VIRUSBreakend does not abort on input file parsing failure.

[d-cameron]

Sat Nov  7 01:06:53 UTC 2020: Identifying viral sequences
Unable to read SAM header.
main_unmappedSequencesToFastq failed: Exec format error
Loading database information...01:06:54.419 INFO  NativeLibraryLoader - Loading libgkl_compression.so from jar:file:/home/d_cameron/virusbreakend/gridss-2.10.2-gridss-jar-with-dependencies.jar!/com/intel/gkl/native/libgkl_compression.so
[Sat Nov 07 01:06:54 UTC 2020] SubsetToTaxonomy
Picard version: Version:2.10.2-gridss
INFO	2020-11-07 01:06:54	KrakenClassificationChecker	Loading NCBI taxonomy from ./virusbreakenddb/taxonomy/nodes.dmp
 done.
																				  
0 sequences (0.00 Mbp) processed in 0.014s (0.0 Kseq/m, 0.00 Mbp/m).
  0 sequences classified (-nan%)
  0 sequences unclassified (-nan%)
INFO	2020-11-07 01:06:59	SubsetToTaxonomy	Performing taxonomy lookup on /dev/stdin

• Failures should propagate up
• 0 read input should fail (& a command-line override for this option)