alignReport: no visible global function definition for 'as.alignment'
alignReport: no visible global function definition for 'consensus'
alignReport: no visible global function definition for 'con'
createKnownAlleleList: no visible global function definition for
  'read.alignment'
createKnownAlleleList: no visible global function definition for
  'write.fasta'
createKnownAlleleList: no visible global function definition for
  'read.fasta'
createKnownAlleleList: no visible global function definition for 's2c'
createKnownAlleleList: no visible binding for global variable 'name'
createKnownAlleleList: no visible global function definition for
  'as.SeqFastadna'
dumpVariantMap.mlgtResult: no visible global function definition for
  'write.fasta'
dumpVariantMap.mlgtResult: no visible binding for global variable 's2c'
dumpVariants: no visible global function definition for 'as.alignment'
dumpVariants: no visible global function definition for 'write.fasta'
dumpVariants: no visible binding for global variable 's2c'
errorCorrect.alignment: no visible global function definition for
  'consensus'
errorCorrect.alignment: no visible global function definition for 'con'
errorCorrect.alignment: no visible global function definition for
  'as.matrix.alignment'
errorCorrect.alignment: no visible binding for global variable 'c2s'
errorCorrect.alignment: no visible global function definition for
  'as.alignment'
errorCorrect.mlgtResult: no visible global function definition for
  'getSequence'
errorCorrect.mlgtResult: no visible global function definition for
  'as.alignment'
errorCorrect.mlgtResult: no visible global function definition for
  'as.SeqFastadna'
getSubSeqsTable: no visible global function definition for 'read.fasta'
getSubSeqsTable: no visible global function definition for
  'write.fasta'
getSubSeqsTable: no visible global function definition for
  'as.alignment'
getSubSeqsTable: no visible global function definition for 's2c'
makeVarAlleleBlastMap: no visible global function definition for
  'getName'
makeVarAlleleBlastMap: no visible global function definition for
  'write.fasta'
mlgt.mlgtDesign: no visible global function definition for
  'getSequence'
mlgt.mlgtDesign: no visible global function definition for
  'as.SeqFastadna'
prepareMlgtRun.mlgtDesign: no visible global function definition for
  'write.fasta'
stripGapColumns: no visible global function definition for 'con'
stripGapColumns: no visible binding for global variable 'c2s'
stripGapColumns: no visible global function definition for
  'as.alignment'
errorCorrect,missing-list : .local: no visible global function
  definition for 'consensus'
errorCorrect,missing-list : .local: no visible global function
  definition for 'con'
errorCorrect,missing-list : .local: no visible global function
  definition for 'as.matrix.alignment'
errorCorrect,missing-list : .local: no visible binding for global
  variable 'c2s'
errorCorrect,missing-list : .local: no visible global function
  definition for 'as.alignment'
errorCorrect,mlgtResult-missing : .local: no visible global function
  definition for 'getSequence'
errorCorrect,mlgtResult-missing : .local: no visible global function
  definition for 'as.alignment'
errorCorrect,mlgtResult-missing : .local: no visible global function
  definition for 'as.SeqFastadna'
mlgt,mlgtDesign: no visible global function definition for
  'getSequence'
mlgt,mlgtDesign: no visible global function definition for
  'as.SeqFastadna'
prepareMlgtRun,mlgtDesign-missing-missing-missing-missing-missing-missing-missing-character
  : .local: no visible global function definition for 'write.fasta'