diff --git a/src/nejo_idx.py b/src/nejo_idx.py index 94b43e3d5fcf40262113b579c969a0ebe8bb1776..ddc57fbe511ff1555174e124faf3851a94d2add6 100755 --- a/src/nejo_idx.py +++ b/src/nejo_idx.py @@ -43,6 +43,9 @@ class NeighborJoining: for j in range(0,i): if i < self._num_of_taxa: dist = dm.distance(i,j) + #for andi: + if str(dist) in ["nan"]: + dist = 1.0 assert dist >= 0 else: dist = None diff --git a/src/parser.py b/src/parser.py index 0724f24b2b4698c1ce63ee7f932698f0910209dc..ed90591ddda846877fdfda2e59eba6805d50f19a 100644 --- a/src/parser.py +++ b/src/parser.py @@ -31,6 +31,9 @@ def parse_command_line(): "NJ-tree (derived from the distances delivered by\n" "the corresponding tool) will be compared to the\n" "reference tree.\n" + "The genome names will be cut to 10 characters. \n" + "The reference tree must contain the \n" + "exact genome names resulting\n" "For datafiles without reference and if at least\n" "two tools have been specified, the resulting\n" "NJ-trees are compared against each other."