Mikhail Kolmogorov

Thanks - I will take a look. I don't have access to any ppc machines for tests though.

Hi Andrea, It is possible to use .maf as input (I was planning to retire this functionality, but it is still in the code) - but the problem is that...

You can use maf directly by adding an extra recipe parameter `.maf = path_to_maf`, and using `-s maf` switch.

Looks like there are some caveats with using SibeliaZ. I will be testing it in the near future.

Great, I'm glad that you got it working! Did it complain on the synteny block coverage? >Too few overlaps (18) between contigs were detected -- refine procedure will be useless...

Hi, It's a bit tricky - the MAF alignment should have the genome prefixes, but the FASTA files - should not. I think in your case it will be enough...

Ok, it seems that you have found the `.maf` option :) The sequence headers in MAF should be formatted as `genome_name.contig_name`, and I believe SibeliaZ just outputs `contig_name`. So you'd...

Interesting, looks like indeed a lot of overlaps were found, but no disjointigs were assembled. Is it possible to send me the full flye.log? I also suggest to try --meta...

Thank you, indeed looks strange. Maybe high coverage confuses Flye, but I also suspect there might be some non-target reads in the sample. I suggest to try two more runs...

Glad that it helped!