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stxmjh / interproscan

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[interhelp #31054] Generation of the RAW output format does not work in CONVERT mode #56

Closed GoogleCodeExporter closed 9 years ago

GoogleCodeExporter commented 9 years ago 
Which version?
InterProScan version 5.7-48.0 and possible earlier versions:

Description:
The generation of the RAW output format does not work in CONVERT mode.

Which command?
./interproscan.sh -mode convert -f raw -i test_proteins_convert_mode.xml

I5 terminal output:
13/11/2014 16:21:01:546 Welcome to InterProScan-5.7-48.0
13/11/2014 16:21:05:123 Running InterProScan v5 in CONVERT mode...
Exception in thread "main" java.lang.NullPointerException
    at uk.ac.ebi.interpro.scan.io.match.writer.ProteinMatchesRAWResultWriter.write(ProteinMatchesRAWResultWriter.java:166)
    at uk.ac.ebi.interpro.scan.jms.converter.Converter.writeProteinMatches(Converter.java:481)
    at uk.ac.ebi.interpro.scan.jms.converter.Converter.outputToRAW(Converter.java:459)
    at uk.ac.ebi.interpro.scan.jms.converter.Converter.run(Converter.java:241)
    at uk.ac.ebi.interpro.scan.jms.main.Run.main(Run.java:270)

Original issue reported on code.google.com by Maxim.Sc...@gmail.com on 13 Nov 2014 at 4:24

GoogleCodeExporter commented 9 years ago 
Fixed.
This was due to the fact that the test convert files 
(test_proteins_convert_mode.xml and test_nt_seqs_convert_mode.xml) were out of 
date.

Original comment by Maxim.Sc...@gmail.com on 13 Nov 2014 at 4:36

GoogleCodeExporter commented 9 years ago

Original comment by Maxim.Sc...@gmail.com on 13 Nov 2014 at 4:37