CampagneLaboratory / goby

Goby framework and tools for analysis of high-throughput sequencing data
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NPE when running discovery-sequence-variants with no groups. #3

Closed fac2003 closed 11 years ago

fac2003 commented 11 years ago

The following NPE can be observed when running discovery-sequence-variants with no groups.

java.lang.NullPointerException at edu.cornell.med.icb.goby.modes.DiscoverSequenceVariantsMode.configure(DiscoverSequenceVariantsMode.java:192) at edu.cornell.med.icb.goby.modes.GenericToolsDriver.execute(GenericToolsDriver.java:218) at edu.cornell.med.icb.goby.modes.GobyDriver.main(GobyDriver.java:55)

fac2003 commented 11 years ago

A simple work-around consist in adding a group that contains at least one sample, for instance: --groups sample=some-sample, where some-sample must match the basename of one of the alignments provided on the command line.

fac2003 commented 11 years ago

This bug is fixed in GitHub stable branch. Will be part of the next stable release.

fac2003 commented 11 years ago

Fixed in 2.3.1.