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…run on sorted file directly
…tly ... no need to have intermediate files
…t with more robust awk solution
* 09_peak_annotation.R * condense_exon is no longer needed, so removed * ***peak_type*** is coming in from the config file.. so annotation output file should have ***peak_type*** to prevent overwriting * 09_peak_annotation_functions.R * ***peak_type*** is coming in from the config file.. so annotation output file should have ***peak_type*** to prevent overwriting * 12_MAnormAnnotation.Rmd * loading libraries with suppressMessages * write warning message if (manorm parameter) needs to be changed (ie it is differerent from peak width distribution) * 11_MAnorm_Process.R * adding and to background counts to the final output table
…y during dry run ... also threads directive needs to be correctly defined for each rule in the Snakefile
…ly depicts the number of CPUS in the final rule vs resources table.
…g not liking hyphens
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merge activeDev features prior to major update