source: plugins/base2/net.sf.basedb.normalizers/trunk/INSTALL @ 1410

Last change on this file since 1410 was 1410, checked in by Nicklas Nordborg, 10 years ago

References #331: Updates required for BASE 3 support

The code compiles and installs. The only exception is the qQuantileNormalizer which uses the BioAssaySetExporter. This exporter has been removed in BASE 3 so this export needs to be re-implemented.

  • Property svn:eol-style set to native
  • Property svn:keywords set to Id
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File size: 2.2 KB

$Id: INSTALL 1410 2011-10-19 08:34:42Z nicklas $


Copyright (C) 2008, 2009 Jari Häkkinen, Martin Svensson
Copyright (C) 2010 Jari Häkkinen
This file is part of the Normalizers plug-in package for BASE
(net.sf.based.normalizers). The package is available at
http://baseplugins.thep.lu.se/ BASE main site is
http://base.thep.lu.se/
This is free software; you can redistribute it and/or
modify it under the terms of the GNU General Public License
as published by the Free Software Foundation; either version 3
of the License, or (at your option) any later version.
The software is distributed in the hope that it will be useful,
but WITHOUT ANY WARRANTY; without even the implied warranty of
MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
GNU General Public License for more details.
You should have received a copy of the GNU General Public License
along with this program. If not, see <http://www.gnu.org/licenses/>.

How to install or upgrade the Normalization plug-ins package for BASE.

Requirements

  1. BASE 3.0.0 or later.

Installation/Upgrade?

  1. Unpack the tar.gz file to a directory of your choice.
  2. Copy the normalization-plugins.jar to your BASE plug-ins directory. This directory is specified by the 'plugins.dir' option in your base.config file and defaults to <basedir>/plugins. In case of upgrading to a newer package-release the old jar-file should be overwritten.

    If you have job agents that are running from another location, you must also copy the jar file to a location the job agents has access to.
  3. Log in to BASE as an administrator and run the plug-in auto-installation wizard by going to Administrate->Plug-ins & Extensions->Overview and click on the 'Install/uninstall' button.
  4. Select to 'Install' the normalization-plugins.jar and then click on 'Next'.
  5. Done. The normalization plug-ins are now installed.

Make sure that the job agents have access to the same normalization-plugins.jar file as the Tomcat web server. If the job agents are not running from the same BASE installation directory, you may need to copy the files to a proper location.

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