replaced with ExonerateGappedBest1_55_perc_id

misc-scripts/xref_mapping/XrefMapper/Methods/ExonerateGappedBest1_agam.pm

-package XrefMapper::Methods::ExonerateGappedBest1_agam;
-
-use XrefMapper::Methods::ExonerateBasic;
-
-use vars '@ISA';
-
-@ISA = qw{XrefMapper::Methods::ExonerateBasic};
-
-
-
-sub options {
-  return ('--gappedextension FALSE', '--model', 'affine:local', '--subopt', 'no', '--bestn', '1');
-}
-
-sub query_identity_threshold {
-  return 55;
-}
-
-sub target_identity_threshold {
-  return 55;
-}
-
-
-1;
-

misc-scripts/xref_mapping/XrefMapper/Methods/ExonerateGappedBest1_culex.pm

-package XrefMapper::Methods::ExonerateGappedBest1_culex;
-
-use XrefMapper::Methods::ExonerateBasic;
-
-use vars '@ISA';
-
-@ISA = qw{XrefMapper::Methods::ExonerateBasic};
-
-
-
-sub options {
-
-  return ('--gappedextension FALSE', '--model', 'affine:local', '--subopt', 'no', '--bestn', '1');
-
-}
-
-sub query_identity_threshold {
-  return 55;
-}
-
-sub target_identity_threshold {
-  return 55;
-}
-
-
-1;