Mercurial > repos > lecorguille > xcms_xcmsset
comparison xcms.r @ 18:9616257654aa draft
planemo upload for repository https://github.com/workflow4metabolomics/xcms commit b3ba169290fd2e40dafe167f345106c1c3da3ebe
| author | lecorguille |
|---|---|
| date | Wed, 08 Feb 2017 04:35:17 -0500 |
| parents | 602acc32b549 |
| children | d7971ea3ad1d |
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| 17:602acc32b549 | 18:9616257654aa |
|---|---|
| 250 cat("\t\tGET TIC GRAPH\n") | 250 cat("\t\tGET TIC GRAPH\n") |
| 251 getTICs(xcmsSet=xset, pdfname=ticspdf,rt="corrected") | 251 getTICs(xcmsSet=xset, pdfname=ticspdf,rt="corrected") |
| 252 getBPCs(xcmsSet=xset,rt="corrected",pdfname=bicspdf) | 252 getBPCs(xcmsSet=xset,rt="corrected",pdfname=bicspdf) |
| 253 } | 253 } |
| 254 | 254 |
| 255 if (thefunction == "fillPeaks") { | 255 if ((thefunction == "group" || thefunction == "fillPeaks") && exists("intval")) { |
| 256 cat("\t\tGET THE PEAK LIST\n") | |
| 257 getPeaklistW4M(xset,intval,convertRTMinute,numDigitsMZ,numDigitsRT,variableMetadataOutput,dataMatrixOutput) | 256 getPeaklistW4M(xset,intval,convertRTMinute,numDigitsMZ,numDigitsRT,variableMetadataOutput,dataMatrixOutput) |
| 258 } | 257 } |
| 259 | 258 |
| 260 | 259 |
| 261 cat("\n\n") | 260 cat("\n\n") |