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### Running command:
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###   /home/biocbuild/bbs-3.20-bioc/R/bin/R CMD check --install=check:HMP2Data.install-out.txt --library=/home/biocbuild/bbs-3.20-bioc/R/site-library --timings HMP2Data_1.20.0.tar.gz
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* using log directory ‘/home/biocbuild/bbs-3.20-data-experiment/meat/HMP2Data.Rcheck’
* using R version 4.4.2 (2024-10-31)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
    gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
    GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
* running under: Ubuntu 24.04.1 LTS
* using session charset: UTF-8
* checking for file ‘HMP2Data/DESCRIPTION’ ... OK
* this is package ‘HMP2Data’ version ‘1.20.0’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ...Warning: unable to access index for repository https://CRAN.R-project.org/src/contrib:
  cannot open URL 'https://CRAN.R-project.org/src/contrib/PACKAGES'
 OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘HMP2Data’ can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking ‘build’ directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... NOTE
File
  LICENSE
is not mentioned in the DESCRIPTION file.
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code 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 ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... NOTE
IBD16S: no visible global function definition for ‘data’
IBD16S: no visible binding for global variable ‘IBD16S_mtx’
IBD16S: no visible binding for global variable ‘IBD16S_samp’
IBD16S: no visible binding for global variable ‘IBD16S_tax’
T2D16S: no visible global function definition for ‘data’
T2D16S: no visible binding for global variable ‘T2D16S_mtx’
T2D16S: no visible binding for global variable ‘T2D16S_samp’
T2D16S: no visible binding for global variable ‘T2D16S_tax’
momspi16S: no visible global function definition for ‘data’
momspi16S: no visible binding for global variable ‘momspi16S_mtx’
momspi16S: no visible binding for global variable ‘momspi16S_samp’
momspi16S: no visible binding for global variable ‘momspi16S_tax’
momspiCytokines: no visible global function definition for ‘data’
momspiCytokines: no visible binding for global variable
  ‘momspiCyto_mtx’
momspiCytokines: no visible binding for global variable
  ‘momspiCyto_samp’
momspiMultiAssay: no visible global function definition for ‘data’
momspiMultiAssay: no visible binding for global variable ‘file_name’
momspiMultiAssay: no visible binding for global variable
  ‘momspi16S_mtx’
momspiMultiAssay: no visible binding for global variable
  ‘momspiCyto_mtx’
patient_table: no visible binding for global variable ‘.’
table_two: no visible binding for global variable ‘.’
visit_table : <anonymous>: no visible global function definition for
  ‘quantile’
visit_table: no visible binding for global variable ‘.’
Undefined global functions or variables:
  . IBD16S_mtx IBD16S_samp IBD16S_tax T2D16S_mtx T2D16S_samp T2D16S_tax
  data file_name momspi16S_mtx momspi16S_samp momspi16S_tax
  momspiCyto_mtx momspiCyto_samp quantile
Consider adding
  importFrom("stats", "quantile")
  importFrom("utils", "data")
to your NAMESPACE file.
* checking Rd files ... 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 data for ASCII and uncompressed saves ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘testthat.R’
 OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking re-building of vignette outputs ... OK
* checking PDF version of manual ... OK
* DONE

Status: 2 NOTEs
See
  ‘/home/biocbuild/bbs-3.20-data-experiment/meat/HMP2Data.Rcheck/00check.log’
for details.