empty .gfa

[Raistrawby]

Hello, I would like to assemble my MinIon output (fastq file) data with minimap and miniasm. I was able to create the .paf.gz file with minimap which looks good. However when I’m trying to assemble with miniasm, I get an empty .gfa file. The command lines I am running are :

minimap/minimap -Sw5 -L100 -m0 -t8 reads.fq reads.fq | gzip -1 > reads.paf.gz #this one works and miniasm/miniasm -f reads.fq reads.paf.gz > reads.gfa #here reads.gfa is empty

Would you any idea what is the problem and how to solve it ?

Best regards,

Emma Corre

[shehongbing]

Hi, there,

Did you solve the problem, I had the same issue.