demux_fast5 resume list

[SkabbiVML]

Hi ONT, is it possible to add in the resume list command. I have over 800 fast5 files in the fast5_skip folder. I'm running the demux and it said it would take 23hrs to finish. My computer froze and upon restarting it, i cant seem to resume the process. It's starting again from scratch. Do you have any commands to resume demux from where it stopped last. Thanks. Luna

[fbrennen]

Hi @SkabbiVML --there is unfortunately not a terribly easy way to do this, but we will work on adding one. If you have some familiarity with manipulating tsv files, you could try this in the meantime:

• In each of the output demultiplexed folders, there is a file called filename_mapping.txt that contains the read_ids of all the reads that have been processed so far.
• If you can remove lines with those read_ids from the summary.txt file that you used as the input to demux_fast5, then you can call fast5_subset on your input folder to extract all the reads from there that have not yet been demultiplexed.