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v3.9_21.07 build 352
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@bahill bahill released this 09 Jul 14:23
· 315 commits to develop since this release
v3.9_21.07_b352
306b2f6

New Features & Bug Fixes

  • Module Integrator - Documentation can now be supplied by a publicly accessible URL.
  • Browser job notifications now correctly indicate when a job has completed successfully
  • Server Administration - The webserver log now only displays the last n lines of the log file - configurable by the admin user.
  • Server Administration - Issues with inputs for some modules (including HTSeq.Count & HISAT2Aligner) have been resolved.
  • Server Administration - The handling of remote directories has been improved, addressing issues with running MethylationCNVAnalysis.

*Note that createModule privileges are also needed for module editing in general.

Prerequisites for Installing GenePattern

  • Java 8 or 9. Note that GenePattern will not run if Java 11 is installed.
  • Docker

Installing and upgrading GenePattern via Docker

This is now the recommended method for a local GenePattern installation.
Please see our website for installation instructions

Mac OS X Install - GenePattern as an app

Make sure you do not have Java 11 installed. Switching and disabling will not work.
Download the GPserver.app.zip file. Unzip, drag the GenePattern.app file to your Applications folder, then launch the application. You will be prompted to enter some basic configuration details and the application will terminate. Restart and you are up and running.
The user data and customization files will be added to the ~/.genepattern hidden folder in your home directory.
Should you need to delete GenePattern - simply delete the GenePattern.app file from your Applications folder, and remove the ~/.genepattern directory as well.

Note: GenePattern is currently experiencing Apple certificate issues. To install GenePattern you may need to enable applications from third-party developers. See the instructions here. Alternately you can launch GenePattern from a terminal window by going to the directory /Applications/GenePattern.app/Contents/Resources and executing the GenePatternServer executable located there.

Linux Install

Download the 'GPserver.bin' file. Then run the installer in headless mode.

Instructions can be found in '/gp_home/resources/installer_example.properties'

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