bigdatagenomics / adam / 2831

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jenkins

[ADAM-1504] Fix transient sorting bug when sorting reads in index mode.

Resolves #1504. To handle unmapped reads---which must go at the end of the file,
after all aligned reads---we assign them to a sequence index higher than the
index of the highest read. However, to not put all reads at the same sequence
index, we randomize using the hash code of the read name of the unmapped read.
With the prior logic, reads whose names yielded negative hash codes would
occasionally get indices that were valid contig indices.

3 of 3 new or added lines in 1 file covered. (100.0%)

5801 of 6902 relevant lines covered (84.05%)

6.69 hits per line