Commit 493f7167 authored by Mathieu Giraud's avatar Mathieu Giraud Committed by Mikaël Salson

algo/vidjil.cpp: use the DELTA_MIN constant

parent b43577fc
......@@ -868,14 +868,14 @@ int main (int argc, char **argv)
}
if (multi_germline_unexpected_recombinations_12) {
Germline *pseudo = new Germline(PSEUDO_UNEXPECTED, PSEUDO_UNEXPECTED_CODE, -10, "", trim_sequences);
Germline *pseudo = new Germline(PSEUDO_UNEXPECTED, PSEUDO_UNEXPECTED_CODE, DEFAULT_DELTA_MIN, "", trim_sequences);
pseudo->seg_method = SEG_METHOD_MAX12 ;
pseudo->index = multigermline->index ;
multigermline->germlines.push_back(pseudo);
}
if (multi_germline_unexpected_recombinations_1U) {
Germline *pseudo_u = new Germline(PSEUDO_UNEXPECTED, PSEUDO_UNEXPECTED_CODE, -10, "", trim_sequences);
Germline *pseudo_u = new Germline(PSEUDO_UNEXPECTED, PSEUDO_UNEXPECTED_CODE, DEFAULT_DELTA_MIN, "", trim_sequences);
pseudo_u->seg_method = SEG_METHOD_MAX1U ;
// TODO: there should be more up/downstream regions for the PSEUDO_UNEXPECTED germline. And/or smaller seeds ?
pseudo_u->index = multigermline->index ;
......
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