Found the following significant warnings:
  Rd warning: /tmp/RtmpTNvPxP/R.INSTALL4ed01a5677cf/aroma.core/man/AbstractCNData.Rd:22: file link ‘RichDataFrame’ in package ‘aroma.core’ does not exist and so has been treated as a topic
  Rd warning: /tmp/RtmpTNvPxP/R.INSTALL4ed01a5677cf/aroma.core/man/AbstractPSCNData.Rd:22: file link ‘RichDataFrame’ in package ‘aroma.core’ does not exist and so has been treated as a topic
  Rd warning: /tmp/RtmpTNvPxP/R.INSTALL4ed01a5677cf/aroma.core/man/AromaCellTabularBinaryFile.Rd:43: file link ‘AromaCellSequenceFile’ in package ‘aroma.core’ does not exist and so has been treated as a topic
  Rd warning: /tmp/RtmpTNvPxP/R.INSTALL4ed01a5677cf/aroma.core/man/AromaGenomeTextFile.Rd:39: file link ‘AromaUcscGenomeTextFile’ in package ‘aroma.core’ does not exist and so has been treated as a topic
  Rd warning: /tmp/RtmpTNvPxP/R.INSTALL4ed01a5677cf/aroma.core/man/AromaMicroarrayDataSetTuple.Rd:29: file link ‘AromaUnitTotalCnBinarySetTuple’ in package ‘aroma.core’ does not exist and so has been treated as a topic
  Rd warning: /tmp/RtmpTNvPxP/R.INSTALL4ed01a5677cf/aroma.core/man/AromaMicroarrayTabularBinaryFile.Rd:41: file link ‘AromaCellSequenceFile’ in package ‘aroma.core’ does not exist and so has been treated as a topic
  Rd warning: /tmp/RtmpTNvPxP/R.INSTALL4ed01a5677cf/aroma.core/man/AromaMicroarrayTabularBinaryFile.Rd:41: file link ‘AromaUflFile’ in package ‘aroma.core’ does not exist and so has been treated as a topic
  Rd warning: /tmp/RtmpTNvPxP/R.INSTALL4ed01a5677cf/aroma.core/man/AromaMicroarrayTabularBinaryFile.Rd:41: file link ‘AromaUgcFile’ in package ‘aroma.core’ does not exist and so has been treated as a topic
  Rd warning: /tmp/RtmpTNvPxP/R.INSTALL4ed01a5677cf/aroma.core/man/AromaMicroarrayTabularBinaryFile.Rd:41: file link ‘AromaUgpFile’ in package ‘aroma.core’ does not exist and so has been treated as a topic
  Rd warning: /tmp/RtmpTNvPxP/R.INSTALL4ed01a5677cf/aroma.core/man/AromaMicroarrayTabularBinaryFile.Rd:41: file link ‘AromaUnitChromosomeTabularBinaryFile’ in package ‘aroma.core’ does not exist and so has been treated as a topic
  Rd warning: /tmp/RtmpTNvPxP/R.INSTALL4ed01a5677cf/aroma.core/man/AromaMicroarrayTabularBinaryFile.Rd:41: file link ‘AromaUnitGcContentFile’ in package ‘aroma.core’ does not exist and so has been treated as a topic
  Rd warning: /tmp/RtmpTNvPxP/R.INSTALL4ed01a5677cf/aroma.core/man/AromaPlatformInterface.Rd:25: file link ‘AromaCellSequenceFile’ in package ‘aroma.core’ does not exist and so has been treated as a topic
  Rd warning: /tmp/RtmpTNvPxP/R.INSTALL4ed01a5677cf/aroma.core/man/AromaPlatformInterface.Rd:25: file link ‘AromaUflFile’ in package ‘aroma.core’ does not exist and so has been treated as a topic
  Rd warning: /tmp/RtmpTNvPxP/R.INSTALL4ed01a5677cf/aroma.core/man/AromaPlatformInterface.Rd:25: file link ‘AromaUgcFile’ in package ‘aroma.core’ does not exist and so has been treated as a topic
  Rd warning: /tmp/RtmpTNvPxP/R.INSTALL4ed01a5677cf/aroma.core/man/AromaPlatformInterface.Rd:25: file link ‘AromaUgpFile’ in package ‘aroma.core’ does not exist and so has been treated as a topic
  Rd warning: /tmp/RtmpTNvPxP/R.INSTALL4ed01a5677cf/aroma.core/man/AromaPlatformInterface.Rd:25: file link ‘AromaUnitChromosomeTabularBinaryFile’ in package ‘aroma.core’ does not exist and so has been treated as a topic
