add thread count to align_and_estimate_abundance.pl for RSEM convert-sam-for-rsem as per https://github.com/trinityrnaseq/trinityrnaseq/issues/990
add thread count to align_and_estimate_abundance.pl for RSEM convert-sam-for-rsem as per https://github.com/trinityrnaseq/trinityrnaseq/issues/990

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