TPP:4.6.0 Release Notes
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| '''Trans-Proteomic Pipeline (TPP) "Occupy" 4.6.0 Release Notes''' | '''Trans-Proteomic Pipeline (TPP) "Occupy" 4.6.0 Release Notes''' | ||
| - | |||
| - | ---- | ||
| - | <span style="color:red">Draft version</span> | ||
| - | ---- | ||
| - | |||
| Trans-Proteomic Pipeline (TPP) software, release 4.6.0 is a minor release of TPP that contains several new features. 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 webserver). For advanced users who need to customize the TPP, or for those who run high-throughput experiments, you can download the source code. Again, most users don't need build from source, and should use the Windows installer. | Trans-Proteomic Pipeline (TPP) software, release 4.6.0 is a minor release of TPP that contains several new features. 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 webserver). For advanced users who need to customize the TPP, or for those who run high-throughput experiments, you can download the source code. Again, most users don't need build from source, and should use the Windows installer. | ||
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| == New Features == | == New Features == | ||
| + | |||
| + | * Support for use of Amazon Web Services in the Petunia interface | ||
| * ''Support for .mz5 format'' | * ''Support for .mz5 format'' | ||
| Line 28: | Line 25: | ||
| == Bug fixes == | == Bug fixes == | ||
| - | |||
| - | * ''<<insert bulleted new items here>>'' | ||
| * Various security enhancements | * Various security enhancements | ||
| Line 41: | Line 36: | ||
| == Miscellaneous == | == Miscellaneous == | ||
| - | * ''<<insert bulleted new items here>>'' | + | * ''No miscellaneous issues to report'' |
| == Known Issues == | == Known Issues == | ||
| - | * ''<<insert bulleted new items here>>'' | + | * ''No known issues to report'' |
| == Getting the TPP Software == | == Getting the TPP Software == | ||
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| For building from source, please refer to the readme file in TPP/src as well as the wiki. | For building from source, please refer to the readme file in TPP/src as well as the wiki. | ||
| - | The TPP Team: Luis, David, Mike, Brian, Natalie, and Joe 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. | + | The TPP Team: Luis, David, Mike, Brian, and Joe 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. |
| == SVN Log == | == SVN Log == | ||
| The SVN log of all changes since the previous release are available at [[TPP:4.6.0_SVN_Log]]. | The SVN log of all changes since the previous release are available at [[TPP:4.6.0_SVN_Log]]. | ||
Revision as of 21:22, 20 August 2012
Trans-Proteomic Pipeline (TPP) "Occupy" 4.6.0 Release Notes
Trans-Proteomic Pipeline (TPP) software, release 4.6.0 is a minor release of TPP that contains several new features. 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 webserver). For advanced users who need to customize the TPP, or for those who run high-throughput experiments, you can download the source code. Again, most users don't need build from source, and should use the Windows installer.
Previous release notes are available at TPP:4.5.2_Release_Notes
Contents |
New Features
- Support for use of Amazon Web Services in the Petunia interface
- Support for .mz5 format
- Added a download button to the Petunia interface so that users can download a file or a zip archive of files directly from the browser.
- PTMProphet: new tool for assigning probabilities to PTM-sites
- MSGFDB support
Improvements/Changes
- Updated X!Tandem to the latest release: CYCLONE (2011.12.01)
- Increased the number of threads allowed in X!Tandem from 16 to 256. We don't recommend running 256 threads unless you have a really really big computer.
Bug fixes
- Various security enhancements
- Fixed bugs associated with updateAllPaths.pl
- Fixed double counting bug (under specific conditions) in ProphetModels.pl
- Fixed bug causing XPressPeptideParser to run slowly
Miscellaneous
- No miscellaneous issues to report
Known Issues
- No known issues to report
Getting the TPP Software
- Download the TPP version 4.6.0 native windows installer (TPP_Setup_v4_6_0.exe) from the Sashimi SourceForge project file release page:
"http://sourceforge.net/projects/sashimi/files/"
- 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 4.6.0 source code .zip package;
or, check out the code directly from svn:
"svn co http://sashimi.svn.sourceforge.net/svnroot/sashimi/tags/release_4-6-0"
For building from source, please refer to the readme file in TPP/src as well as the wiki.
The TPP Team: Luis, David, Mike, Brian, and Joe 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.
SVN Log
The SVN log of all changes since the previous release are available at TPP:4.6.0_SVN_Log.
