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via Google Groups by Sungwook Yoon, 1 year ago
Cannot encode phred score: 243
java.lang.IllegalArgumentException: Cannot encode phred score: 243	at htsjdk.samtools.SAMUtils.phredToFastq(SAMUtils.java:364)	at htsjdk.samtools.SAMUtils.phredToFastq(SAMUtils.java:351)	at htsjdk.samtools.SAMUtils.phredToFastq(SAMUtils.java:336)	at htsjdk.samtools.SAMRecord.getBaseQualityString(SAMRecord.java:251)	at org.bdgenomics.adam.converters.SAMRecordConverter.convert(SAMRecordConverter.scala:68)	at org.bdgenomics.adam.rdd.ADAMContext$$anonfun$loadBam$1.apply(ADAMContext.scala:263)	at org.bdgenomics.adam.rdd.ADAMContext$$anonfun$loadBam$1.apply(ADAMContext.scala:263)	at scala.collection.Iterator$$anon$11.next(Iterator.scala:328)	at scala.collection.Iterator$$anon$11.next(Iterator.scala:328)	at org.apache.spark.rdd.PairRDDFunctions$$anonfun$12.apply(PairRDDFunctions.scala:992)	at org.apache.spark.rdd.PairRDDFunctions$$anonfun$12.apply(PairRDDFunctions.scala:969)	at org.apache.spark.scheduler.ResultTask.runTask(ResultTask.scala:61)	at org.apache.spark.scheduler.Task.run(Task.scala:56)	at org.apache.spark.executor.Executor$TaskRunner.run(Executor.scala:200)	at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1145)	at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:615)	at java.lang.Thread.run(Thread.java:745)