24th September

Meeting 24/09/2020

Agenda:

Issues checklist and assignments

Attendance:

Alex Grimwood AG

Zac Baum ZB

Stefano Blumberg SB

Ester Bonmati EB

Adria Casamitjana AC

Yipeng Hu YH

Nina Montana Brown NB

Shaheer Saeed SS

Qianye Yang QY

Zhe Min ZM

Remi Delauny RD

Apologies:

Matt Clarkson MC

Yunguan Fu YF

Of Note:

We’re a MICCAI Educational Challenge Finalist! Next meeting to be postponed due to MICCAI (yH)

GitHub Issues requiring action:

• pre-commit - any issues, please reach out

• Test DeepReg on cluster with scheduler e.g. cscluster

  • assigned to EB, SB to offer verification

• Release, contrib commit and branch merging guidelines

  • Currently fully manual process

  • Needs people to investigate alternatives

  • Assigned to NB, ZB, ZM

• Proof read the Joss paper - EVERYONE

• Dependency on cloned repo

  • All paths are hardcoded, so only git clones work out the box (no PyPi)

  • Goal is to have pypi functional in ‘quick start’ form

  • Assigned to ZB

• API shown in readthedocs needs formatting

  • Assigned to AG

• New issue to be opened addressing undocumented functions - NB

  • AG and AC to be assigned

• Add free-form B-spline deformation layer

  • AC to be assigned?

• Deepreg.net website to be kept by show of hands

  • Need to find similar premade github webpage templates

  • Make a shortlist of sites to choose from (developed on Jekyll)

  • Assigned to ZB

  • Everyone to comment in issue regarding their favoured theme (current default is Cayman)

• Optimize dataloaders - investigate TFRecord

  • Assigned to SB

• Yaml automated checks required

  • Assigned to ZM and NB, with delegation to AG

• Testing and documentation for TFRecord

  • Assigned to SB in conjunction with YH and YF

• Port niftyreg 3d resampler / tf 3d resampler

  • Non-trivial task, feasibility study required YH