Martin C. Liu

spades Assertion `graph_.EdgeEnd(graph_.conjugate(e)) == VertexId()' failed

1

### Description of bug Hi there, I coudn't figure out why my assembly failed, can you help me with it? spades-core: /opt/conda/conda-bld/spades_1664217775513/work/src/common/assembly_graph/core/construction_helper.hpp:90: void omnigraph::ConstructionHelper::LinkOutgoingEdge(omnigraph::ConstructionHelper::VertexId, omnigraph::ConstructionHelper::EdgeId) [with DataMaster = debruijn_graph::DeBruijnDataMaster; omnigraph::ConstructionHelper::VertexId...

Mismatch between segment sequence and contig sequence

1

### Description of bug From contigs.path, I have: NODE_10581_length_541_cov_2.942953 503304+ From contigs.fasta, I have: >NODE_10581_length_541_cov_2.942953 TAATATGAGTACCGCTCTTTATTTTGTAGTAAACGATGCTTTTTATCGTAAGGCTTTGCC GAAGGCACAATTGCCGGAAGGAGTGTTGCTTGGCAGCTTGAAAGAGCTGTCTGAACAATA TCCGGCTTTGGTCAAGCAGTATTATGGCAAGTTGGCAGATACTTCCAAGGATGGGGTGAC CGCCTTCAATAATACTTTTGCCCAGGATGGCTTTATGCTGTATGTGCCGAAAGGCGTGGT GGTGGACAAACCCATTCAACTGGTGAACATATTGCGTGCTGATGTTAATTTTATGGTGAA CCGCCGTGTGCTGGTTGTGCTGGAAGAAGGTGCGCAGGCTCGTCTGTTGATTTGTGATCA TGCCATGGATAATGTAAATTTCCTTTCTACTCAGGTTATTGAGGTCTTTGCAAAAGAAAA TGCTACTTTCGATCTTTATGAACTGGAAGAAACCCATACCAGCACAGTGCGTTTCAGTAA CCTCTATGTGAACCAGGAGGCAGACAGTAATGTGCTTTTGAATGGTATGACTTTGCATAA C From assembly_graph_after_simplification.gfa, I have: S...

What is the rationale of jump in contigs.paths?

3

### Description of bug Hi there, I have a question: metaSPAdes has output 'contigs.paths' which contains the path of segments connected either by links (denoted by a comma between segments)...