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adding some description for penalize_end_gaps

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1 parent c65e3cf commit 37958224752de6e5c06f55d2da11149013b603c0 mdehoon committed Jun 28, 2013
Showing with 3 additions and 1 deletion.
  1. +3 −1 Bio/pairwise2.py
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@@ -136,7 +136,9 @@
# - penalize_end_gaps: boolean
# Whether to count the gaps at the ends of an alignment. By
# default, they are counted for global alignments but not for local
-# ones.
+# ones. Setting penalize_end_gaps to (boolean, boolean) allows you to
+# specify for the two sequences separately whether gaps at the end of
+# the alignment should be counted.
# - gap_char: string
# Which character to use as a gap character in the alignment
# returned. By default, uses '-'.

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