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HIP 2021
The summer school is being hosted in gather: https://gather.town/app/nkxyTbuI84smfiQk/HMC-Workshop-Lounge
Interactive 3D and virtual reality visualization for scientific images with sciview
Tutors:
- Kyle Harrington, Max Delbrueck Center for Molecular Medicine, [email protected]
- Deborah Schmidt, Max Delbrueck Center for Molecular Medicine, [email protected]
- Giuseppe Barbieri, Center for Advanced Systems Understanding (CASUS)@ HZDR, [email protected]
- Justin Buerger, Center for Advanced Systems Understanding (CASUS)@ HZDR, [email protected]
Sessions:
- 2021-09-28 13:00 – 2021-09-28 17:00 CEST
Pre-workshop instructions
If you use Windows or MacOS, then we suggest following the Getting Fiji instructions.
If you use Linux, then we suggest following the Running sciview through Python instructions.
Getting Fiji
- 1.
- 2.
Running sciview through Python (linux only)
- 1.
- 3.Unzip the contents and go to that location in your terminal
- 4.In your terminal:
conda env create -f sciview-hip.yml - 5.In your terminal:
conda activate sciview-hip - 6.In your terminal:
python launch.py
Getting the data
- scripts used in the workshop can be downloaded here - if you don't want to use git, you can just click the green Code button, and click Download ZIP
- data for the 3D segmentation demo can be downloadedsame file.
Developers
- Please sign up for a Github account if you do not already have one. If you are proficient at git, then this is not necessary
- To follow along with the developer session, we strongly recommend downloading IntelliJ. It will be difficult to provide support for any other development environment during the tutorial session.
Syllabus
- Introductions (Kyle, Deborah, Giuseppe, Justin, and everyone attending)
- Getting your sciview and development environment setup
- Overview of the sciview project
Last modified 8mo ago