The determined erroneous connection coverage threshold may be determined improperly

[etvedte]

I'm assembling Illumina paired reads for Ecoli using spades v. 3.13. The assembly program finishes with warnings. Below is the command I used:

/usr/local/packages/spades-3.13.0/bin/spades.py -o Ecoli_allRIPTIDE_SPAdes_assembly --dataset Ecoli_readsets.yaml -m 400

I've attached appropriate log files spades.log warnings.log params.txt

The dataset includes ten Illumina libraries with a total of ~5000X depth of the Ecoli genome. I'm not really interested in subsampling since I'm conducting an R&D experiment with large vs. small datasets. But I mention it here because I'm wondering if this might be related to the error message?

Thanks in advance.

[JeanGuy777]

Hi SPAdes developers, thanks for your software, I have the same issue, Sincerely,

[ne1al]

I have the same one too with a couple of other errors:

 * 0:00:17.358   104M / 8G    WARN    General                 (simplification.cpp        : 479)   The determined erroneous connection coverage threshold may be determined improperly
 * 0:00:13.520   100M / 8G    WARN    General                 (kmer_coverage_model.cpp   : 218)   Too many erroneous kmers, the estimates might be unreliable
 * 0:00:13.215   112M / 8G    WARN    General                 (kmer_coverage_model.cpp   : 327)   Valley value was estimated improperly, reset to 11