GenePattern Team Blog

Java 7 Update 55 Blocks visualizers on Windows

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.


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Workarounds to Install and Run a GenePattern Server on Mac OS X 10.9 Mavericks

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...

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GenePattern 3.8.1

Posted on Thursday, April 17, 2014 at 05:29PM by GenePattern Team

GenePattern 3.8.1 has been released! 3.8.1 (build 13243)  is available for use on our Public GenePattern Server,  via download and as an Amazon Machine Image (AMI)

New features include:

  • A new file uploader, replacing the Java-Applet-based file uploader with a new html5/JavaScript file uploader
  • New Jobs and Files tabs, which introduce new slide-out menus for all jobs and job output files
  • The ability to group parameters; for instance into "Advanced" and "Basic"
  • Website tours which walk users through new and basic features of GenePattern

We also made some user requested fixes and enhancements:

  • The new file uploader eliminates file upload failures occasionally encountered when uploading large files using the retired applet-based uploader.
  • Previously there existed a bug which prevented the termination of pending jobs. This has been resolved.

Full details about 3.8.1, including hardware/software requirements and known issues...

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