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Nate Coraor
08f66a924b
1. Create a new API endpoint and client spin to wait for GIE containers to become ready. IEs are not required to use it, but usage does require a slight change to their `load_notebook()` functions. 2. Add a Docker swarm manager daemon that runs automatically to add nodes when services are waiting, clean up exited services, and remove idle nodes. Shuts down automatically when there's nothing to do. The format of the GIE proxy session database has changed, if GIEs are running when you restart Galaxy, they will be interrupted. If you run the GIE proxy separate from Galaxy, you should restart it after upgrading.
This folder holds cron jobs that support galaxy. updateucsc.sh is a shell script to facilitate the updates from UCSC. Galaxy stores several files locally to speed up operations that depend on information from UCSC. These files can all be found in the static/ucsc folder. Before adding updateucsc.sh to the crontab, it is important to note two things. First, updateucsc.sh must be edited to point towards the root galaxy directory. At the top of the file there is a variable "GALAXY" that should be edited. Second, the updates come from UCSC via their table browsers. While the tendency is typically to run cron jobs late at night, UCSC, like most, tend to take down their servers at odd hours for maintenance. The update scripts for UCSC are not CPU intensive, and should be scheduled during normal hours.