removed README since it should only apply to archives. added start13OF, task1, inputSubReader, seeBasisReactions, graphMIDResults, and graphFluxResults batch versions, graphFluxResultsBatchNew, and batchScript. Factored out writeFluxesCSV, readModelFile, and buildDiagramEquations for use in graphFluxResultsBatch files and graphMIDResultsBatch. Added Serine, Three, and TwoLock setting_PE files. Made a lot of scripts into functions with outputDir and suffix arguments, checked with exist and put default if not passed, although forgot to put quotes around variable names. Added cases to makeGraph for fluxVariability and fluxVariabilityCompare, to writeFluxesCSV for counting simFluxIdx and totalVariability