diff --git a/R/api.R b/R/api.R index 107691b18eb7310e5b031fb2f84e6165deafd14c..cd803fad56cc54f9e95df6d87c9c2042e1ef20f0 100644 --- a/R/api.R +++ b/R/api.R @@ -24,6 +24,13 @@ run <- function(fn_conf) { conf } + + +run_in_dir <- function(conf) { + conf +} + + read_conf <- function(fn_conf) { assertthat::assert_that(file.exists(fn_conf),msg=paste("Unable to read the configuration file:", fn_conf)) conf <- yaml::yaml.load_file(fn_conf) @@ -74,8 +81,28 @@ vrfy_conf <- function(conf) { return(conf) } -run_in_dir <- function(conf) { - conf +mk_mzml_tab <- function(data) { + files <- unlist(data,recursive = T) + sets <- unique(names(data)) + tags <- c() + for (s in sets) { + tags<-c(tags,names(data[[s]])) + } + tags<-unique(tags) + nr<-length(files) + z<-suppressWarnings(data.table::data.table(Files=character(nr), + mode=factor(levels = names(MODEMAP)), + set=factor(levels = sets), + tag=factor(levels= c(TAG_DEF,tags)), + stringsAsFactors = F)) + z$Files <- files + i <- 1 + for (s in names(data)) { + for (t in names(data[[s]])) { + z[i,"set"] <- s + z[i,"tag"]<-t + i<-i+1 + } + } + z } - -