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Commit 7f293e33 authored by Ruben Vorderman's avatar Ruben Vorderman
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Update changelog

parent 8e3788d8
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......@@ -11,11 +11,15 @@ that users understand how the changes affect the new version.
version 4.0.0-develop
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+ Picard Markduplicates now uses 7G of RAM just like in GATK's best practice
example pipeline.
+ Picard SortSam added as a task.
+ Md5 files are no longer created by default on Picard tasks that generate
BAM files.
+ Changed PicardMarkduplicates to use COMPRESSION_LEVEL=1 by default
speeding up execution by 2x at the cost of a 20% larger BAM file.
+ Changed PicardMarkduplicates to use COMPRESSION_LEVEL=1 by default with
the htsjdk deflater.
This makes the task finish in 30% less time at the cost of a 6% larger BAM
file.
+ Added sambamba markdup and sambamba sort. NOTE: samtools sort is more
efficient and is recommended.
+ Correctly represent samtools inconsistent use of the threads flag.
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