Require pairs of accessions for exp/control samples instead of experiment accession Create run_parser class to return list of run classes, and list of genome classes. Adding the sample format here for future reference run.yaml ======== genomes: - assembly: - [bwa]: "/path/to/base/file" - [bowtie2]: "/path/to/base/file" - chrom.sizes: "/path/to/chrom/file" runs: - align: [bwa | bowtie2] - assembly: "assembly" - peak: [gem|ccat|peakranger|spp|macs2] - idr: [true|false] - file_type: [fastq|bam] - control1: "accession" - [control2]: "accession" - signal1: "accession" - [signal2]: "accession"