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fix typo, replace Ontolgy --> Ontology
use samtools artifact from hadoop-bam maven repo instead of manual install
formatting fixes
Merge pull request #17 from heuermh/sequence-ontolgy-typo

fix typo, replace Ontolgy --> Ontology
Merge pull request #18 from heuermh/hadoop-bam-repo

Use samtools artifact from hadoop-bam maven repo...
Command line option -ud was not working in SnpEff count: Fixed
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Command line option -ud was not working in SnpEff count: Fixed
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