Searched refs:paddedPath (Results 1 – 1 of 1) sorted by relevance
196 final String paddedPath = SW_PAD + new String(altSeq) + SW_PAD; in calculateCigar() local197 …final SmithWatermanAlignment alignment = aligner.align(paddedRef.getBytes(), paddedPath.getBytes()… in calculateCigar()205 final int baseEnd = paddedPath.length() - SW_PAD.length() - 1; // -1 because it's inclusive in calculateCigar()