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Sequence alignment: added the possibility to specify the index of the

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sequences to align in a column containing multiple sequences per line (C
level for now)
This commit is contained in:
Celine Mercier
2016-11-29 16:15:02 +01:00
parent 5fb025f310
commit 98d0849653
6 changed files with 26 additions and 11 deletions
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4
src/upperband.c
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@ -232,7 +232,7 @@ int thresholdLCS4(int32_t reflen, int32_t lcs)
}
Kmer_table_p hash_seq_column(Obiview_p view, OBIDMS_column_p seq_col)
Kmer_table_p hash_seq_column(Obiview_p view, OBIDMS_column_p seq_col, index_t seq_idx)
{
size_t i;
size_t seq_count;
@ -251,7 +251,7 @@ Kmer_table_p hash_seq_column(Obiview_p view, OBIDMS_column_p seq_col)
for (i=0; i < seq_count; i++)
{
seq = obi_get_seq_with_elt_idx_and_col_p_in_view(view, seq_col, i, 0); // TODO discuss 1 element per line mandatory
seq = obi_get_seq_with_elt_idx_and_col_p_in_view(view, seq_col, i, seq_idx); // TODO discuss 1 element per line mandatory
if (seq == NULL)
return NULL; // TODO or not
ktable[i].table = malloc(256 * sizeof(unsigned char));