  Rd warning: /tmp/RtmpTNvPxP/R.INSTALL4ed01a5677cf/aroma.core/man/AromaPlatformInterface.Rd:25: file link ‘AromaUnitGcContentFile’ in package ‘aroma.core’ does not exist and so has been treated as a topic
  Rd warning: /tmp/RtmpTNvPxP/R.INSTALL4ed01a5677cf/aroma.core/man/AromaTabularBinaryFile.Rd:37: file link ‘AromaCellSequenceFile’ in package ‘aroma.core’ does not exist and so has been treated as a topic
  Rd warning: /tmp/RtmpTNvPxP/R.INSTALL4ed01a5677cf/aroma.core/man/AromaTabularBinaryFile.Rd:37: file link ‘AromaUflFile’ in package ‘aroma.core’ does not exist and so has been treated as a topic
  Rd warning: /tmp/RtmpTNvPxP/R.INSTALL4ed01a5677cf/aroma.core/man/AromaTabularBinaryFile.Rd:37: file link ‘AromaUgcFile’ in package ‘aroma.core’ does not exist and so has been treated as a topic
  Rd warning: /tmp/RtmpTNvPxP/R.INSTALL4ed01a5677cf/aroma.core/man/AromaTabularBinaryFile.Rd:37: file link ‘AromaUgpFile’ in package ‘aroma.core’ does not exist and so has been treated as a topic
  Rd warning: /tmp/RtmpTNvPxP/R.INSTALL4ed01a5677cf/aroma.core/man/AromaTabularBinaryFile.Rd:37: file link ‘AromaUnitChromosomeTabularBinaryFile’ in package ‘aroma.core’ does not exist and so has been treated as a topic
  Rd warning: /tmp/RtmpTNvPxP/R.INSTALL4ed01a5677cf/aroma.core/man/AromaTabularBinaryFile.Rd:37: file link ‘AromaUnitGcContentFile’ in package ‘aroma.core’ does not exist and so has been treated as a topic
  Rd warning: /tmp/RtmpTNvPxP/R.INSTALL4ed01a5677cf/aroma.core/man/AromaUnitPscnBinaryFile.Rd:40: file link ‘CopyNumberDataFile’ in package ‘aroma.core’ does not exist and so has been treated as a topic
  Rd warning: /tmp/RtmpTNvPxP/R.INSTALL4ed01a5677cf/aroma.core/man/AromaUnitPscnBinaryFile.Rd:48: file link ‘CopyNumberDataFile’ in package ‘aroma.core’ does not exist and so has been treated as a topic
  Rd warning: /tmp/RtmpTNvPxP/R.INSTALL4ed01a5677cf/aroma.core/man/AromaUnitPscnBinarySet.Rd:32: file link ‘CopyNumberDataSet’ in package ‘aroma.core’ does not exist and so has been treated as a topic
  Rd warning: /tmp/RtmpTNvPxP/R.INSTALL4ed01a5677cf/aroma.core/man/AromaUnitPscnBinarySet.Rd:40: file link ‘CopyNumberDataSet’ in package ‘aroma.core’ does not exist and so has been treated as a topic
  Rd warning: /tmp/RtmpTNvPxP/R.INSTALL4ed01a5677cf/aroma.core/man/AromaUnitTabularBinaryFile.Rd:45: file link ‘AromaUflFile’ in package ‘aroma.core’ does not exist and so has been treated as a topic
  Rd warning: /tmp/RtmpTNvPxP/R.INSTALL4ed01a5677cf/aroma.core/man/AromaUnitTabularBinaryFile.Rd:45: file link ‘AromaUgcFile’ in package ‘aroma.core’ does not exist and so has been treated as a topic
  Rd warning: /tmp/RtmpTNvPxP/R.INSTALL4ed01a5677cf/aroma.core/man/AromaUnitTabularBinaryFile.Rd:45: file link ‘AromaUgpFile’ in package ‘aroma.core’ does not exist and so has been treated as a topic
  Rd warning: /tmp/RtmpTNvPxP/R.INSTALL4ed01a5677cf/aroma.core/man/AromaUnitTabularBinaryFile.Rd:45: file link ‘AromaUnitChromosomeTabularBinaryFile’ in package ‘aroma.core’ does not exist and so has been treated as a topic
  Rd warning: /tmp/RtmpTNvPxP/R.INSTALL4ed01a5677cf/aroma.core/man/AromaUnitTabularBinaryFile.Rd:45: file link ‘AromaUnitGcContentFile’ in package ‘aroma.core’ does not exist and so has been treated as a topic
