eb206e9f71
-ReadShardBalancer was printing out an extra "Loading BAM index data for next contig" message at traversal end, which was confusing users and making the GATK look stupid. Suppress the extraneous message, and reword the log messages to be less confusing. -Improve log message output when initializing the shard iterator in GenomeAnalysisEngine. Don't mention BAMs when the are none, and say "Preparing for traversal" rather than mentioning the meaningless-for-users concept of "shard strategy" -These log messages are needed because the operations they surround might take a while under some circumstances, and the user should know that the GATK is actively doing something rather than being hung. |
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