| Previous changeset 15:dd6eb1f37f40 (2018-09-19) Next changeset 17:95e689b7f27f (2018-10-09) |
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Commit message:
planemo upload for repository https://github.com/workflow4metabolomics/xcms commit e3956bf3393be5bff67b4d90f1007da00b0ec9b2-dirty |
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modified:
lib.r |
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| diff -r dd6eb1f37f40 -r 6a4d8753a330 lib.r --- a/lib.r Wed Sep 19 02:53:56 2018 -0400 +++ b/lib.r Thu Oct 04 10:37:03 2018 -0400 |
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| @@ -186,9 +186,9 @@ #@author G. Le Corguille # value: intensity values to be used into, maxo or intb -getPeaklistW4M <- function(xdata, intval="into", convertRTMinute=F, numDigitsMZ=4, numDigitsRT=0, naTOzero=T, variableMetadataOutput, dataMatrixOutput) { +getPeaklistW4M <- function(xdata, intval="into", convertRTMinute=F, numDigitsMZ=4, numDigitsRT=0, naTOzero=T, variableMetadataOutput, dataMatrixOutput, sampleNamesList) { dataMatrix <- featureValues(xdata, method="medret", value=intval) - colnames(dataMatrix) <- tools::file_path_sans_ext(colnames(dataMatrix)) + colnames(dataMatrix) <- make.names(tools::file_path_sans_ext(colnames(dataMatrix))) dataMatrix = cbind(name=groupnamesW4M(xdata), dataMatrix) variableMetadata <- featureDefinitions(xdata) colnames(variableMetadata)[1] = "mz"; colnames(variableMetadata)[4] = "rt" |