Changeset 1218


Ignore:
Timestamp:
Mar 29, 2010, 10:48:15 AM (12 years ago)
Author:
Jari Häkkinen
Message:

Addresses #231. Improved documents and display link to illumina package web page when error occurs.

Location:
plugins/base2/net.sf.basedb.illumina/trunk
Files:
2 edited

Legend:

Unmodified
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  • plugins/base2/net.sf.basedb.illumina/trunk/README_PluginDetails

    r1207 r1218  
    55There are many plug-ins in the Illumina plug-in package for BASE. This
    66file gives detailed information on some of the contributed plug-ins.
     7
    78
    89
     
    2324file. The default is not to save the expression matrix but this can be
    2425changed during job configuration.
    25 
    2626
    2727=== Implementation details ===
     
    9999respectively.
    100100
     101A spot is considered to be a negative control spot if it has an
     102''Control group name'' exactly matching the string ''negative''.
     103
    101104
    102105
  • plugins/base2/net.sf.basedb.illumina/trunk/src/net/sf/basedb/illumina/plugins/DetectionPValue.java

    r1168 r1218  
    22  $Id$
    33
    4   Copyright (C) 2008, 2009 Jari Häkkinen
     4  Copyright (C) 2008, 2009, 2010 Jari Häkkinen
    55
    66  This file is part of Illumina plug-in package for BASE.
     
    554554          {
    555555            throw new BaseException("No negative controls in bioassayset. Cannot " +
    556                                     "calculate P-values (see documentation for details)");
     556                                    "calculate P-values (see documentation for details, " +
     557                                    "http://baseplugins.thep.lu.se/wiki/net.sf.basedb.illumina)");
    557558          }
    558559          int[] controlStartStop =  locateOutlierBoundary(sortedControlIntensity,
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