Mark Diekhans

We probably have to switch the reference server away from Flask, single it doesn't support chucked HTTP that will be required for streaming. bwalsh [email protected] writes: > It would be...

-1 for the way the ticket was written, because that is not what I intended. The main goal is to have the _master_ data files in a format that is...

Sounds good. If it makes sense, then keeping the blobs is fine. But lets test how long building them on the fly is going to take. Danny Colligan [email protected] writes:...

This is a bug on the serve example data, which is different that the compliance data. The compliance data is intended to have weird cases and might not be the...

This is valid point. Despite appearing to `only' encode a file name, there are all kind of unintended ways data can leak. With dbGap protected data, where much of the...

There was strong objection to removing the cross-BAM merge-sort of reads from the GA4GH API. There are very good use cases for this in multi-sample variant calling and it is...

Yes, it's inconvenient for the clients. However, lets revisit it independent. We need to move the server forwards. Danny Colligan [email protected] writes: > I agree that the searchReads endpoint, implemented...

We are not allowed to pass this off to client. That is very inefficient. These choices were made for very good reasons. Those reasons are not documented. BAMs are sorted...

They should be returned sorted by coordinates across all read group. the schema should specify this; I think it's there, but obscure. However, the server should _not_ sort it. The...

@jeromekelleher It's always harder than I think and easier than you think! Either way, I owe you a beer. @dcolligan is also looking at it. Jerome Kelleher [email protected] writes: >...