  Rd warning: /tmp/RtmpTNvPxP/R.INSTALL4ed01a5677cf/aroma.core/man/AromaUnitTotalCnBinaryFile.Rd:40: file link ‘CopyNumberDataFile’ in package ‘aroma.core’ does not exist and so has been treated as a topic
  Rd warning: /tmp/RtmpTNvPxP/R.INSTALL4ed01a5677cf/aroma.core/man/AromaUnitTotalCnBinaryFile.Rd:48: file link ‘CopyNumberDataFile’ in package ‘aroma.core’ does not exist and so has been treated as a topic
  Rd warning: /tmp/RtmpTNvPxP/R.INSTALL4ed01a5677cf/aroma.core/man/AromaUnitTotalCnBinarySet.Rd:32: file link ‘CopyNumberDataSet’ in package ‘aroma.core’ does not exist and so has been treated as a topic
  Rd warning: /tmp/RtmpTNvPxP/R.INSTALL4ed01a5677cf/aroma.core/man/AromaUnitTotalCnBinarySet.Rd:40: file link ‘CopyNumberDataSet’ in package ‘aroma.core’ does not exist and so has been treated as a topic
  Rd warning: /tmp/RtmpTNvPxP/R.INSTALL4ed01a5677cf/aroma.core/man/CacheKeyInterface.Rd:25: file link ‘AromaCellSequenceFile’ in package ‘aroma.core’ does not exist and so has been treated as a topic
  Rd warning: /tmp/RtmpTNvPxP/R.INSTALL4ed01a5677cf/aroma.core/man/CacheKeyInterface.Rd:25: file link ‘AromaUcscGenomeTextFile’ in package ‘aroma.core’ does not exist and so has been treated as a topic
  Rd warning: /tmp/RtmpTNvPxP/R.INSTALL4ed01a5677cf/aroma.core/man/CacheKeyInterface.Rd:25: file link ‘AromaUflFile’ in package ‘aroma.core’ does not exist and so has been treated as a topic
  Rd warning: /tmp/RtmpTNvPxP/R.INSTALL4ed01a5677cf/aroma.core/man/CacheKeyInterface.Rd:25: file link ‘AromaUgcFile’ in package ‘aroma.core’ does not exist and so has been treated as a topic
  Rd warning: /tmp/RtmpTNvPxP/R.INSTALL4ed01a5677cf/aroma.core/man/CacheKeyInterface.Rd:25: file link ‘AromaUgpFile’ in package ‘aroma.core’ does not exist and so has been treated as a topic
  Rd warning: /tmp/RtmpTNvPxP/R.INSTALL4ed01a5677cf/aroma.core/man/CacheKeyInterface.Rd:25: file link ‘AromaUnitChromosomeTabularBinaryFile’ in package ‘aroma.core’ does not exist and so has been treated as a topic
  Rd warning: /tmp/RtmpTNvPxP/R.INSTALL4ed01a5677cf/aroma.core/man/CacheKeyInterface.Rd:25: file link ‘AromaUnitGcContentFile’ in package ‘aroma.core’ does not exist and so has been treated as a topic
  Rd warning: /tmp/RtmpTNvPxP/R.INSTALL4ed01a5677cf/aroma.core/man/CacheKeyInterface.Rd:25: file link ‘CbsSegmentationDataFile’ in package ‘aroma.core’ does not exist and so has been treated as a topic
  Rd warning: /tmp/RtmpTNvPxP/R.INSTALL4ed01a5677cf/aroma.core/man/CacheKeyInterface.Rd:25: file link ‘SampleAnnotationFile’ in package ‘aroma.core’ does not exist and so has been treated as a topic
  Rd warning: /tmp/RtmpTNvPxP/R.INSTALL4ed01a5677cf/aroma.core/man/CacheKeyInterface.Rd:25: file link ‘SegmentationDataFile’ in package ‘aroma.core’ does not exist and so has been treated as a topic
  Rd warning: /tmp/RtmpTNvPxP/R.INSTALL4ed01a5677cf/aroma.core/man/CacheKeyInterface.Rd:25: file link ‘TextUnitNamesFile’ in package ‘aroma.core’ does not exist and so has been treated as a topic
  Rd warning: /tmp/RtmpTNvPxP/R.INSTALL4ed01a5677cf/aroma.core/man/FileCacheKeyInterface.Rd:27: file link ‘AromaCellSequenceFile’ in package ‘aroma.core’ does not exist and so has been treated as a topic
  Rd warning: /tmp/RtmpTNvPxP/R.INSTALL4ed01a5677cf/aroma.core/man/FileCacheKeyInterface.Rd:27: file link ‘AromaUcscGenomeTextFile’ in package ‘aroma.core’ does not exist and so has been treated as a topic
