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KeyError during "Propagating labels to unlabelled vertices" #4
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I think that the error is due to me using a spades assembly contig fasta in which all sequences <2000bp were removed. I'm guessing that graphbin2 expects all contigs in the *.gfa and *.paths files to be present in the fasta file also. It would help to just have a warning instead of a keyerror, given that many users filtering the contig fasta generated by metaspades, since metaspades has no minimum contig length |
Hi @nick-youngblut, You are correct. GraphBin2 expects all the contigs available in the *.paths to be provided for binning. I will add a fix so users can filter out contigs and still use the original graph. Thank you for pointing this out. I will leave this issue open until I fix it. |
The error:
What is the key error referring to? What is the key that is not found?
conda info:
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