-UMergeTaxaTagCountPlugin problem

[Maciej Bisaga]

Hi
Did anybody faced my problem during UNEAK pipeline ?!

mtb@oat-toy:~/tassel3-standalone$ ./run_pipeline.pl -Xms512m -Xmx50g -fork1 -UMergeTaxaTagCountPlugin -w /home/mtb/tassel3-standalone/UNEAK_FxN7/tagCounts -c 10 -endPlugin -runfork1
./lib/ejml-0.13.jar:./lib/commons-httpclient-3.0.1.jar:./lib/batik-css.jar:./lib/commons-lang-2.1.jar:./lib/XmlSchema-1.3.1.jar:./lib/biojava3-alignment-3.0.jar:./lib/biojava3-core-3.0.jar:./lib/axiom-api-1.2.4.jar:./lib/lzma-4.63-jio-0.93.jar:./lib/ssj.jar:./lib/commons-pool-1.3.jar:./lib/mail-1.4.jar:./lib/biojava3-phylo-3.0.jar:./lib/batik-awt-util.jar:./lib/batik-svggen.jar:./lib/batik-ext.jar:./lib/axis2-kernel-1.2.jar:./lib/commons-collections-3.1.jar:./lib/batik-gui-util.jar:./lib/xercesImpl.jar:./lib/batik-dom.jar:./lib/poi-3.0.1-FINAL-20070705.jar:./lib/gdpc.jar:./lib/batik-svg-dom.jar:./lib/cisd-jhdf5-batteries_included_lin_win_mac.jar:./lib/xml.jar:./lib/jung-1.7.5.jar:./lib/junit-4.1.jar:./lib/jfreechart-1.0.3.jar:./lib/LiuExt.jar:./lib/wsdl4j-1.6.2.jar:./lib/jgrapht-0.5.3.jar:./lib/commons-codec-1.3.jar:./lib/commons-configuration-1.2.jar:./lib/crimson-parser.jar:./lib/commons-math-2.2.jar:./lib/batik-xml.jar:./lib/batik-parser.jar:./lib/commons-dbcp-1.2.1.jar:./lib/batik-util.jar:./lib/geronimo-spec-activation-1.0.2-rc4.jar:./lib/colt.jar:./lib/log4j-1.2.13.jar:./lib/xmlParserAPIs.jar:./lib/forester.jar:./lib/mysql-connector-java-3.1.13-bin.jar:./lib/commons-discovery.jar:./lib/axiom-impl-1.2.4.jar:./lib/batik-gvt.jar:./lib/commons-logging-1.1.jar:./lib/jcommon-1.0.6.jar:./sTASSEL.jar
Memory Settings: -Xms512m -Xmx50g
Tassel Pipeline Arguments: -fork1 -UMergeTaxaTagCountPlugin -w /home/mtb/tassel3-standalone/UNEAK_FxN7/tagCounts -c 10 -endPlugin -runfork1
[main] INFO net.maizegenetics.pipeline.TasselPipeline - Tassel Version: 3.0.173  Date: July 30, 2015
net.maizegenetics.gbs.pipeline.UMergeTaxaTagCountPlugin
Exception in thread "Thread-0" java.lang.NullPointerException
    at java.util.Arrays.sort(Arrays.java:1438)
    at net.maizegenetics.gbs.pipeline.UMergeTaxaTagCountPlugin.mergeTaxa(UMergeTaxaTagCountPlugin.java:93)
    at net.maizegenetics.gbs.pipeline.UMergeTaxaTagCountPlugin.performFunction(UMergeTaxaTagCountPlugin.java:60)
    at net.maizegenetics.plugindef.AbstractPlugin.dataSetReturned(AbstractPlugin.java:201)
    at net.maizegenetics.plugindef.ThreadedPluginListener.run(ThreadedPluginListener.java:29)

best Maciej

[Maciej Bisaga]

to avoid problem i've used -t n argument (as it was suggested in other post) but could somebody explain me what it does -t n ot y

best M