beam

There is a pipeline which has been consistently getting stuck on attempt to write to JDBC. The thread dump on one worker revealed a bunch of threads waiting for a new connection to be allocated:

   java.lang.Thread.State: WAITING
        at sun.misc.Unsafe.park(Native Method)
        - parking to wait for <45ac842e> (a java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject

In v0.9.0 we started offering --keep_intermediate_avro_files. Avro files are a great candidate for long term storage of variant data for several reasons, mainly because they can be loaded into BigQuery fast and free.

The only missing data is information in VCF header. Storing them with AVRO files will enable us to recov

We need to add a communications section to the community page. This second would consist of sub-sections such as (but not limited to) :

• slacks
• irc
• mailing lists
• forums

Any other ideas?