Changeset 2176


Ignore:
Timestamp:
Dec 12, 2013, 11:39:47 AM (7 years ago)
Author:
Jari Häkkinen
Message:

Changes from release procedure and other minor things.

Location:
plugins/base2/net.sf.basedb.normalizers/trunk
Files:
4 edited

Legend:

Unmodified
Added
Removed
  • plugins/base2/net.sf.basedb.normalizers/trunk/INSTALL

    r1454 r2176  
    55Copyright (C) 2008, 2009 Jari Häkkinen, Martin Svensson
    66Copyright (C) 2010 Jari Häkkinen
     7Copyright (C) 2011 Nicklas Nordborg
     8Copyright (C) 2013 Jari Häkkinen
    79
    810This file is part of the Normalizers plug-in package for BASE
     
    3234== Requirements ==
    3335
    34  1. BASE 3.0 or later.
     36 1. BASE 3.2.4 or later.
    3537
    3638== Installation/Upgrade ==
  • plugins/base2/net.sf.basedb.normalizers/trunk/META-INF/extensions.xml

    r2165 r2176  
    11<?xml version="1.0" encoding="UTF-8" ?>
     2<!--
     3    $Id$
     4
     5    Copyright (C) 2011 Nicklas Nordborg
     6    Copyright (C) 2013 Jari Häkkinen, Olle Månsson
     7
     8    This file is part of the Normalizers plug-in package for BASE
     9    (net.sf.based.normalizers). The package is available at
     10    http://baseplugins.thep.lu.se/ BASE main site is
     11    http://base.thep.lu.se/
     12
     13    This is free software; you can redistribute it and/or modify it
     14    under the terms of the GNU General Public License as published by
     15    the Free Software Foundation; either version 3 of the License, or
     16    (at your option) any later version.
     17
     18    The software is distributed in the hope that it will be useful,
     19    but WITHOUT ANY WARRANTY; without even the implied warranty of
     20    MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU
     21    General Public License for more details.
     22
     23    You should have received a copy of the GNU General Public License
     24    along with this program. If not, see <http://www.gnu.org/licenses/>.
     25-->
     26
    227<extensions xmlns="http://base.thep.lu.se/extensions.xsd">
    328  <about>
     
    1035      used.
    1136    </description>
    12     <version>1.1-beta</version>
     37    <version>1.1-beta2</version>
    1338    <min-base-version>3.2.4</min-base-version>
    1439    <copyright>BASE development team</copyright>
     
    5075        rows will contain mixed probes (also known as reporters or genes)
    5176        decided by their rank. For each row in the matrix, the expression
    52         values are replaced with the row average value. Finally, each assay
     77        values are replaced with the row average value (geometric or
     78        arithmetic selectable by user). Finally, each assay is
    5379        is reordered into its original order to retain a standard
    5480        expression matrix where each row represents one probe. Assays are
     
    5884        bioassay set before running this plug-in. The bioassay set must not
    5985        contain any missing values.
    60        
    61         Data stored in logarithmic format will be untransformed before averaging,
    62         and then transformed back to logarithmic format before results are stored.
    6386       
    6487        This plug-in supports 1-channel and 2-channel data.
  • plugins/base2/net.sf.basedb.normalizers/trunk/build.xml

    r2174 r2176  
    5656  <!-- variables used --> 
    5757  <property name="name" value="normalization-plugins" /> 
    58   <property name="version" value="1.1-beta" description="Version number of the package" />
     58  <property name="version" value="1.1-beta2"  description="Version number of the package" />
    5959  <property name="src" value="src" />
    6060  <property name="build" value="build" description="Location of build class files"/> 
  • plugins/base2/net.sf.basedb.normalizers/trunk/src/net/sf/basedb/normalizers/Normalizations.java

    r1454 r2176  
    3636    The current version of this package.
    3737  */
    38   public static final String VERSION = "1.1-beta";
     38  public static final String VERSION = "1.1-beta2";
    3939 
    4040}
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