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### Running command:
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###   F:\biocbuild\bbs-3.20-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:BiRewire.install-out.txt --library=F:\biocbuild\bbs-3.20-bioc\R\library --no-vignettes --timings BiRewire_3.37.0.tar.gz
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* using log directory 'F:/biocbuild/bbs-3.20-bioc/meat/BiRewire.Rcheck'
* using R version 4.4.0 RC (2024-04-16 r86468 ucrt)
* using platform: x86_64-w64-mingw32
* R was compiled by
    gcc.exe (GCC) 13.2.0
    GNU Fortran (GCC) 13.2.0
* running under: Windows Server 2022 x64 (build 20348)
* using session charset: UTF-8
* using option '--no-vignettes'
* checking for file 'BiRewire/DESCRIPTION' ... OK
* this is package 'BiRewire' version '3.37.0'
* 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 whether package 'BiRewire' can be installed ... WARNING
Found the following significant warnings:
  BiRewire.c:149:35: warning: format '%d' expects argument of type 'int', but argument 2 has type 'time_t' {aka 'long long int'} [-Wformat=]
  BiRewire.c:221:51: warning: format '%d' expects argument of type 'int', but argument 2 has type 'time_t' {aka 'long long int'} [-Wformat=]
  BiRewire.c:229:35: warning: format '%d' expects argument of type 'int', but argument 2 has type 'time_t' {aka 'long long int'} [-Wformat=]
  BiRewire.c:280:35: warning: format '%d' expects argument of type 'int', but argument 2 has type 'time_t' {aka 'long long int'} [-Wformat=]
  BiRewire.c:332:51: warning: format '%d' expects argument of type 'int', but argument 2 has type 'time_t' {aka 'long long int'} [-Wformat=]
  BiRewire.c:339:35: warning: format '%d' expects argument of type 'int', but argument 2 has type 'time_t' {aka 'long long int'} [-Wformat=]
  BiRewire.c:402:35: warning: format '%d' expects argument of type 'int', but argument 2 has type 'time_t' {aka 'long long int'} [-Wformat=]
  BiRewire.c:454:51: warning: format '%d' expects argument of type 'int', but argument 2 has type 'time_t' {aka 'long long int'} [-Wformat=]
  BiRewire.c:461:35: warning: format '%d' expects argument of type 'int', but argument 2 has type 'time_t' {aka 'long long int'} [-Wformat=]
  BiRewire.c:588:35: warning: format '%d' expects argument of type 'int', but argument 2 has type 'time_t' {aka 'long long int'} [-Wformat=]
  BiRewire.c:652:51: warning: format '%d' expects argument of type 'int', but argument 2 has type 'time_t' {aka 'long long int'} [-Wformat=]
  BiRewire.c:737:35: warning: format '%d' expects argument of type 'int', but argument 2 has type 'time_t' {aka 'long long int'} [-Wformat=]
  BiRewire.c:844:35: warning: format '%d' expects argument of type 'int', but argument 2 has type 'time_t' {aka 'long long int'} [-Wformat=]
  BiRewire.c:893:51: warning: format '%d' expects argument of type 'int', but argument 2 has type 'time_t' {aka 'long long int'} [-Wformat=]
  BiRewire.c:962:35: warning: format '%d' expects argument of type 'int', but argument 2 has type 'time_t' {aka 'long long int'} [-Wformat=]
  BiRewire.c:1066:30: warning: suggest parentheses around comparison in operand of '&' [-Wparentheses]
  BiRewire.c:1096:35: warning: format '%d' expects argument of type 'int', but argument 2 has type 'time_t' {aka 'long long int'} [-Wformat=]
  BiRewire.c:1144:51: warning: format '%d' expects argument of type 'int', but argument 2 has type 'time_t' {aka 'long long int'} [-Wformat=]
  BiRewire.c:1149:30: warning: suggest parentheses around comparison in operand of '&' [-Wparentheses]
  BiRewire.c:1183:35: warning: format '%d' expects argument of type 'int', but argument 2 has type 'time_t' {aka 'long long int'} [-Wformat=]
  interface.c:105:25: warning: too many arguments for format [-Wformat-extra-args]
  interface.c:147:25: warning: too many arguments for format [-Wformat-extra-args]
  interface.c:252:25: warning: too many arguments for format [-Wformat-extra-args]
  interface.c:296:25: warning: too many arguments for format [-Wformat-extra-args]
See 'F:/biocbuild/bbs-3.20-bioc/meat/BiRewire.Rcheck/00install.out' for details.
