Open ycl6 opened 7 years ago
Thanks for reporting that. The bug is fixed in the new version. Please try to see whether that works.
@Congcong12 Thanks. I ran v1.1 without problem.
Should I be worried if squid message says ILP isn't successful
? What is the consequence if ILP isn't successful? Also, the squid score ranges from single digit to >32000, is there a recommendation of a suitable cutoff of this score?
That means for one connected component of genome segments, integer linear programming times out. SQUID won't predict TSV for that connected component, but result of other connected components is not affected.
There is no overall "score", but the numbers mean number of segments and edges (if I am guess what you refer to correctly). You don't need to worry about that.
@Congcong12 Thanks for the explanation.
I build squid from source and tried it on one of my sample, but encountered an error and it aborted: