Posted on Tuesday, June 17, 2014 at 04:50PM by David Eby
Visualizers fixed for Java 7: If you have been following this blog, you will have seen the series of posts detailing workarounds for visualizer issues caused by Java updates. The good news is that we have made some fixes behind the scenes so that these should no longer be necessary going forward. For the time being, these fixes are only available on our public server and its internal Broad-only counterpart. We'll be rolling them out in the next release of GenePattern, however, so those of you who have your own locally-installed copy will have access as well.
Those previous blogs were, by necessity, rather heavy on the technical details. This one will be much lighter in comparison.
For most users there is not much to do to enable the fix. Launching any visualizer on the public server will bring up two warnings, the first asking...
Posted on Tuesday, May 27, 2014 at 04:35PM by Barbara Hill Meyers
Java 7 update 55 and Windows: We have been receiving reports from our users and have ourselves noticed that the latest Java 7 update (Java 7 update 55) has caused visualizers to fail to launch on Windows (On Mac they seem to launch with Firefox most reliably, but also with Safari).
We are working on a short term fix for this and will update this blog again when we have more information. We greatly appreciate your patience as we work through the issues that have arisen from these recent Java updates, and apologize for an inconvenience or disruption this has caused. Please feel free to contact us with any questions or comments. We are always happy to hear from you.
Posted on Wednesday, May 07, 2014 at 05:49PM by David Eby
In a previous blog post we gave some limited instructions for using GenePattern with Mac OS X 10.9 Mavericks. While accessing the public server via web browser is not an issue, installing and running your own GenePattern server is a different matter. Issues with the installer, server launcher, and general responsiveness prevent us from officially supporting this platform right now. We are actively working to address these problems and expect to have a fix in a future version of GenePattern, as soon as is feasibly possible. This is very important to us and is on our immediate agenda.
In the meanwhile, however, we have some new workaround recommendations which should improve your current experience running the GenePattern server on Mavericks.
I'll start off by explaining how to launch GenePattern server for the benefit of those folks who had it installed and working on an earlier version of OS X but then upgraded to Mavericks and ran into the responsiveness...