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Support SAM v1.6 in GATK #5282

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droazen opened this issue Oct 5, 2018 · 4 comments
Closed

Support SAM v1.6 in GATK #5282

droazen opened this issue Oct 5, 2018 · 4 comments
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@lbergelson
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HTSJDK
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Engine-Q12019

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droazen commented Oct 5, 2018

Requires samtools/htsjdk#1186
@droazen droazen added the HTSJDK label Oct 5, 2018
@droazen droazen added this to the Engine-Q42018 milestone Oct 5, 2018
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Support for 0 length arrays in sam: samtools/htsjdk#1194

@droazen droazen modified the milestones: Engine-Q42018, Engine-Q12019 Feb 4, 2019
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droazen commented Feb 4, 2019

@lbergelson Is this one done?

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droazen commented Feb 4, 2019

@lbergelson informs me that we do read/write SAM 1.6, but that there are a few known issues that still need to be resolved (eg., with non-ascii characters).

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droazen commented Mar 5, 2019

Closing, as GATK does now read/write SAM 1.6.

@droazen droazen closed this as completed Mar 5, 2019
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