Searched refs:forceTrimModulo (Results 1 – 8 of 8) sorted by relevance
252 forceTrimModulo=parser.forceTrimModulo; in ReformatReads()911 if(forceTrimLeft>0 || forceTrimRight>0 || forceTrimModulo>0 || forceTrimRight2>0){ in process()915 final int b0=forceTrimModulo>0 ? len-1-len%forceTrimModulo : len; in process()927 final int b0=forceTrimModulo>0 ? len-1-len%forceTrimModulo : len; in process()1221 if(forceTrimLeft>0 || forceTrimRight>0 || forceTrimRight2>0 || forceTrimModulo>0){ in process()1641 private final int forceTrimModulo; field in ReformatReads
186 forceTrimModulo=Integer.parseInt(b); in BBQC()480 if(forceTrimModulo>0){ in ktrim()481 argList.add("ftm="+forceTrimModulo); in ktrim()970 private int forceTrimModulo=5; field in BBQC
367 forceTrimModulo=parser.forceTrimModulo; in Seal()765 if(forceTrimLeft>0 || forceTrimRight>0 || forceTrimRight2>0 || forceTrimModulo>0){ in process2()1946 if(forceTrimLeft>0 || forceTrimRight>0 || forceTrimRight2>0 || forceTrimModulo>0){1950 final int b0=forceTrimModulo>0 ? len-1-len%forceTrimModulo : len;1962 final int b0=forceTrimModulo>0 ? len-1-len%forceTrimModulo : len;3001 private final int forceTrimModulo; local
433 forceTrimModulo=parser.forceTrimModulo; in BBDuk2()761 …forceTrimLeft>0 || forceTrimRight>0 || forceTrimModulo>0 || minBaseFrequency>0 || recalibrateQuali… 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()2131 final int b0=forceTrimModulo>0 ? len-1-len%forceTrimModulo : len; in run()2143 final int b0=forceTrimModulo>0 ? len-1-len%forceTrimModulo : len; in run()3575 final int forceTrimModulo; field in BBDuk2
724 forceTrimModulo=parser.forceTrimModulo; in BBMerge()1906 if(forceTrimLeft>0 || forceTrimRight>0 || forceTrimModulo>0 || forceTrimRight2>0){1910 final int b0=forceTrimModulo>0 ? len-1-len%forceTrimModulo : len;1919 final int b0=forceTrimModulo>0 ? len-1-len%forceTrimModulo : len;2820 static int forceTrimModulo;
569 forceTrimModulo=parser.forceTrimModulo; 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()2582 final int b0=forceTrimModulo>0 ? len-1-len%forceTrimModulo : len; in run()2594 final int b0=forceTrimModulo>0 ? len-1-len%forceTrimModulo : len; in run()4798 final int forceTrimModulo; local
347 forceTrimModulo=Integer.parseInt(b); in RQCFilter2()1794 if(forceTrimModulo>0){ in ktrim()1795 argList.add("ftm="+forceTrimModulo); in ktrim()3691 private int forceTrimModulo=5; field in RQCFilter2
304 forceTrimModulo=Integer.parseInt(b); in parseTrim()1315 public int forceTrimModulo=-1; field in Parser