with keeping all AVLs mapped seems the most efficient. Now 1 million sequences more or less constantly takes 1 minute.
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libecoPCR | Loading commit data... | |
libjson | Loading commit data... | |
_sse.h | Loading commit data... | |
array_indexer.c | Loading commit data... | |
array_indexer.h | Loading commit data... | |
bloom.c | Loading commit data... | |
bloom.h | Loading commit data... | |
char_str_indexer.c | Loading commit data... | |
char_str_indexer.h | Loading commit data... | |
crc64.c | Loading commit data... | |
crc64.h | Loading commit data... | |
dna_seq_indexer.c | Loading commit data... | |
dna_seq_indexer.h | Loading commit data... | |
encode.c | Loading commit data... | |
encode.h | Loading commit data... | |
hashtable.c | Loading commit data... | |
hashtable.h | Loading commit data... | |
linked_list.c | Loading commit data... | |
linked_list.h | Loading commit data... | |
murmurhash2.c | Loading commit data... | |
murmurhash2.h | Loading commit data... | |
obi_clean.c | Loading commit data... | |
obi_clean.h | Loading commit data... | |
obi_ecopcr.c | Loading commit data... | |
obi_ecopcr.h | Loading commit data... | |
obi_lcs.c | Loading commit data... | |
obi_lcs.h | Loading commit data... | |
obiavl.c | Loading commit data... | |
obiavl.h | Loading commit data... | |
obiblob.c | Loading commit data... | |
obiblob.h | Loading commit data... | |
obiblob_indexer.c | Loading commit data... | |
obiblob_indexer.h | Loading commit data... | |
obidebug.h | Loading commit data... | |
obidms.c | Loading commit data... | |
obidms.h | Loading commit data... | |
obidms_taxonomy.c | Loading commit data... | |
obidms_taxonomy.h | Loading commit data... | |
obidmscolumn.c | Loading commit data... | |
obidmscolumn.h | Loading commit data... | |
obidmscolumn_array.c | Loading commit data... | |
obidmscolumn_array.h | Loading commit data... | |
obidmscolumn_blob.c | Loading commit data... | |
obidmscolumn_blob.h | Loading commit data... | |
obidmscolumn_bool.c | Loading commit data... | |
obidmscolumn_bool.h | Loading commit data... | |
obidmscolumn_char.c | Loading commit data... | |
obidmscolumn_char.h | Loading commit data... | |
obidmscolumn_float.c | Loading commit data... | |
obidmscolumn_float.h | Loading commit data... | |
obidmscolumn_idx.c | Loading commit data... | |
obidmscolumn_idx.h | Loading commit data... | |
obidmscolumn_int.c | Loading commit data... | |
obidmscolumn_int.h | Loading commit data... | |
obidmscolumn_qual.c | Loading commit data... | |
obidmscolumn_qual.h | Loading commit data... | |
obidmscolumn_seq.c | Loading commit data... | |
obidmscolumn_seq.h | Loading commit data... | |
obidmscolumn_str.c | Loading commit data... | |
obidmscolumn_str.h | Loading commit data... | |
obidmscolumndir.c | Loading commit data... | |
obidmscolumndir.h | Loading commit data... | |
obierrno.c | Loading commit data... | |
obierrno.h | Loading commit data... | |
obilittlebigman.c | Loading commit data... | |
obilittlebigman.h | Loading commit data... | |
obitypes.c | Loading commit data... | |
obitypes.h | Loading commit data... | |
obiview.c | Loading commit data... | |
obiview.h | Loading commit data... | |
sse_banded_LCS_alignment.c | Loading commit data... | |
sse_banded_LCS_alignment.h | Loading commit data... | |
uint8_indexer.c | Loading commit data... | |
uint8_indexer.h | Loading commit data... | |
upperband.c | Loading commit data... | |
upperband.h | Loading commit data... | |
utils.c | Loading commit data... | |
utils.h | Loading commit data... |