Closed AntonBogun closed 1 year ago
Hi,
Sorry for the slow response. The --sort-output option actually just sorts the lines in the output file so the reads are listed in the same order as in the input. We might want to add another option to also sort the color identifiers within a line.
Added an option --sort-hits
sort the output color ids, in commit 09806d978f
For clarity, the option--sort-output
has been renamed to --sort-output-lines
. The old name still works to avoid breaking existing scripts.
Reproduction:
./themisto_binary build -k 31 -i example_input/coli_file_list.txt --index-prefix my_index --temp-dir temp --mem-gigas 2 --n-threads 4 --file-colors
AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
0 0 2 1
the values are not sorted and should be "0 1 2"