ERROR: No contigs were assembled - are you using corrected input instead of raw? about flye HOT 5 CLOSED

Hi,

Do you know what is approximate error rate of the corrected reads? The current corrected reads settings are tweaked ~1% or less. I would try to run with raw reads and see how it works. Also, what is the mean read length of the dataset (and chemistry version)?

If you can send me the log file, I should be able to tell more about what might be the cause.

from flye.

Thanks a lot for your reply. PacBio reads have been corrected with LoRDEC but unfortunately I do not know the error rate. However, I was running now with raw reads and got exactly the complement error saying: "are you using corrected input instead of raw?"

Attached is the log file of the raw run.
raw_flye.log

from flye.

What is the expected coverage and read length of the dataset? According to the log, the coverage is 1x, and the mean read length is 1600, which is not enough for the whole genome assembly. On the other hand, it looks like there is ~18mb of unique sequence, not 200mb, so maybe the expected genome size is incorrect?

from flye.

from flye.

Glad that it helped!

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