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Folder rearrangement.
For RNA-seq and GRO-seq, log and data directories are now subdirectories of output directories. local_annot_dir also moves as subdirectory of GRO-seq output.
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For RNA-seq and GRO-seq, log and data directories are now subdirectories of output directories. local_annot_dir also moves as subdirectory of GRO-seq output.