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hsmetrics fails on non-human genomes #146

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percyfal opened this issue Apr 16, 2012 · 0 comments
Open

hsmetrics fails on non-human genomes #146

percyfal opened this issue Apr 16, 2012 · 0 comments

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@percyfal
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We currently use agilents sureselect per default for calculating hs_metrics. hsmetrics calculations will fail for non-human genomes since the sequence dictionaries differ (i.e. chromosome lists):

Caused by: net.sf.samtools.util.SequenceUtil$SequenceListsDifferException: Sequence dictionaries are not the same size (1, 93)

Suggested solutions:

  1. run hs_metrics manually for relevant samples for now

  2. put target files in directory structure in which genome can be deduced, and if genome_build differs, don't run hs_metrics

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