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Description
System and Software
- simulariumio Version: Forked from github repo, main branch, commit Mem3DG converter #195
- Python Version: 3.11.7
- Operating System: MacOS
Description
I have a NERDSS simulation converted to simularium file for web visualization.
- The binary conversion which worked previously cannot be played on the website now. When I hit the triangle start button, all buttons shows loading status and the video is never played. However, each single frame can be viewed normally.
- I also tried converting to Json. The website plays the video. However, all bonds (set as fibers) have wrong positions.
I checked the functionWriter._get_frame_buffer()and it seems binary writer and Json writer should give the same result.
Expected Behavior
What did you expect to happen instead?
- Binary file should be played normally.
- Json files should be viewed normally.
Reproduction
A minimal example that exhibits the behavior.
Files needed to reproduce is attached in this zip file. Please follow the instructions:
- Edit the import part of
simularium_converter.py, to make sure it finds thesimulariumiopackage. Or, you may remove all the sys.path setup and use installedsimulariumio. - Run the
simularium_converter.pyfile. - Converted files can be uploaded to
https://simularium.allencell.org/viewerfor visulization. The Json file ishet3mer.json.simulariumand the binary file ishet3mer.simularium
nerdss_simularium_conversion.zip
Environment
Any additional information about your environment
I use the base env of conda 24.11.3.
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bugSomething isn't workingSomething isn't working
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Status
✔ Done