tool resolves symlinks only for alignment files - error if alignment file is provided as a symlink where the associated index is in the same dir as the symlink

[hmarshall14]

Error received when attempting to run hairpin2 on symlinked bam files: ValueError: fetch called on bamfile without index

[blex-max]

Thanks - fixed in #22, in the sense that you should now get a more graceful error message for this scenario. This is due to the behaviour of the pysam dependency, and so isn't something I can trivially fix on this end. I might query it with the pysam developers though