Changing the architecture of packages:
- com as root for com.errors, com.frc, ...
Update log:
- Changing the way reads are recognized for the parallel processing. It's not only the read name that is used (caused issues when multiple mapped reads were present)
- The parallel threads were all accessing the same result HashMap, which was randomly failing (concurrent access). Now each thread is generating its own result matrix, and they are all merged by the mother thread.