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Implements the kmeans++ algo to select the landmarks in the geometric method

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Former-commit-id: 732404a0dc6d7276e4e479dd2481aa4bd42d4ce5
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Eric Coissac
2023-12-11 16:07:03 +01:00
parent 37c3e16d5d
commit 2caaa62485
8 changed files with 259 additions and 140 deletions
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6
Release-notes.md
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@ -21,7 +21,11 @@
### Enhancement
- For efficiency purposes, now the `obiuniq` command run on disk by default. Consequently, the **--on-disk** option has been replaced by **--in-memory** to ask explicitly to use memory.
- For efficiency purposes, now the `obiuniq` command run on disk by default. Consequently, the **--on-disk**
option has been replaced by **--in-memory** to ask explicitly to use memory.
- Adds an option **--penalty-scale** to the `obipairing` and `obipcrtag` command to fine tune the pairing score
in the system of the alignment procedure by applying a scaling factor to the mismatch score and the gap score
relatively to the match score.
### Bug fixes