obitools/obitools3
2
0
Fork 0
Code Issues Pull Requests Actions Packages Projects Releases 66 Wiki Activity

C alignment filter: added a check for sequences not being equal when the

Browse Source 
threshold requires that they are
This commit is contained in:
Celine Mercier
2018-12-09 19:14:51 +01:00
parent 0a407436da
commit da445066f3
1 changed files with 17 additions and 8 deletions
Download Patch File Download Diff File Expand all files Collapse all files

25
src/upperband.c
View File

@ -355,17 +355,26 @@ void align_filters(Kmer_table_p ktable, Obi_blob_p seq1, Obi_blob_p seq2, index_
*score = -2.0; *score = -2.0;
if (can_be_identical && (obi_blob_compare(seq1, seq2) == 0)) // the 2 sequences are identical. if (can_be_identical)
{ {
if (similarity_mode && normalize) if (obi_blob_compare(seq1, seq2) == 0)
*score = 1.0; {
else if (!similarity_mode) if (similarity_mode && normalize)
*score = 0.0; *score = 1.0;
else else if (!similarity_mode)
*score = l1; *score = 0.0;
else
*score = l1;
}
} }
else if (threshold != 0) else if ((similarity_mode && normalize && (threshold == 1.0)) ||
(!similarity_mode && (threshold == 0.0)))
{ // The sequences must be identical but are not
return;
}
else if (threshold != 0.0)
{ {
l2 = seq2->length_decoded_value; l2 = seq2->length_decoded_value;