Beatriz - 2016-06-15

Sorry For some reason my issue is not being posted properly. But here it goes:

Hi,

I am running MIRA (4.9.6) to assemble a plant genome (260MB) with illumina and corrected PacBio data. I get the following error during alignment:

Internal logic/programming/debugging error (sigh this should not have
happened)

  • Alignment of two sequences: 81726 > 65530 bases, cannot handle, shouldn't *
  • have happened! *

->Thrown: void AlignedDualSeq::acquireSequences(const char * seq1, const char * seq2, readid_t id1, readid_t id2, int8 id1dir, int8 id2dir, bool enforce_clean_ends, bool dontpenalisengaps, int32 bandwidthused, int32 minbanddistance)
->Caught: void Align::fullAlign(std::list<aligneddualseq> * adslist, bool enforce_clean_ends, bool dontpenalisengaps)</aligneddualseq>

I have put the full log here :

https://www.dropbox.com/s/47stfpkn14vgqm5/Assembly_MIRA_June13r.txt.zip?dl=0

Is there any way to continue the assembly?

Thanks,

Beatriz