error: unable to find subsampled sequences!

[ziczhang]

Hi,

I've found a small bug on racon_wrapper.py.

When I used the racon_wrapper as below:
racon_wrapper --subsample 3000000000 20 ${NAME}.fq.gz mapped.paf racon_0.fa > racon_1.fa

it caused

[RaconWrapper::run] preparing data with rampler
[RaconWrapper::run] error: unable to find subsampled sequences!

This was because of my fastq file's name, which was "fq.gz" but not "fastq.gz" and
on my racon's work_directory, "${NAME}_20x.fq" was generated, but not "${NAME}_20x.fastq"

Specifically, this bug was mainly caused by lines 73-77 in racon_wrapper.py.

Best,

Zicong.

[rvaser]

Hi Zicong,
thanks for reporting, will try and update the script.

Best regards,
Robert