• using R version 3.3.1 Patched (2016-09-13 r71247)
• using platform: x86_64-pc-linux-gnu (64-bit)
• using session charset: UTF-8
• checking for file ‘AIM/DESCRIPTION’ ... OK
• this is package ‘AIM’ version ‘1.01’
• checking package namespace information ... NOTE
    Namespace with empty importFrom: ‘survival’
• checking package dependencies ... OK
• checking if this is a source package ... OK
• checking if there is a namespace ... OK
• checking for executable files ... OK
• checking for hidden files and directories ... OK
• checking for portable file names ... OK
• checking for sufficient/correct file permissions ... OK
• checking whether package ‘AIM’ can be installed ... OK
• checking installed package size ... OK
• checking package directory ... OK
• checking DESCRIPTION meta-information ... NOTE
  Malformed Description field: should contain one or more complete sentences.
  Package listed in more than one of Depends, Imports, Suggests, Enhances:
    ‘survival’
  A package should be listed in only one of these fields.
• checking top-level files ... OK
• checking for left-over files ... OK
• checking index information ... OK
• checking package subdirectories ... OK
• checking R files for non-ASCII characters ... OK
• checking R files for syntax errors ... OK
• checking whether the package can be loaded ... OK
• checking whether the package can be loaded with stated dependencies ... OK
• checking whether the package can be unloaded cleanly ... OK
• checking whether the namespace can be loaded with stated dependencies ... OK
• checking whether the namespace can be unloaded cleanly ... OK
• checking loading without being on the library search path ... OK
• checking use of S3 registration ... OK
• checking dependencies in R code ... OK
• checking S3 generic/method consistency ... OK
• checking replacement functions ... OK
• checking foreign function calls ... OK
• checking R code for possible problems ... NOTE
  backfit.cox.interaction: no visible global function definition for
    ‘coxph’
  backfit.lm.interaction: no visible global function definition for ‘lm’
  backfit.logistic.interaction: no visible global function definition for
    ‘glm’
  backfit.logistic.main: no visible global function definition for ‘glm’
  cox.interaction: no visible global function definition for ‘coxph’
  cv.cox.interaction: no visible global function definition for ‘coxph’
  cv.cox.main: no visible global function definition for ‘coxph’
  cv.lm.interaction: no visible global function definition for ‘lm’
  cv.lm.main: no visible global function definition for ‘lm’
  cv.logistic.interaction: no visible global function definition for
    ‘glm’
  cv.logistic.main: no visible global function definition for ‘glm’
  lm.interaction: no visible global function definition for ‘lm’
  logistic.interaction: no visible global function definition for ‘glm’
  logistic.main: no visible global function definition for ‘glm’
  Undefined global functions or variables:
    coxph glm lm
  Consider adding
    importFrom("stats", "glm", "lm")
  to your NAMESPACE file.
• checking Rd files ... OK
• checking Rd metadata ... OK
• checking Rd line widths ... NOTE
  Rd file 'cox.interaction.Rd':
    \examples lines wider than 100 characters:
       ## compute the index based on the 2nd model of the sequence using new data xx, and compare the result with the true index
  
  Rd file 'cox.main.Rd':
    \examples lines wider than 100 characters:
       ## compute the index based on the 2nd model of the sequence using new data xx, and compare the result with the true index
  
  Rd file 'cv.cox.interaction.Rd':
    \usage lines wider than 90 characters:
       cv.cox.interaction(x, trt, y, status, K.cv=5, num.replicate=1, nsteps, mincut=0.1, backfit=F, maxnumcut=1, dirp=0)
  
  Rd file 'cv.cox.main.Rd':
    \usage lines wider than 90 characters:
       cv.cox.main(x, y, status, K.cv=5, num.replicate=1, nsteps, mincut=0.1, backfit=F, maxnumcut=1, dirp=0)
  
  Rd file 'cv.lm.interaction.Rd':
    \usage lines wider than 90 characters:
       cv.lm.interaction(x, trt, y, K.cv=5, num.replicate=1, nsteps, mincut=0.1, backfit=F, maxnumcut=1, dirp=0)
  
  Rd file 'cv.lm.main.Rd':
    \usage lines wider than 90 characters:
       cv.lm.main(x, y, K.cv=5, num.replicate=1, nsteps, mincut=0.1, backfit=F, maxnumcut=1, dirp=0)
  
  Rd file 'cv.logistic.interaction.Rd':
    \usage lines wider than 90 characters:
       cv.logistic.interaction(x, trt, y, K.cv=5, num.replicate=1, nsteps, mincut=0.1, backfit=F, maxnumcut=1, dirp=0, weight=1)
  
  Rd file 'cv.logistic.main.Rd':
    \usage lines wider than 90 characters:
       cv.logistic.main(x, y, K.cv=5, num.replicate=1, nsteps, mincut=0.1, backfit=F, maxnumcut=1, dirp=0, weight=1)
  
  Rd file 'index.prediction.Rd':
    \examples lines wider than 100 characters:
       ## compute the index based on the 2nd model of the sequence using new data xx, and compare the result with the true index
  
  Rd file 'lm.interaction.Rd':
    \examples lines wider than 100 characters:
       ## compute the index based on the 2nd model of the sequence using new data xx, and compare the result with the true index
  
  Rd file 'lm.main.Rd':
    \examples lines wider than 100 characters:
       ## compute the index based on the 2nd model of the sequence using new data xx, and compare the result with the true index
  
  Rd file 'logistic.interaction.Rd':
    \usage lines wider than 90 characters:
       logistic.interaction(x, trt, y, nsteps=8, mincut=.1, backfit=F, maxnumcut=1, dirp=0, weight=1)
    \examples lines wider than 100 characters:
       ## compute the index based on the 2nd model of the sequence using new data xx, and compare the result with the true index
  
  Rd file 'logistic.main.Rd':
    \examples lines wider than 100 characters:
       ## compute the index based on the 2nd model of the sequence using new data xx, and compare the result with the true index
  
  These lines will be truncated in the PDF manual.
• checking Rd cross-references ... OK
• checking for missing documentation entries ... OK
• checking for code/documentation mismatches ... OK
• checking Rd \usage sections ... OK
• checking Rd contents ... OK
• checking for unstated dependencies in examples ... OK
• checking examples ... [23s/23s] OK
• checking PDF version of manual ... OK
• DONE

Status: 4 NOTEs