[Debian-med-packaging] Bug#705686: picard-tools BuildBamIndex fails

[Ognyan Kulev]

Package: picard-tools
Version: 1.82-1

"picard-tools BuildBamIndex ..." fails with

Caused by: java.lang.ClassNotFoundException: net.sf.picard.util.BuildBamIndex
...

In /usr/bin/picard-tools, changing

       BuildBamIndex)                  main=net.sf.picard.util.BuildBamIndex;;

to

       BuildBamIndex)                  main=net.sf.picard.sam.BuildBamIndex;;

fixes the problem.

Probably all picard commands has to be checked.

Regards,
Ognyan Kulev