* used C compiler: 'gcc.exe (GCC) 13.2.0'
* 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 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 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
birewire.analysis.bipartite: no visible binding for global variable
  'sd'
birewire.analysis.bipartite: no visible global function definition for
  'qt'
birewire.analysis.bipartite: no visible global function definition for
  'par'
birewire.analysis.bipartite: no visible global function definition for
  'polygon'
birewire.analysis.bipartite: no visible global function definition for
  'lines'
birewire.analysis.bipartite: no visible global function definition for
  'abline'
birewire.analysis.bipartite: no visible global function definition for
  'legend'
birewire.analysis.dsg: no visible global function definition for
  'dev.off'
birewire.analysis.dsg: no visible binding for global variable 'sd'
birewire.analysis.dsg: no visible global function definition for 'qt'
birewire.analysis.dsg: no visible global function definition for
  'polygon'
birewire.analysis.dsg: no visible global function definition for
  'lines'
birewire.analysis.dsg: no visible global function definition for
  'abline'
birewire.analysis.dsg: no visible global function definition for
  'legend'
birewire.analysis.undirected: no visible binding for global variable
  'sd'
birewire.analysis.undirected: no visible global function definition for
  'qt'
birewire.analysis.undirected: no visible global function definition for
  'par'
birewire.analysis.undirected: no visible global function definition for
  'polygon'
birewire.analysis.undirected: no visible global function definition for
  'lines'
birewire.analysis.undirected: no visible global function definition for
  'abline'
birewire.analysis.undirected: no visible global function definition for
  'legend'
birewire.load.dsg: no visible global function definition for
  'read.table'
birewire.sampler.bipartite: no visible global function definition for
  'write.table'
birewire.sampler.undirected: no visible global function definition for
  'write.table'
birewire.save.dsg: no visible global function definition for
  'write.table'
birewire.visual.monitoring.bipartite: no visible global function
  definition for 'par'
birewire.visual.monitoring.bipartite: no visible global function
  definition for 'colorRampPalette'
birewire.visual.monitoring.bipartite: no visible global function
  definition for 'text'
birewire.visual.monitoring.dsg: no visible global function definition
  for 'par'
birewire.visual.monitoring.dsg: no visible global function definition
  for 'colorRampPalette'
birewire.visual.monitoring.dsg: no visible global function definition
  for 'text'
birewire.visual.monitoring.undirected: no visible global function
  definition for 'par'
birewire.visual.monitoring.undirected: no visible global function
  definition for 'colorRampPalette'
birewire.visual.monitoring.undirected: no visible global function
  definition for 'text'
Undefined global functions or variables:
  abline colorRampPalette dev.off legend lines par polygon qt
  read.table sd text write.table
Consider adding
  importFrom("grDevices", "colorRampPalette", "dev.off")
  importFrom("graphics", "abline", "legend", "lines", "par", "polygon",
             "text")
  importFrom("stats", "qt", "sd")
  importFrom("utils", "read.table", "write.table")
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 line endings in C/C++/Fortran sources/headers ... OK
* checking compiled code ... NOTE
Note: information on .o files for x64 is not available
File 'F:/biocbuild/bbs-3.20-bioc/R/library/BiRewire/libs/x64/BiRewire.dll':
  Found '_exit', possibly from '_exit' (C)
  Found 'abort', possibly from 'abort' (C), 'runtime' (Fortran)

Compiled code should not call entry points which might terminate R nor
write to stdout/stderr instead of to the console, nor use Fortran I/O
nor system RNGs nor [v]sprintf. The detected symbols are linked into
the code but might come from libraries and not actually be called.

See 'Writing portable packages' in the 'Writing R Extensions' manual.
* checking sizes of PDF files under 'inst/doc' ... OK
* checking files in 'vignettes' ... OK
* checking examples ... OK
Examples with CPU (user + system) or elapsed time > 5s
                                       user system elapsed
birewire.analysis.undirected          58.75   0.05   58.81
birewire.visual.monitoring.dsg        19.28   0.36   19.94
birewire.visual.monitoring.undirected  6.15   0.93    7.10
* 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: 1 WARNING, 2 NOTEs
See
  'F:/biocbuild/bbs-3.20-bioc/meat/BiRewire.Rcheck/00check.log'
for details.