A silly bug has been found in trev. The symptoms are that when using
interactive quality clipping in pregap, "reject" has the action of
accepting a trace, and "exit" (to accept) has the action of rejecting
a trace. The bug does not affect non interactive quality clipping.
To fix this, rename your $STADENROOT/tables/trevrc to
$STADENROOT/tables/trevrc.backup and save the following file as
$STADENROOT/tables/trevrc.
------------------------- cut here ------------------------------------
#
# DO NOT EDIT THIS FILE
# This file has been automatically generated by using the
# 'speeduprc trevrc' command.
#
load_package %L/tk_utils {} tk_utils 1
set_menu trev_menu
global trev_menu
keylset trev_menu File {{M {1 0 left}} {Open {{C {1 16 OpenFile $restrict}}}} {Save {{C {4 4 SaveFile 0}}}} {{Save As} {{C {8 0 SaveFile 1}}}} {Reject {{C {16 0 Exit 1}}}} {Exit {{C {1 0 Exit 0}}}}} Edit {{M {1 0 left}} {{Left Quality} {{r {2 2 edit LCutOff SetBinding \$edit}}}} {{Right Quality} {{r {2 2 edit RCutOff SetBinding \$edit}}}} {{Left Vector} {{r {2 2 edit LVector SetBinding \$edit}}}} {{Right Vector} {{r {2 2 edit RVector SetBinding \$edit}}}} {Sequence {{r {34 32 edit Seq SetBinding \$edit}}}}
} View {{M {1 0 left}} {{Display Sequence} {{m {2 2}} {{base numbers} {{c {2 2 n SetTraceDisplay \$n \$s \$e \$t}}}} {sequence {{c {2 2 s SetTraceDisplay \$n \$s \$e \$t}}}} {edits {{c {2 2 e SetTraceDisplay \$n \$s \$e \$t}}}} {trace {{c {2 2 t SetTraceDisplay \$n \$s \$e \$t}}}}}} {Font {{m {1 0}} {Small {{r {1 0 font small SetFont}}}} {Medium {{r {1 0 font medium SetFont}}}} {Large {{r {1 0 font large SetFont}}}}}} {Search {{C {2 2 SearchProc}}}} {Information {{C {2 2 DisplayInfo}}}}} Help {{M {1 0 righ
t}} {About {{C {1 0 about}}}} {S0 {{S {}}}} {Contents {{C {1 0 show_help trev Contents}}}} {Introduction {{C {1 0 show_help trev Introduction}}}} {S1 {{S {}}}} {Index {{C {1 0 show_help trev Index}}}}}
global trev_defs
keylset trev_defs TREV {{WIN .trev} {FONT {{SMALL -misc-fixed-Medium-R-Normal--*-90-*-*-*-*-*-*} {MEDIUM -misc-fixed-Medium-R-Normal--*-120-*-*-*-*-*-*} {LARGE -misc-fixed-Medium-R-Normal--*-200-*-*-*-*-*-*}}}} TRACE {{WIN .trev.trace}} MENU {{FRAME .trev.menus}}
------------------------- cut here ------------------------------------
James
PS. Be warned that the above file contains a very long line - be
careful if you simply cut and paste this message that you do not
insert spurious newlines.
--
James Bonfield (jkb at mrc-lmb.cam.ac.uk) Tel: 01223 402499 Fax: 01223 213556
Medical Research Council - Laboratory of Molecular Biology,
Hills Road, Cambridge, CB2 2QH, England.
Also see Staden Package WWW site at http://www.mrc-lmb.cam.ac.uk/pubseq/
