sambamba view segfault

[roryk]

Hi Artem,

I have a SAM file that can be converted to BAM fine with samtools but segfaults when running sambamba (0.4.7 and 0.5.0). I stuck it up here:

https://dl.dropboxusercontent.com/u/2822886/sambamba/test.sam

The command that segfaults is:

sambamba view --format=bam -S test.sam > test.bam

Let me know if I can provide any other information that might be helpful. Thanks!

[lomereiter]

Thanks for the test case, it turned out that the case when base quality string is * was not handled.

[roryk]

Thanks for the fast fix, you're a beast.