• using R version 4.1.0 (2021-05-18)
• using platform: x86_64-apple-darwin17.0 (64-bit)
• using session charset: UTF-8
• checking for file ‘phylosamp/DESCRIPTION’ ... OK
• checking extension type ... Package
• this is package ‘phylosamp’ version ‘0.1.6’
• package encoding: UTF-8
• checking package namespace information ... OK
• 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 ‘phylosamp’ can be installed ... [2s/2s] OK
• checking installed package size ... OK
• checking package directory ... OK
• checking ‘build’ directory ... OK
• checking DESCRIPTION meta-information ... OK
• 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 dependencies in R code ... NOTE
  Namespaces in Imports field not imported from:
    ‘RColorBrewer’ ‘cowplot’ ‘ggplot2’ ‘reshape2’
    All declared Imports should be used.
• checking S3 generic/method consistency ... OK
• checking replacement functions ... OK
• checking foreign function calls ... OK
• checking R code for possible problems ... [2s/2s] OK
• checking Rd files ... [0s/0s] OK
• checking Rd metadata ... OK
• 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 contents of ‘data’ directory ... OK
• checking data for non-ASCII characters ... OK
• checking LazyData ... OK
• checking data for ASCII and uncompressed saves ... OK
• checking installed files from ‘inst/doc’ ... OK
• checking files in ‘vignettes’ ... OK
• checking examples ... [1s/1s] OK
• checking for unstated dependencies in ‘tests’ ... OK
• checking tests ... [12s/12s] OK
    Running ‘test-exp_links.R’ [1s/1s]
    Running ‘test-falsediscoveryrate.R’ [1s/1s]
    Running ‘test-gen_dists.R’ [1s/1s]
    Running ‘test-get_optim_roc.R’ [1s/1s]
    Running ‘test-obs_pairs_mtml.R’ [1s/1s]
    Running ‘test-obs_pairs_mtsl.R’ [1s/1s]
    Running ‘test-obs_pairs_stsl.R’ [1s/1s]
    Running ‘test-prob_trans_mtml.R’ [1s/1s]
    Running ‘test-prob_trans_mtsl.R’ [1s/1s]
    Running ‘test-prob_trans_stsl.R’ [1s/1s]
    Running ‘test-samplesize.R’ [1s/1s]
    Running ‘test-sens_spec_calc.R’ [1s/1s]
    Running ‘test-sens_spec_roc.R’ [1s/1s]
    Running ‘test-true_pairs.R’ [1s/1s]
    Running ‘test-true_pairs_mtml.R’ [1s/1s]
    Running ‘test-true_pairs_mtsl.R’ [1s/1s]
    Running ‘test-true_pairs_stsl.R’ [1s/1s]
    Running ‘test-truediscoveryrate.R’ [1s/1s]
• checking for unstated dependencies in vignettes ... OK
• checking package vignettes in ‘inst/doc’ ... OK
• checking running R code from vignettes ... [1s/1s] NONE
    ‘V1_FalseDicoveryRate.Rmd’ using ‘UTF-8’... [0s/0s] OK
    ‘V2_SampleSize.Rmd’ using ‘UTF-8’... [0s/0s] OK
    ‘V3_SensitivitySpecificity.Rmd’ using ‘UTF-8’... [0s/0s] OK
    ‘V4_FullExamples.Rmd’ using ‘UTF-8’... [0s/0s] OK
• checking re-building of vignette outputs ... [6s/7s] OK
• checking PDF version of manual ... OK
• DONE
  Status: 1 NOTE
• using check arguments '--no-clean-on-error '