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Resolve "Chunk bam for parallel tin calculation"

Jonathan Gesell requested to merge 45-parallelizeTin into develop

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Chunked the BAM file for faster TIN calculation. Chunking takes place in the dedup phase, and all chunks are concatenated together at the end of inferMetadata. Note: this does remove all non-canonical contigs from the calculations, however, after several tests, it appears this was occurring anyway, as does not calculate anything no present in the BED file.

/cc @ghenry @venkat.malladi

Edited by Gervaise Henry

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