abpoa_add_graph_sequence assert(0) on zero-length input → Python process aborts

[Goatofmountain]

Hello ! I got following error when I'm trying to use abPOA algorithm.

When any sequence in the input list has length 0, abPOA prints
[abpoa_add_graph_sequence] seq_l: 0 start: 0 end: 0.
and then immediately causes the whole Python interpreter to abort. From the user side the shell prompt simply disappears; no Python exception is raised and no partial result is returned.

Here is the Minimal reproducible example:

import pyabpoa as pa
seqs = ['', 'ACG', '', '','', 'ATCG']          # first sequence is empty
aligner = pa.msa_aligner()
aligner.msa(seqs, out_cons=False, out_msa=True)   # <-- process dies here

Then the console output stops after the debug line above.

[yangao07]

Hi, this happens when the first input seq is empty. The latest commit fixed this error. Please re-install pyabpoa from source: https://github.com/yangao07/abPOA/tree/main/python#install-pyabpoa-from-source