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### Running command:
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###   /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:SCArray.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings SCArray_1.11.0.tar.gz
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* using log directory ‘/Users/biocbuild/bbs-3.19-bioc/meat/SCArray.Rcheck’
* using R Under development (unstable) (2024-01-16 r85808)
* using platform: x86_64-apple-darwin20
* R was compiled by
    Apple clang version 14.0.0 (clang-1400.0.29.202)
    GNU Fortran (GCC) 12.2.0
* running under: macOS Monterey 12.7.1
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘SCArray/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘SCArray’ version ‘1.11.0’
* 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 hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘SCArray’ can be installed ... WARNING
Found the following significant warnings:
  sc_main.cpp:38:33: warning: format string is not a string literal (potentially insecure) [-Wformat-security]
  sc_main.cpp:44:12: warning: format string is not a string literal (potentially insecure) [-Wformat-security]
  sc_main.cpp:46:12: warning: format string is not a string literal (potentially insecure) [-Wformat-security]
  sc_main.cpp:80:53: warning: format string is not a string literal (potentially insecure) [-Wformat-security]
  sc_main.cpp:116:48: warning: format string is not a string literal (potentially insecure) [-Wformat-security]
  sc_main.cpp:121:48: warning: format string is not a string literal (potentially insecure) [-Wformat-security]
See ‘/Users/biocbuild/bbs-3.19-bioc/meat/SCArray.Rcheck/00install.out’ for details.
* used C++ compiler: ‘Apple clang version 14.0.0 (clang-1400.0.29.202)’
* used SDK: ‘MacOSX11.3.sdk’
* 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 dependencies in R code ... NOTE
Unexported objects imported by ':::' calls:
  ‘DelayedArray:::.get_ans_type’ ‘DelayedArray:::get_Nindex_lengths’
  ‘DelayedArray:::stash_DelayedUnaryIsoOpStack’ ‘gdsfmt:::.reopen’
  See the note in ?`:::` about the use of this operator.
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... WARNING
Missing link or links in Rd file 'SCArray-stats.rd':
  ‘DelayedMatrix-utils’

See section 'Cross-references' in the 'Writing R Extensions' manual.
* checking for missing documentation entries ... WARNING
Undocumented S4 methods:
  generic 'crossprod' and siglist 'ANY,SC_GDSMatrix'
  generic 'crossprod' and siglist 'SC_GDSMatrix,ANY'
  generic 'crossprod' and siglist 'SC_GDSMatrix,missing'
  generic 'tcrossprod' and siglist 'ANY,SC_GDSMatrix'
  generic 'tcrossprod' and siglist 'SC_GDSMatrix,ANY'
  generic 'tcrossprod' and siglist 'SC_GDSMatrix,missing'
All user-level objects in a package (including S4 classes and methods)
should have documentation entries.
See chapter ‘Writing R documentation files’ in the ‘Writing R
Extensions’ manual.
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking compiled code ... NOTE
Note: information on .o files is not available
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘runTests.R’
 OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: 3 WARNINGs, 2 NOTEs
See
  ‘/Users/biocbuild/bbs-3.19-bioc/meat/SCArray.Rcheck/00check.log’
for details.