[Bioperl-l] verbose turned on by PrimarySeq->new()

Dave Messina David.Messina at sbc.su.se
Fri Nov 28 07:11:13 EST 2008

Hey everyone,
In trying to figure out why the SeqIO::largefasta tests were being verbose
about tempfile cleanup, I discovered that the PrimarySeq constructor turns
on verbose, which gets inherited by LargePrimarySeq, which in turn cause
RootIO to overshare about the temp files. (see PrimarySeq.pm line 164).

The verbose flag was put in when Mira Han added -nowarnonempty. Turning
verbose off doesn't seem to cause any tests to fail, so it looks like it
might have been turned on for initial debugging purposes and never removed.

Mira (or anyone else in the know), could you comment on this?


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