* installing to library ‘/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages’ * installing *source* package ‘MALDIrppa’ ... ** this is package ‘MALDIrppa’ version ‘1.1.0-2’ ** package ‘MALDIrppa’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** data ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices converting help for package ‘MALDIrppa’ finding HTML links ... done MALDIrppa-package html Rd warning: MALDIrppa-package.Rd:9: missing link ‘MALDIquant’ addMetadata html Rd warning: addMetadata.Rd:8: missing link ‘AbstractMassObject-class’ Rd warning: addMetadata.Rd:16: missing link ‘AbstractMassObject-class’ Rd warning: addMetadata.Rd:27: missing link ‘AbstractMassObject-class’ alignPeaks html Rd warning: alignPeaks.Rd:8: missing link ‘MassPeaks’ Rd warning: alignPeaks.Rd:8: missing link ‘MALDIquant’ Rd warning: alignPeaks.Rd:16: missing link ‘MassPeaks’ Rd warning: alignPeaks.Rd:19: missing link ‘referencePeaks’ Rd warning: alignPeaks.Rd:22: missing link ‘referencePeaks’ Rd warning: alignPeaks.Rd:22: missing link ‘binPeaks’ Rd warning: alignPeaks.Rd:24: missing link ‘MALDIquant’ Rd warning: alignPeaks.Rd:28: missing link ‘warpMassPeaks’ Rd warning: alignPeaks.Rd:28: missing link ‘binPeaks’ Rd warning: alignPeaks.Rd:28: missing link ‘MALDIquant’ Rd warning: alignPeaks.Rd:31: missing link ‘MassPeaks’ countPeaks html Rd warning: countPeaks.Rd:8: missing link ‘MassPeaks’ Rd warning: countPeaks.Rd:16: missing link ‘MassPeaks’ deletePeaks html detectOutliers html Rd warning: detectOutliers.Rd:14: missing link ‘MassSpectrum’ Rd warning: detectOutliers.Rd:20: missing link ‘covMcd’ importSpectra html Rd warning: importSpectra.Rd:7: missing link ‘MassSpectrum’ Rd warning: importSpectra.Rd:19: missing link ‘MassSpectrum’ Rd warning: importSpectra.Rd:22: missing link ‘MassSpectrum’ peakPatterns html Rd warning: peakPatterns.Rd:8: missing link ‘intensityMatrix’ Rd warning: peakPatterns.Rd:20: missing link ‘MassPeaks’ Rd warning: peakPatterns.Rd:61: missing link ‘intensityMatrix’ plot.scSpectra html rawToPeaks html Rd warning: rawToPeaks.Rd:5: missing link ‘MassPeaks’ Rd warning: rawToPeaks.Rd:8: missing link ‘MassPeaks’ Rd warning: rawToPeaks.Rd:23: missing link ‘MassPeaks’ Rd warning: rawToPeaks.Rd:26: missing link ‘MassPeaks’ rawToSpectra html Rd warning: rawToSpectra.Rd:5: missing link ‘MassSpectrum’ Rd warning: rawToSpectra.Rd:8: missing link ‘MassSpectrum’ Rd warning: rawToSpectra.Rd:23: missing link ‘MassSpectrum’ Rd warning: rawToSpectra.Rd:26: missing link ‘MassSpectrum’ redResolution html Rd warning: redResolution.Rd:8: missing link ‘MassSpectrum-class’ Rd warning: redResolution.Rd:15: missing link ‘MassSpectrum-class’ Rd warning: redResolution.Rd:26: missing link ‘MassSpectrum-class’ screenSpectra html Rd warning: screenSpectra.Rd:18: missing link ‘MassSpectrum’ Rd warning: screenSpectra.Rd:27: missing link ‘Qn’ Rd warning: screenSpectra.Rd:42: missing link ‘Qn’ snrPeaks html Rd warning: snrPeaks.Rd:16: missing link ‘MassPeaks’ Rd warning: snrPeaks.Rd:20: missing link ‘MassPeaks’ Rd warning: snrPeaks.Rd:20: missing link ‘detectPeaks’ spectra html Rd warning: spectra.Rd:8: missing link ‘MassSpectrum’ summary.scSpectra html summaryPeaks html Rd warning: summaryPeaks.Rd:8: missing link ‘MassPeaks’ Rd warning: summaryPeaks.Rd:16: missing link ‘MassPeaks’ Rd warning: summaryPeaks.Rd:22: missing link ‘MassPeaks’ Rd warning: summaryPeaks.Rd:25: missing link ‘MassPeaks’ summarySpectra html Rd warning: summarySpectra.Rd:8: missing link ‘MassSpectrum’ Rd warning: summarySpectra.Rd:16: missing link ‘MassSpectrum’ Rd warning: summarySpectra.Rd:22: missing link ‘MassSpectrum’ Rd warning: summarySpectra.Rd:25: missing link ‘MassSpectrum’ transfIntensity html Rd warning: transfIntensity.Rd:8: missing link ‘MassSpectrum-class’ Rd warning: transfIntensity.Rd:15: missing link ‘MassSpectrum-class’ Rd warning: transfIntensity.Rd:25: missing link ‘transformIntensity’ Rd warning: transfIntensity.Rd:28: missing link ‘MassSpectrum-class’ type html wavSmoothing html Rd warning: wavSmoothing.Rd:8: missing link ‘MassSpectrum’ Rd warning: wavSmoothing.Rd:17: missing link ‘MassSpectrum’ Rd warning: wavSmoothing.Rd:36: missing link ‘MassSpectrum’ writeIntensity html Rd warning: writeIntensity.Rd:8: missing link ‘intensityMatrix’ Rd warning: writeIntensity.Rd:17: missing link ‘intensityMatrix’ writeMetadata html ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (MALDIrppa)