Opened 11 years ago

Closed 11 years ago

## #724 closed defect (fixed)

# regression in NeedlemanWunsch

Reported by: | Peter | Owned by: | Peter |
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Priority: | critical | Milestone: | yat 0.9.1 |

Component: | utility | Version: | 0.9 |

Keywords: | Cc: |

### Description

Comparing speclust output using yat 0.8.2 and yat 0.9 I noticed a change in the output. Specifically comparing aligning the last two peaksets in data there are three pairs that should align well at ~852, ~1192, and ~1457. With a sigma = 1.0 they should give erf scores ~= 0.52, 0.99, 0.97 so the NW score should at least be 2.48 since we don't penalize gaps in speclust. With yat 0.9 I get 2e-308 (virtually zero) while with yat 0.8.2 I get 2.50.

### Change History (4)

### comment:1 Changed 11 years ago by

Status: | new → assigned |
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### comment:2 Changed 11 years ago by

(In [2845]) Extend test for NeedlemanWunsch? and check alignment score between peaksets. refs #724

### comment:3 Changed 11 years ago by

### comment:4 Changed 11 years ago by

Resolution: | → fixed |
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Status: | assigned → closed |

(In [2847]) Fixes #724. Adding another test for NeedlemanWunsch?. Fix bug in NW that score matrix was initialized with smallest positive double rather than smallest negative value. Also fixed an index error in underlying Aligner class causing the mess reported in #724.

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related to ticket #706