MatthewRalston / kmerdb

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Build # 107

Build Type

push

travis-ci

Committed by MatthewRalston

Commit Message

Fixes #34. Closes #33. Mostly changes kmerdb/parse.py to incorporate metadata additions to the database, if relevant (--all-metadata). Otherwise, the database size is much simpler and is suitable for calculations, read associations aren't necessary for a functional kdb. Changes kmerdb/database.py to include proper defaults for the text field. Changes kmer.py to include a stderr statment if running on fasta. All of this updates the 'kmerdb profile' command to produce a full set of k-mer/read or k-mer/sequence interactions as metadata for each k-mer. The new metadata fields are seqids, starts, and reverses, of type str, int, and bool respectively.

Run Details

264 of 1683 relevant lines covered (15.69%)

0.31 hits per line