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Searched refs:COLLECT_QUALITY_STATS (Results 1 – 9 of 9) sorted by relevance

/dports/biology/bbmap/bbmap/current/shared/
H A DParser.java804 ReadStats.COLLECT_QUALITY_STATS=!qhistsNull(); in parseHist()
805 …if(ReadStats.COLLECT_QUALITY_STATS){System.err.println("Set quality histogram output to "+ReadStat… in parseHist()
808 ReadStats.COLLECT_QUALITY_STATS=!qhistsNull(); in parseHist()
812 ReadStats.COLLECT_QUALITY_STATS=!qhistsNull(); in parseHist()
816 ReadStats.COLLECT_QUALITY_STATS=!qhistsNull(); in parseHist()
817 …if(ReadStats.COLLECT_QUALITY_STATS){System.err.println("Set average quality histogram output to "+… in parseHist()
820 …ReadStats.COLLECT_QUALITY_STATS=(ReadStats.BQUAL_HIST_FILE!=null || ReadStats.QUAL_HIST_FILE!=null… in parseHist()
821 …if(ReadStats.COLLECT_QUALITY_STATS){System.err.println("Set quality histogram output to "+ReadStat… in parseHist()
H A DReadStats.java35 if(COLLECT_QUALITY_STATS){ in ReadStats()
168 if(COLLECT_QUALITY_STATS){ in mergeAll()
1612 COLLECT_QUALITY_STATS=false; in clear()
1644 public static boolean COLLECT_QUALITY_STATS=false; field in ReadStats
1658 …return COLLECT_QUALITY_STATS || COLLECT_QUALITY_ACCURACY || COLLECT_MATCH_STATS || COLLECT_INSERT_… in collectingStats()
/dports/biology/bbmap/bbmap/current/jgi/
H A DCorrelateBarcodes.java211 ReadStats.COLLECT_QUALITY_STATS=(bqhist!=null); in process()
212 if(ReadStats.COLLECT_QUALITY_STATS){ in process()
H A DCalcTrueQuality.java52 ReadStats.COLLECT_QUALITY_STATS=true; in main()
64 final boolean oldCOLLECT_QUALITY_STATS=ReadStats.COLLECT_QUALITY_STATS; in main2()
77 ReadStats.COLLECT_QUALITY_STATS=oldCOLLECT_QUALITY_STATS; in main2()
H A DReformatReads.java538 final boolean MAKE_QHIST=ReadStats.COLLECT_QUALITY_STATS; in process()
H A DSeal.java478 MAKE_QUALITY_HISTOGRAM=ReadStats.COLLECT_QUALITY_STATS; in Seal()
H A DBBDuk2.java580 MAKE_QUALITY_HISTOGRAM=ReadStats.COLLECT_QUALITY_STATS; in BBDuk2()
H A DBBDuk.java702 MAKE_QUALITY_HISTOGRAM=ReadStats.COLLECT_QUALITY_STATS; in BBDuk()
/dports/biology/bbmap/bbmap/current/align2/
H A DAbstractMapThread.java409 final boolean MAKE_QUALITY_HISTOGRAM=(readstats==null ? false : ReadStats.COLLECT_QUALITY_STATS); in run()