Searched refs:originalContig (Results 1 – 2 of 2) sorted by relevance
| /dports/biology/bbmap/bbmap/current/align2/ |
| H A D | CompareSamFiles.java | 234 byte[] originalContig=sl.originalContig(); in calcStatistics1()
236 …originalContig=(originalContig==null || Tools.indexOf(originalContig, (byte)'/')<0 ? originalConti… in calcStatistics1()
237 KillSwitch.copyOfRange(originalContig, 0, Tools.lastIndexOf(originalContig, (byte)'/'))); in calcStatistics1()
303 byte[] originalContig=sl.originalContig(); in type()
305 …originalContig=(originalContig==null || Tools.indexOf(originalContig, (byte)'/')<0 ? originalConti… in type()
306 KillSwitch.copyOfRange(originalContig, 0, Tools.lastIndexOf(originalContig, (byte)'/'))); in type()
326 byte[] originalContig, byte[] contig, int cstart){ in isCorrectHit() argument
328 if(originalContig!=null){ in isCorrectHit()
329 if(!Arrays.equals(originalContig, contig)){return false;} in isCorrectHit()
343 byte[] originalContig, byte[] contig, int cstart){ in isCorrectHitLoose() argument
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| /dports/biology/bbmap/bbmap/current/stream/ |
| H A D | SamLine.java | 2292 public byte[] originalContig(){ in originalContig() method in SamLine
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