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use which.max to keep up with latest changes in R 3.6 #49

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use which.max to keep up with latest changes in R 3.6 #49

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6 changes: 3 additions & 3 deletions R/xsAnnotate.R
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Original file line number Diff line number Diff line change
Expand Up @@ -1387,12 +1387,12 @@ setMethod("getReducedPeaklist", "xsAnnotate", function(object, method = "median"
# Select adduct that has maximum intensities
if (default.adduct.info == "maxint") {
pl.max <- apply(X=pl.tab, MARGIN=1, FUN=function(x) { sum(x, na.rm=TRUE) } )
pl.max <- which(pl.max==max(pl.max))[1]
pl.max <- as.numeric(which.max(pl.max)[[1]])
}

# Select adduct that has most peaks
if (default.adduct.info == "maxpeaks") {
pl.max <- which(plist$npeaks==max(plist$npeaks))[1]
pl.max <- which.max(pl.tab$npeaks)[[1]]
}

# Take lowest/highest values of mzmin, mzmax & rtmin, rtmax
Expand Down Expand Up @@ -1422,7 +1422,7 @@ setMethod("getReducedPeaklist", "xsAnnotate", function(object, method = "median"

# Only take the adduct line where intensities are highest
if (method == "maxint") {
pl.met <- pl.max
pl.met <- pl.tab[pl.max,]
}

# PCA of all adducts per samples
Expand Down