Announcing the general availability of Trans-Proteomic Pipeline (TPP)
"Occupy" 4.6.1

This is a  maintenance update to the Trans-Proteomic Pipeline (TPP)
software which addresses a number of issues identified with version 4.6.0.
All TPP users are urged to upgrade there installations to the latest
version.  More information about the Trans-Proteomic Pipeline is available
at the TPP wiki site <http://tools.proteomecenter.org/wiki/index.php>.

The software is available for Windows as well as Linux (and unofficially)
through OSX source from all the usual locations (please see the section
below, "Getting the software").  Most users are recommended to use the
Windows installer, which installs and configures the TPP and other required
software (such as a web server).  For advanced users who need to customize
the TPP, or for those who run high-throughput experiments, you can download
the source code.

== Release Notes ==

* Release notes for this version containing the most important new
features, changes, and known issues are available at:
http://tools.proteomecenter. <http://goog_458723944>
org/wiki/index.php?title=TPP:4.6.1_Release_Notes<http://tools.proteomecenter.org/wiki/index.php?title=TPP:4.6.1_Release_Notes>


== Getting the TPP Software ==

* Download the TPP version 4.6.1 native windows installer
(TPP_Setup_v4_6_1.exe) from the Sashimi SourceForge project file releasepage:
  http://sourceforge.net/projects/sashimi/files/Trans-Proteomic Pipeline
(TPP)

* Everyone is encouraged to read and contribute to our wiki, at
  http://tools.proteomecenter.org/wiki/

* For guides to installing and using our software, please see our wiki:
  http://tools.proteomecenter.org/wiki/index.php?title=Software:TPP

* For downloading the source code, please go to the following link:
  http://sourceforge.net/projects/sashimi/files/ and find the 4.6.1 source
code .tgz package;
or, check out the code directly from svn:
  svn co
http://sashimi.svn.sourceforge.net/svnroot/sashimi/tags/release_4-6-1

  For building from source, please refer to the readme file in TPP/src as
well as the wiki.


The TPP Team: Luis, David, Mike, Joe, Brian, and Natalie, plus all other
developers who contributed to this release from the ISB.  Thanks to
developers and users from the TPP's user community who provided feedback
and code contributions.

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