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Merge pull request #765 from broadinstitute/rhl_improve_bad_file_err_msg 

Catch RuntimeException and add the bad file name to the newly thown exce...
This commit is contained in:
jmthibault79 2014-11-05 10:59:38 -05:00
parent c14fccb571 6f78bf5041
commit 8ddcff159e
1 changed files with 2 additions and 1 deletions
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public/gatk-engine/src/main/java/org/broadinstitute/gatk/engine/datasources/rmd/ReferenceOrderedDataSource.java
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@ -244,9 +244,10 @@ class ReferenceOrderedQueryDataPool extends ResourcePool<RMDTrack,LocationAwareS
} }
} catch (FileNotFoundException e) { } catch (FileNotFoundException e) {
throw new UserException.CouldNotReadInputFile(fileDescriptor.getName(), "it could not be found"); throw new UserException.CouldNotReadInputFile(fileDescriptor.getName(), "it could not be found");
} catch (IOException e) { } catch (IOException | RuntimeException e) {
throw new ReviewedGATKException("Unable to create iterator for rod named " + fileDescriptor.getName(),e); throw new ReviewedGATKException("Unable to create iterator for rod named " + fileDescriptor.getName(),e);
} }
} }
@Override @Override