Skip to content
Browse files

_recover_alignments does not use penalize_end_gaps

  • Loading branch information...
1 parent 0472758 commit c1ff29a714271b08edf3f7de46ebc7f04ed5c14f mdehoon committed Jun 28, 2013
Showing with 2 additions and 2 deletions.
  1. +2 −2 Bio/pairwise2.py
View
4 Bio/pairwise2.py
@@ -357,7 +357,7 @@ def _align(sequenceA, sequenceB, match_fn, gap_A_fn, gap_B_fn,
# Recover the alignments and return them.
x = _recover_alignments(
sequenceA, sequenceB, starts, score_matrix, trace_matrix,
- align_globally, penalize_end_gaps, gap_char, one_alignment_only)
+ align_globally, gap_char, one_alignment_only)
return x
@@ -584,7 +584,7 @@ def _make_score_matrix_fast(
def _recover_alignments(sequenceA, sequenceB, starts,
score_matrix, trace_matrix, align_globally,
- penalize_end_gaps, gap_char, one_alignment_only):
+ gap_char, one_alignment_only):
# Recover the alignments by following the traceback matrix. This
# is a recursive procedure, but it's implemented here iteratively
# with a stack.

0 comments on commit c1ff29a

Please sign in to comment.
Something went wrong with that request. Please try again.