source: extensions/net.sf.basedb.mev/trunk/README @ 1068

Last change on this file since 1068 was 1068, checked in by Nicklas Nordborg, 13 years ago

Fixes #214: Move TDMS export to this extension

  • Property svn:mime-type set to text/x-trac-wiki
File size: 2.7 KB

Requirements

  1. BASE 2.12.0 or later.

Introduction

This package is an extension package to BASE that installs an action that opens TIGR MultiExperiment? Viewer (MEV) as a Java webstart application and automatically imports data from the currently selected bioassay set. This extension uses the standard MEV 4.3.02 distribution that has been Java Webstart enabled. For more information:

Installation

  1. Download the mev-launcher-*.tar.gz file.
  2. Unpack the downloaded file to a directory of your choice.
  3. Copy the mev-launcher.jar file to your BASE extensions directory: WEB-INF/extensions.
  4. Run the 'Extensions -> Manual scan' command if you have disabled automatic installation. Otherwise, just wait a bit and the automatic installation will find and install the new extension.
  5. Run the plug-in installation wizard by clicking the 'New' button on the 'Administration -> Plugins -> Definitions' page. Make sure the option for the 'Extensions directory' is selected. Install all plug-ins found in the mev-launcher.jar file.
  6. Done.

The MeV Launcher appears as an action in the "Tools" column when viewing bioassay sets of an experiment. Some (per-user) options can be specified by opening the 'Extensions -> MeV Launcher options' menu.

The MeV export plug-ins appears in the 'Export' dialog when viewing bioassay sets of an experiment.

Known issues

None.

Compiling

To compile this package you also need:

  1. Ant 1.6
  2. Java 1.6

Follow these instructions:

  1. Download the source code from the subversion repository. See http://baseplugins.thep.lu.se/wiki/net.sf.basedb.mev for instructions.

  1. Type ant download-lib to automatically download the BASE core JAR file that are neeed for compilation. You can also do this manually by copying the BASE2Core.jar, BASE2Webclient.jar, BASE2CorePlugins.jar and BASE2WSClient.jar from the BASE installation directory (<basedir>/www/WEB-INF/lib/) to the ./lib/compile directory.
  1. Type 'ant' to compile the code and generate the 'mev-launcher.jar' file in the project directory.
  1. Use 'ant package' to create a downloadable tar.gz package.

Tip: If you need different values for any of the properties defined in the 'build.xml' file, create a file named 'build.properties' and set the values there.

Note! If upgrading MeV to a new version, the new JAR files needs to be signed. See ./jarsign/readme.txt for more information.

Contributions

  • David Waring, for helping out with MeV 4.3 integration.
Note: See TracBrowser for help on using the repository browser.