[BAM]Implement: Realigner now output sorted BAMs
[BAM]Implement: Implementation progress in realigner, OpenMP processing
[BAM]Implement: Progress in realigner OpenMP implementation
[BAM]Implement: Realigne OpenMP progress. Bugfixes
[BAM]Implement: OpenMP realigner progress
Added missing library flags for some systems based in fedora
[LIB]Fix: Fixed some compiling warnings
[BAM]Fix: Major bugfixes
[BAM]Implement: Implementation progress in realigner with OpenMP
[BAM]Implement: OpenMP realigner implementation progress
[BAM]Implement: OpenMP realigner implementation progress
[BAM]Fixes: Realigner singlethreaded mode fixed
[BAM]Fix: Minor bug fixing
Merge branch 'realigner' into develop
[BAM]Fix: Fixed potential deadlock in realigner
[BAM]Fix: Removed exterior bucle in aligner to avoid deadlock
[BAM]Fix: Minimum required threads set to 3 to avoid deadlock
Merge branch 'realigner' of https://github.com/raulmorenogaldon/hpg-aligner into realigner

Conflicts:
	src/tools/bam/aligner/alig.c
[BAM]Fix: Bugfixing
[BAM]Implement: Wandering framework implementation progress