Closed pb-cdunn closed 7 years ago
I reviewed the code for LAdump. Saw a couple of hinky things in there, but none that explained your phenomena. Did clean it up a bit anyway.
Just checked in a version of DALIGNER module where LAmerge uses memmove, daligner now will error exit if the /tmp file area overflows, and with the slight cleanup of LAdump just in case it does fix the problem (although I think not).
If the problem still persists, please send me the data set. Looks small with only 3 overlaps in it.
-- Gene
On 11/17/16, 5:04 PM, Christopher Dunn wrote:
It seems that |LAdump -t| shows the trace-points for the first alignment only.
In fact, |LAdump -cd| shows all alignements, but |LAdump -cdt| shows only the first.
E.g.
|+ P 3 % P 1
- T 564 % T 258 @ T 258 P 92772 92773 c . C 5464 18218 0 12802 T 129 ... |
Even though it says |P3|, there are no other sections. And we see only |129| trace-points in the dump, not |564|.
Can you verify that?
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It seems that
LAdump -t
shows the trace-points for the first alignment only.In fact,
LAdump -cd
shows all alignements, butLAdump -cdt
shows only the first.E.g.
Even though it says
P3
, there are no other sections. And we see only129
trace-points in the dump, not564
.Can you verify that?