GenePattern 3.7.0
Posted on Tuesday, October 01, 2013 at 02:21PM by GenePattern Team
GenePattern 3.7.0 has been released!
3.7.0 (build 12335) is available for use on our Public GenePattern Server, via download and as an Amazon Machine Image (AMI)
New features include:
- Simplified Publication of modules from GenePattern to GPARC
- Enhanced File Input
We also made some user requested fixes and enhancements:
- Specification of URL for pipeline input parameter
- Allow server file path inputs to visualizer when GenePattern server and client are not running on the same system
- Eliminated run time errors that would occur when editing a provenance pipeline created from jobs with GenomeSpace input files
- Improved GenePattern SGE integration
Full details about 3.7.0, includeing hardware/softwared requirements and known issues can be found in our release notes.
Please let us know what you think!
Lastly, stay tuned for more information about the Broad's upcoming IT/Systems downtime, Oct 17-20,2013.
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Visualizer launching problems and other Java related issues
Posted on Wednesday, July 17, 2013 at 11:23AM by David Eby
We have recently been getting many reports from users having trouble launching GenePattern visualizers - HeatMapViewer, HierarchicalClusteringViewer, PCAViewer and so on - especially on Mac computers. There have also been reports of issues with running the GenePattern installer and using the File Uploader. If you are experiencing any of these problems the following suggestions might help you. These components use the Java platform and the problems all seem to trace to a recent set of Java updates from Oracle and Apple. In particular, many problem reports come from users with Java 7 Update 25 on Mac OS X 10.7 and above or Java 6 Update 51 on OS X 10.6. Issues have been reported with other combinations, but less frequently.
These are the latest updates of Java available for these platforms and came out within the last...
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GenePattern 3.6
Posted on Thursday, May 30, 2013 at 02:11PM by GenePattern Team
GenePattern 3.6 contains several new features and fixes.
New Features
Updated Job Submit Page
In GenePattern 3.6, the job submit page (the page that appears when you select a module or pipeline) has been revised for ease of use. The user interface has been streamlined with clearer drag--and-drop targets, updated buttons and other UI elements, and reorganized module information in the header.
Improved File Input
We have improved file input to modules and pipelines in a number of ways:
- You can drag-and-drop your input files from your desktop or from the Job Results, Uploads, and GenomeSpace tabs
- There is a new upload progress bar that appears after you click the Run button if you are directly uploading files from your client file system (via drag-and-drop from the local file system or the Upload File button)
Drag-and-drop File Lists
We have implemented the ability to drag-and-drop/upload multiple files for a single module run; this provides...
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