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java.lang.IllegalStateException: Inappropriate call if not paired read	at htsjdk.samtools.SAMRecord.requireReadPaired(SAMRecord.java:648)	at htsjdk.samtools.SAMRecord.getFirstOfPairFlag(SAMRecord.java:706)	at org.broadinstitute.pilon.BamFile$MateMap.addRead(BamFile.scala:224)	at org.broadinstitute.pilon.BamFile$MateMap$$anonfun$addReads$1.apply(BamFile.scala:220)	at org.broadinstitute.pilon.BamFile$MateMap$$anonfun$addReads$1.apply(BamFile.scala:220)	at scala.collection.immutable.List.foreach(List.scala:381)	at org.broadinstitute.pilon.BamFile$MateMap.addReads(BamFile.scala:220)	at org.broadinstitute.pilon.BamFile$MateMap.(BamFile.scala:218)	at org.broadinstitute.pilon.BamFile.recruitFlankReads(BamFile.scala:339)	at org.broadinstitute.pilon.GapFiller$$anonfun$recruitReadsOfType$1.apply(GapFiller.scala:367)	at org.broadinstitute.pilon.GapFiller$$anonfun$recruitReadsOfType$1.apply(GapFiller.scala:366)	at scala.collection.immutable.List.foreach(List.scala:381)	at org.broadinstitute.pilon.GapFiller.recruitReadsOfType(GapFiller.scala:366)	at org.broadinstitute.pilon.GapFiller.recruitFrags(GapFiller.scala:375)	at org.broadinstitute.pilon.GapFiller.recruitLocalReads(GapFiller.scala:389)	at org.broadinstitute.pilon.GapFiller.recruitReads(GapFiller.scala:391)	at org.broadinstitute.pilon.GapFiller.assembleAcrossBreak(GapFiller.scala:51)	at org.broadinstitute.pilon.GapFiller.fixBreak(GapFiller.scala:45)	at org.broadinstitute.pilon.GenomeRegion$$anonfun$identifyAndFixIssues$4.apply(GenomeRegion.scala:381)	at org.broadinstitute.pilon.GenomeRegion$$anonfun$identifyAndFixIssues$4.apply(GenomeRegion.scala:379)	at scala.collection.immutable.List.foreach(List.scala:381)	at org.broadinstitute.pilon.GenomeRegion.identifyAndFixIssues(GenomeRegion.scala:379)	at org.broadinstitute.pilon.GenomeFile$$anonfun$processRegions$4.apply(GenomeFile.scala:120)	at org.broadinstitute.pilon.GenomeFile$$anonfun$processRegions$4.apply(GenomeFile.scala:109)	at scala.collection.Iterator$class.foreach(Iterator.scala:893)	at scala.collection.AbstractIterator.foreach(Iterator.scala:1336)	at scala.collection.parallel.ParIterableLike$Foreach.leaf(ParIterableLike.scala:972)	at scala.collection.parallel.Task$$anonfun$tryLeaf$1.apply$mcV$sp(Tasks.scala:49)	at scala.collection.parallel.Task$$anonfun$tryLeaf$1.apply(Tasks.scala:48)	at scala.collection.parallel.Task$$anonfun$tryLeaf$1.apply(Tasks.scala:48)	at scala.collection.parallel.Task$class.tryLeaf(Tasks.scala:51)	at scala.collection.parallel.ParIterableLike$Foreach.tryLeaf(ParIterableLike.scala:969)	at scala.collection.parallel.AdaptiveWorkStealingTasks$WrappedTask$class.compute(Tasks.scala:152)	at scala.collection.parallel.AdaptiveWorkStealingForkJoinTasks$WrappedTask.compute(Tasks.scala:443)	at scala.concurrent.forkjoin.RecursiveAction.exec(RecursiveAction.java:160)	at scala.concurrent.forkjoin.ForkJoinTask.doExec(ForkJoinTask.java:260)	at scala.concurrent.forkjoin.ForkJoinPool$WorkQueue.runTask(ForkJoinPool.java:1339)	at scala.concurrent.forkjoin.ForkJoinPool.runWorker(ForkJoinPool.java:1979)	at scala.concurrent.forkjoin.ForkJoinWorkerThread.run(ForkJoinWorkerThread.java:107)