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cmbi / mrs

Maarten's Retrieval Service
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Blasts against pdbfinder are missing residues #43

Open jonblack opened 7 years ago

jonblack commented 7 years ago

The BLAST results from pdbfinder are missing residues. See https://github.com/cmbi/hommod-rest/issues/41.

cbaakman commented 7 years ago

Most likely the problem is in https://github.com/cmbi/mrs/blob/master/parsers/pdbfinder.pm#L117. The regular expression matching assumes that sequences contain only letters, no dashes.

We must think about what to do with line breaks. Completely ignoring them in blast might not be scientifically correct.