Nelder Mead optimization for components, webpage and qrcode generation, and other #42
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Evgenii-Barannik
commented
Oct 17, 2023
•
Evgenii-Barannik
commented
- Solving Nelder Mead optimization problem for all nodes in connectivity components together. Thus we can fit all datasets from one component with a single maximal specific cell growth rate, but different C0 and CMax values.
- Genealogy graph now has info on both medium and protocol. Links on genealogy.svg are now clickable locally and link to toml files.
- Separate genealogy plots for each component.
- Separate fitting logs for each component.
- New log that describes found connectivity components.
- Webpage generation for components with packaging.
- QR code generation for components with packaging.
- Large part of the code is in better functional-like style.
- A lot of small quality of life changes: better info printed on execution, better warnings, better folder structure, better logs, better plots, etc.
Edges to "new" are not drawn, fn for pushing into warnings, legend for "No Parent".
Test with new summer data
2023 august corrections
Printing fitting results to separate text files Rewrite of toml reading Refactoring
Update main.rs
Update main.rs Update main.rs wip Renames
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Building using data from commit 58d1144e7c2c9bd69abd81b54293d062ef21a537 |
Update main.rs Update main.rs wip wip Thinning bug wip2 try_to_read_protocol_name wip try_to_read_protocol_name
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Building using data from commit 395823a200789386fddf4747acba170fca0254af |
Update main.rs Shorter legend
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Building using data from commit 5b239a4720821a5a3e9a1d1d29c2025c0adb4d31 |
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Building using data from commit fe5a53f2663fbd311505149d5d457fff2afab8ab |
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Building using data from commit 427d5af574a7c9ff837ddce258128d5b35432f6e |
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Building using data from commit 3a3d16f7ccdab46f7628097b75807ed8c93a1beb |
Update main.rs wip
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Building using data from commit 33079c8bf11cd62e832614d855a79a16345b5414 |
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Building using data from commit 810047830e3cfc67b6c13265c3cd0ac52e23af34 |
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Building using data from commit d6e268e89fcfa483b524f4aa81ab8d41ae2861d2 |
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Building using data from commit 056cc61062251475dfbec3a6e97569051c940dfa |
This reverts commit 056cc61.
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Building using data from commit c8646d64ecd173f41f8869aa0a54cc1d2f5f425a |
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Building using data from commit f51a9946d354cfee62c9148a8c42524c1bfe36dc |
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Building using data from commit e874c76d70415d7de680ee89ccbd0f6525e469f9 |
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After lots of suffering, we've found that this just does not make sense in terms of maximum likelyhood and switched to proper Bayesian |
