/**
* Handle writing the {@link BasicStats} to the database.
*
* @param stats the {@link BasicStats} computed by fastqc.
* @param analysis the {@link AnalysisFastQCBuilder} to update.
*/
private void handleBasicStats(BasicStats stats, AnalysisFastQCBuilder analysis) {
analysis.fileType(stats.getFileType());
analysis.encoding(PhredEncoding.getFastQEncodingOffset(stats.getLowestChar()).name());
analysis.minLength(stats.getMinLength());
analysis.maxLength(stats.getMaxLength());
analysis.totalSequences(stats.getActualCount());
analysis.filteredSequences(stats.getFilteredCount());
analysis.gcContent(stats.getGCContent());
analysis.totalBases(
stats.getACount()
+ stats.getGCount()
+ stats.getCCount()
+ stats.getTCount()
+ stats.getNCount());
}