  Rd warning: /tmp/RtmpTNvPxP/R.INSTALL4ed01a5677cf/aroma.core/man/FileCacheKeyInterface.Rd:27: file link ‘AromaUflFile’ in package ‘aroma.core’ does not exist and so has been treated as a topic
  Rd warning: /tmp/RtmpTNvPxP/R.INSTALL4ed01a5677cf/aroma.core/man/FileCacheKeyInterface.Rd:27: file link ‘AromaUgcFile’ in package ‘aroma.core’ does not exist and so has been treated as a topic
  Rd warning: /tmp/RtmpTNvPxP/R.INSTALL4ed01a5677cf/aroma.core/man/FileCacheKeyInterface.Rd:27: file link ‘AromaUgpFile’ in package ‘aroma.core’ does not exist and so has been treated as a topic
  Rd warning: /tmp/RtmpTNvPxP/R.INSTALL4ed01a5677cf/aroma.core/man/FileCacheKeyInterface.Rd:27: file link ‘AromaUnitChromosomeTabularBinaryFile’ in package ‘aroma.core’ does not exist and so has been treated as a topic
  Rd warning: /tmp/RtmpTNvPxP/R.INSTALL4ed01a5677cf/aroma.core/man/FileCacheKeyInterface.Rd:27: file link ‘AromaUnitGcContentFile’ in package ‘aroma.core’ does not exist and so has been treated as a topic
  Rd warning: /tmp/RtmpTNvPxP/R.INSTALL4ed01a5677cf/aroma.core/man/FileCacheKeyInterface.Rd:27: file link ‘CbsSegmentationDataFile’ in package ‘aroma.core’ does not exist and so has been treated as a topic
  Rd warning: /tmp/RtmpTNvPxP/R.INSTALL4ed01a5677cf/aroma.core/man/FileCacheKeyInterface.Rd:27: file link ‘SampleAnnotationFile’ in package ‘aroma.core’ does not exist and so has been treated as a topic
  Rd warning: /tmp/RtmpTNvPxP/R.INSTALL4ed01a5677cf/aroma.core/man/FileCacheKeyInterface.Rd:27: file link ‘SegmentationDataFile’ in package ‘aroma.core’ does not exist and so has been treated as a topic
  Rd warning: /tmp/RtmpTNvPxP/R.INSTALL4ed01a5677cf/aroma.core/man/FileCacheKeyInterface.Rd:27: file link ‘TextUnitNamesFile’ in package ‘aroma.core’ does not exist and so has been treated as a topic
  Rd warning: /tmp/RtmpTNvPxP/R.INSTALL4ed01a5677cf/aroma.core/man/NonPairedPSCNData.Rd:22: file link ‘RichDataFrame’ in package ‘aroma.core’ does not exist and so has been treated as a topic
  Rd warning: /tmp/RtmpTNvPxP/R.INSTALL4ed01a5677cf/aroma.core/man/PairedPSCNData.Rd:22: file link ‘RichDataFrame’ in package ‘aroma.core’ does not exist and so has been treated as a topic
  Rd warning: /tmp/RtmpTNvPxP/R.INSTALL4ed01a5677cf/aroma.core/man/RawAlleleBFractions.Rd:22: file link ‘RichDataFrame’ in package ‘aroma.core’ does not exist and so has been treated as a topic
  Rd warning: /tmp/RtmpTNvPxP/R.INSTALL4ed01a5677cf/aroma.core/man/RawCopyNumbers.Rd:22: file link ‘RichDataFrame’ in package ‘aroma.core’ does not exist and so has been treated as a topic
  Rd warning: /tmp/RtmpTNvPxP/R.INSTALL4ed01a5677cf/aroma.core/man/RawGenomicSignals.Rd:22: file link ‘RichDataFrame’ in package ‘aroma.core’ does not exist and so has been treated as a topic
  Rd warning: /tmp/RtmpTNvPxP/R.INSTALL4ed01a5677cf/aroma.core/man/RawGenomicSignals.Rd:30: file link ‘RichDataFrame’ in package ‘aroma.core’ does not exist and so has been treated as a topic
  Rd warning: /tmp/RtmpTNvPxP/R.INSTALL4ed01a5677cf/aroma.core/man/RawMirroredAlleleBFractions.Rd:22: file link ‘RichDataFrame’ in package ‘aroma.core’ does not exist and so has been treated as a topic
