Searched refs:forceTrimRight2 (Results 1 – 6 of 6) sorted by relevance
255 forceTrimRight2=parser.forceTrimRight2; in ReformatReads()911 if(forceTrimLeft>0 || forceTrimRight>0 || forceTrimModulo>0 || forceTrimRight2>0){ in process()917 final int b2=forceTrimRight2>0 ? len-1-forceTrimRight2 : len; in process()929 final int b2=forceTrimRight2>0 ? len-1-forceTrimRight2 : len; in process()1221 if(forceTrimLeft>0 || forceTrimRight>0 || forceTrimRight2>0 || forceTrimModulo>0){ in process()1638 private final int forceTrimRight2; field in ReformatReads
370 forceTrimRight2=parser.forceTrimRight2; in Seal()765 if(forceTrimLeft>0 || forceTrimRight>0 || forceTrimRight2>0 || forceTrimModulo>0){ in process2()1946 if(forceTrimLeft>0 || forceTrimRight>0 || forceTrimRight2>0 || forceTrimModulo>0){1952 final int b2=forceTrimRight2>0 ? len-1-forceTrimRight2 : len;1964 final int b2=forceTrimRight2>0 ? len-1-forceTrimRight2 : len;2998 private final int forceTrimRight2; local
727 forceTrimRight2=parser.forceTrimRight2; in BBMerge()1906 if(forceTrimLeft>0 || forceTrimRight>0 || forceTrimModulo>0 || forceTrimRight2>0){1912 final int b2=forceTrimRight2>0 ? len-1-forceTrimRight2 : len;1921 final int b2=forceTrimRight2>0 ? len-1-forceTrimRight2 : len;2817 static int forceTrimRight2;
436 forceTrimRight2=parser.forceTrimRight2; in BBDuk2()967 if(forceTrimLeft>0 || forceTrimRight>0 || forceTrimRight2>0 || forceTrimModulo>0){ in process2()2127 if(forceTrimLeft>0 || forceTrimRight>0 || forceTrimRight2>0 || forceTrimModulo>0){ in run()2133 final int b2=forceTrimRight2>0 ? len-1-forceTrimRight2 : len; in run()2145 final int b2=forceTrimRight2>0 ? len-1-forceTrimRight2 : len; in run()3572 final int forceTrimRight2; field in BBDuk2
572 forceTrimRight2=parser.forceTrimRight2; in BBDuk()945 …forceTrimLeft>0 || forceTrimRight>0 || forceTrimRight2>0 || forceTrimModulo>0 || minBaseFrequency>… in BBDuk()1229 if(forceTrimLeft>0 || forceTrimRight>0 || forceTrimRight2>0 || forceTrimModulo>0){ in process2()1318 if(forceTrimLeft>0 || forceTrimRight>0 || forceTrimRight2>0 || forceTrimModulo>0){ in toJson()2578 if(forceTrimLeft>0 || forceTrimRight>0 || forceTrimRight2>0 || forceTrimModulo>0){ in run()2584 final int b2=forceTrimRight2>0 ? len-1-forceTrimRight2 : len; in run()2596 final int b2=forceTrimRight2>0 ? len-1-forceTrimRight2 : len; in run()4795 final int forceTrimRight2; local
310 forceTrimRight2=Integer.parseInt(b); in parseTrim()1318 public int forceTrimRight2=-1; field in Parser