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mhammell-laboratory / TEtranscripts

A package for including transposable elements in differential enrichment analysis of sequencing datasets.
http://hammelllab.labsites.cshl.edu/software/#TEtranscripts
GNU General Public License v3.0
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Support pysam>=0.9 and samtools>=1.3 #9

Closed ntkme closed 7 years ago

ntkme commented 7 years ago

This PR solves the pysam error when using pysam>=0.9.

The cause of the problem is that pysam 0.9 uses samtools 1.3 which has a changed interface for sort command.