abort issue
    - [ ] Nathan : investigate trigger mode (enable frame trigger on camera, start acq, call abort - test)
    - [ ] Team : For Hackathon, identify representatives from each of the institutions and begin conversation on who/what/where/when