ADAM minor release to support htsjdk 2.7.0? #1248

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lbergelson opened this Issue Nov 7, 2016 · 6 comments

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lbergelson commented Nov 7, 2016

GATK4 depends on ADAM, this allows us to support reading from ADAM datafiles. We've recently run into an issue where htsjdk 2.7.0 removed some deprecated classes that ADAM was using. Would be possible to do a minor release of ADAM that incorporates the patch that removes those classes?

I don't know what the release process is like, so if it's a pain to do a minor release we can work around it by either publishing our own snapshot or temporarily disabling support until the next full release.

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fnothaft Nov 7, 2016

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Hi @lbergelson! We are planning to do our next major release towards the end of this month, but if that timeline would be a bit long for you, we could probably push a point release out. Would end of November be OK for you, or do you need something sooner? Let us know!

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fnothaft commented Nov 7, 2016

Hi @lbergelson! We are planning to do our next major release towards the end of this month, but if that timeline would be a bit long for you, we could probably push a point release out. Would end of November be OK for you, or do you need something sooner? Let us know!

@lbergelson lbergelson referenced this issue in broadinstitute/gatk Nov 7, 2016

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Update htsjdk to 2.7.0 #2247

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Hi @fnothaft, thanks for the response. A December release is sooner than I had expected. I think it could work for us.

An end of November point release would be better though. We're going to be doing our own release hopefully in December and we'd like to not be relying on any self hosted sketchy snapshot releases then.

If it's a hassle though we can wait until December.

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lbergelson commented Nov 7, 2016

Hi @fnothaft, thanks for the response. A December release is sooner than I had expected. I think it could work for us.

An end of November point release would be better though. We're going to be doing our own release hopefully in December and we'd like to not be relying on any self hosted sketchy snapshot releases then.

If it's a hassle though we can wait until December.

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fnothaft Nov 8, 2016

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I think we'd be targeting the last week of November, or possibly the week of Thanksgiving. CC @heuermh for comment.

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fnothaft commented Nov 8, 2016

I think we'd be targeting the last week of November, or possibly the week of Thanksgiving. CC @heuermh for comment.

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The current milestone date for 0.21.0 is Nov 15th. See #1088

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heuermh commented Nov 8, 2016

The current milestone date for 0.21.0 is Nov 15th. See #1088

@fnothaft fnothaft added this to the 0.21.0 milestone Nov 8, 2016

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Ack, somehow I misread end of the month as end of next month. November 15th is great for us.

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lbergelson commented Nov 8, 2016

Ack, somehow I misread end of the month as end of next month. November 15th is great for us.

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No problem! I'm going to close this ticket as we're tracking the November 15th release target on #1088, but please ping us on either of the tickets if you have questions @lbergelson!

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fnothaft commented Nov 8, 2016

No problem! I'm going to close this ticket as we're tracking the November 15th release target on #1088, but please ping us on either of the tickets if you have questions @lbergelson!

@fnothaft fnothaft closed this Nov 8, 2016

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