Santiago Marco-Sola

Hi, > Hi, I'm using the code below to evaluate using wfa-lib to extend given a seed. Based on the docs, I though it would have to extend left and...

Ok, let us see if I can clarify this (I will update the README). All these values are positive integers or zero (to disable), and each one regulates how much...

> Ah, OK, so the value that one needs to set actually depends on the length of the sequences? Right! You can increment or decrement these values as you deem...

~~Add `attributes.heuristic.strategy = wf_heuristic_none;` if you want to compute the optimal/exact alignment (no heuristics).~~ I can see you already set ``` wavefront_aligner_set_heuristic_none(wf_aligner); ```

We have successfully executed the code on a 2017-MacBook Air (Intel i5-5350U) running a Monterey 12.3.1. ``` $> ./at ../data/long.txt --miniwfa=false --wfa2=true --ksw2=false | 20220420 16:53:37.514 | INFO | Number...

Ok, I've tried on an Intel i7-6500U (Ubuntu 18.04) and I couldn't reproduce the unaligned memory problem. But I can elaborate on the use-cases (starting with short-seqs):  These...

For the long:  I refer to the previous results. ``` $> ./at ../data/long.txt --miniwfa=false --wfa2=true --ksw2=false | 20220420 16:53:37.514 | INFO | Number of sequence pairs : 2301...

Then, for the clr1: We have 2 sequences of length 18779 and 18956, aligning at edit distance 3645 (e~19%). Seems that there are no big indels, but the error is...

Hi, Ragnar. Thanks for your comments. Obviously, I cannot easily change them in the published version, but I can change them in my latex version and upload them to Github....

This ticket should be open. Thanks for your comments @ksahlin. Let me address these questions/comments as soon as possible.