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Blasts against pdbfinder are missing residues #43

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jonblack opened this issue Nov 10, 2016 · 1 comment

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bug

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jonblack commented Nov 10, 2016

The BLAST results from pdbfinder are missing residues. See cmbi/hommod#41.

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cbaakman commented Nov 10, 2016 •

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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.

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