[Bioperl-guts-l] [Bug 2476] "Undefined sub-sequence" when processing tblastx output

bugzilla-daemon at portal.open-bio.org bugzilla-daemon at portal.open-bio.org
Fri Nov 28 16:51:13 EST 2008


http://bugzilla.open-bio.org/show_bug.cgi?id=2476





------- Comment #7 from maj at fortinbras.us  2008-11-28 16:51 EST -------
The patches for LocatableSeq and HSPI employ the new mapping convention in
LocatableSeq. The test code + data run without exception or warn, and deliver
this output:

gb|BM780020.1|  263     3.5e-46
193
dbj|AV919105.1| 429     5.7e-44
96
dbj|AV928823.1| 383     3.2e-39
83.6666666666667
dbj|AU197451.1| 374     1.9e-37
90
dbj|AU176547.1| 374     1.3e-36
90

The length of AV928823.1 is not an integer--it says essentially that the length
is 83 aas + 2 bp. Not sure how deep this is.


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