Support CRAM input/output #1141

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fnothaft opened this Issue Aug 30, 2016 · 1 comment

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fnothaft commented Aug 30, 2016

As the subject says, we should be able to support CRAM now that it is in Hadoop-BAM.

@fnothaft fnothaft self-assigned this Aug 30, 2016

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heuermh Aug 31, 2016

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heuermh commented Aug 31, 2016

+1

fnothaft added a commit to fnothaft/adam that referenced this issue Sep 1, 2016

[ADAM-1141] Add support for saving/loading AlignmentRecords to/from C…
…RAM.


Resolves #1141. Changes the signature of `AlignmentRecordRDD.saveAsSAM` to take
an `Option[SAMFormat]` parameter, since `asSam` is now no longer a binary
choice.

@heuermh heuermh modified the milestone: 0.20.0 Sep 7, 2016

@heuermh heuermh referenced this issue Sep 7, 2016

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Release ADAM version 0.20.0 #1048

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fnothaft added a commit to fnothaft/adam that referenced this issue Sep 11, 2016

[ADAM-1141] Add support for saving/loading AlignmentRecords to/from C…
…RAM.


Resolves #1141. Changes the signature of `AlignmentRecordRDD.saveAsSAM` to take
an `Option[SAMFormat]` parameter, since `asSam` is now no longer a binary
choice.

fnothaft added a commit to fnothaft/adam that referenced this issue Sep 13, 2016

[ADAM-1141] Add support for saving/loading AlignmentRecords to/from C…
…RAM.


Resolves #1141. Changes the signature of `AlignmentRecordRDD.saveAsSAM` to take
an `Option[SAMFormat]` parameter, since `asSam` is now no longer a binary
choice.

fnothaft added a commit to fnothaft/adam that referenced this issue Sep 13, 2016

[ADAM-1141] Add support for saving/loading AlignmentRecords to/from C…
…RAM.


Resolves #1141. Changes the signature of `AlignmentRecordRDD.saveAsSAM` to take
an `Option[SAMFormat]` parameter, since `asSam` is now no longer a binary
choice.

@heuermh heuermh closed this in #1145 Sep 13, 2016

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