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(v0.7.0.9001) new pathovars, small fixes

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This commit is contained in:
dr. M.S. (Matthijs) Berends
2019-06-07 22:47:37 +02:00
parent 04c75e8e36
commit f02679fb63
83 changed files with 686 additions and 583 deletions
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14
R/eucast_rules.R
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@ -209,6 +209,12 @@ eucast_rules <- function(x,
stop("`col_mo` must be set")
}
decimal.mark <- getOption("OutDec")
big.mark <- ifelse(decimal.mark != ",", ",", ".")
formatnr <- function(x) {
trimws(format(x, big.mark = big.mark, decimal.mark = decimal.mark))
}
warned <- FALSE
txt_error <- function() { cat("", bgRed(white(" ERROR ")), "\n") }
@ -219,7 +225,7 @@ eucast_rules <- function(x,
if (no_of_changes == 1) {
cat(blue(" (1 new change)\n"))
} else {
cat(blue(paste0(" (", no_of_changes, " new changes)\n")))
cat(blue(paste0(" (", formatnr(no_of_changes), " new changes)\n")))
}
} else {
cat(green(" (no new changes)\n"))
@ -664,12 +670,6 @@ eucast_rules <- function(x,
verbose_info <- verbose_info %>%
arrange(row, rule_group, rule_name, col)
decimal.mark <- getOption("OutDec")
big.mark <- ifelse(decimal.mark != ",", ",", ".")
formatnr <- function(x) {
trimws(format(x, big.mark = big.mark, decimal.mark = decimal.mark))
}
cat(paste0("\n", silver(strrep("-", options()$width - 1)), "\n"))
cat(bold(paste('EUCAST rules', paste0(wouldve, 'affected'),
formatnr(n_distinct(verbose_info$row)),