  Rd warning: /tmp/RtmpTNvPxP/R.INSTALL4ed01a5677cf/aroma.core/man/RawSequenceReads.Rd:22: file link ‘RichDataFrame’ in package ‘aroma.core’ does not exist and so has been treated as a topic
  Rd warning: /tmp/RtmpTNvPxP/R.INSTALL4ed01a5677cf/aroma.core/man/SegmentedAlleleBFractions.Rd:22: file link ‘RichDataFrame’ in package ‘aroma.core’ does not exist and so has been treated as a topic
  Rd warning: /tmp/RtmpTNvPxP/R.INSTALL4ed01a5677cf/aroma.core/man/SegmentedCopyNumbers.Rd:22: file link ‘RichDataFrame’ in package ‘aroma.core’ does not exist and so has been treated as a topic
  Rd warning: /tmp/RtmpTNvPxP/R.INSTALL4ed01a5677cf/aroma.core/man/UnitAnnotationDataFile.Rd:25: file link ‘AromaUflFile’ in package ‘aroma.core’ does not exist and so has been treated as a topic
  Rd warning: /tmp/RtmpTNvPxP/R.INSTALL4ed01a5677cf/aroma.core/man/UnitAnnotationDataFile.Rd:25: file link ‘AromaUgcFile’ in package ‘aroma.core’ does not exist and so has been treated as a topic
  Rd warning: /tmp/RtmpTNvPxP/R.INSTALL4ed01a5677cf/aroma.core/man/UnitAnnotationDataFile.Rd:25: file link ‘AromaUgpFile’ in package ‘aroma.core’ does not exist and so has been treated as a topic
  Rd warning: /tmp/RtmpTNvPxP/R.INSTALL4ed01a5677cf/aroma.core/man/UnitAnnotationDataFile.Rd:25: file link ‘AromaUnitChromosomeTabularBinaryFile’ in package ‘aroma.core’ does not exist and so has been treated as a topic
  Rd warning: /tmp/RtmpTNvPxP/R.INSTALL4ed01a5677cf/aroma.core/man/UnitAnnotationDataFile.Rd:25: file link ‘AromaUnitGcContentFile’ in package ‘aroma.core’ does not exist and so has been treated as a topic
  Rd warning: /tmp/RtmpTNvPxP/R.INSTALL4ed01a5677cf/aroma.core/man/UnitAnnotationDataFile.Rd:25: file link ‘TextUnitNamesFile’ in package ‘aroma.core’ does not exist and so has been treated as a topic
  Rd warning: /tmp/RtmpTNvPxP/R.INSTALL4ed01a5677cf/aroma.core/man/UnitNamesFile.Rd:27: file link ‘TextUnitNamesFile’ in package ‘aroma.core’ does not exist and so has been treated as a topic
  Rd warning: /tmp/RtmpTNvPxP/R.INSTALL4ed01a5677cf/aroma.core/man/downloadFile.AromaRepository.Rd:32: file link ‘downloadFile’ in package ‘R.utils’ does not exist and so has been treated as a topic
  Rd warning: /tmp/RtmpTNvPxP/R.INSTALL4ed01a5677cf/aroma.core/man/fitMultiDimensionalCone.matrix.Rd:124: file link ‘backtransformMultiDimensionalCone.matrix’ in package ‘aroma.core’ does not exist and so has been treated as a topic
  Rd warning: /tmp/RtmpTNvPxP/R.INSTALL4ed01a5677cf/aroma.core/man/indexOf.UnitNamesFile.Rd:39: file link ‘getUnitNames.UnitNamesFile’ in package ‘aroma.core’ does not exist and so has been treated as a topic
  Rd warning: /tmp/RtmpTNvPxP/R.INSTALL4ed01a5677cf/aroma.core/man/listFiles.AromaRepository.Rd:28: file link ‘downloadFile’ in package ‘R.utils’ does not exist and so has been treated as a topic
  Rd warning: /tmp/RtmpTNvPxP/R.INSTALL4ed01a5677cf/aroma.core/man/matrixBlockPolish.matrix.Rd:87: file link ‘medianPolish.matrix’ in package ‘aroma.light’ does not exist and so has been treated as a topic
  Rd warning: /tmp/RtmpTNvPxP/R.INSTALL4ed01a5677cf/aroma.core/man/nbrOfChipTypes.AromaMicroarrayDataSetTuple.Rd:35: file link ‘getChipTypes.AromaMicroarrayDataSetTuple’ in package ‘aroma.core’ does not exist and so has been treated as a topic
See ‘/home/hornik/tmp/R.check/r-patched-gcc/Work/PKGS/aroma.core.Rcheck/00install.out’ for details.