Hello All,
I have a question of reading certain gff3 file using Artemis 13. While I was
trying to open the file, I received the following error message:
Exception in thread "Thread-2" java.lang.NullPointerException
at
uk.ac.sanger.artemis.io.GFFDocumentEntry.combineGeneFeatures(GFFDocumentEntry.java:224)
at
uk.ac.sanger.artemis.io.GFFDocumentEntry.<init>(GFFDocumentEntry.java:76)
at
uk.ac.sanger.artemis.io.DocumentEntryFactory.makeDocumentEntry(DocumentEntryFactory.java:122)
at
uk.ac.sanger.artemis.components.EntryFileDialog.getEntryFromFileHelper(EntryFileDialog.java:240)
at
uk.ac.sanger.artemis.components.EntryFileDialog.getEntryFromFile(EntryFileDialog.java:300)
at
uk.ac.sanger.artemis.components.EntryFileDialog.getEntry(EntryFileDialog.java:212)
at
uk.ac.sanger.artemis.components.FileDialogEntrySource.getEntryInternal(FileDialogEntrySource.java:231)
at
uk.ac.sanger.artemis.components.FileDialogEntrySource.getEntry(FileDialogEntrySource.java:105)
at
uk.ac.sanger.artemis.components.ArtemisMain$8.construct(ArtemisMain.java:713)
at
uk.ac.sanger.artemis.components.SwingWorker$2.run(SwingWorker.java:127)
at java.lang.Thread.run(Thread.java:636)
The gff3 file was converted from gbk file which can be found here (
ftp://ftp.bio.net/biomirror/ncbigenomes/Protozoa/Plasmodium_falciparum/NC_004314.gbk.gz
) by bp_genbank2gff3.pl.
Anyone has encounter the same problem before?
Thanks,
TT
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