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### Running command:
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###   /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:Rgraphviz.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings Rgraphviz_2.48.0.tar.gz
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* using log directory ‘/Users/biocbuild/bbs-3.19-bioc/meat/Rgraphviz.Rcheck’
* using R version 4.4.0 (2024-04-24)
* 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 ‘Rgraphviz/DESCRIPTION’ ... OK
* this is package ‘Rgraphviz’ version ‘2.48.0’
* 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 ‘Rgraphviz’ can be installed ... WARNING
Found the following significant warnings:
  checking if assert needs __eprintf... clang: warning: argument unused during compilation: '-L/opt/R/x86_64/lib' [-Wunused-command-line-argument]
  clang: warning: argument unused during compilation: '-L/Users/biocbuild/bbs-3.19-bioc/meat/Rgraphviz/src/libunix/lib' [-Wunused-command-line-argument]
  attribs.c:240:7: warning: explicitly assigning value of variable of type 'Agraph_t *' (aka 'struct Agraph_t *') to itself [-Wself-assign]
  edge.c:271:10: warning: explicitly assigning value of variable of type 'Agdict_t *' (aka 'struct Agdict_t *') to itself [-Wself-assign]
  lexer.c:147:12: warning: returning 'unsigned char *' from a function with result type 'char *' converts between pointers to integer types where one is of the unique plain 'char' type and the other is not [-Wpointer-sign]
  lexer.c:435:26: warning: passing 'char *' to parameter of type 'unsigned char *' converts between pointers to integer types where one is of the unique plain 'char' type and the other is not [-Wpointer-sign]
  lexer.c:435:34: warning: passing 'char *' to parameter of type 'unsigned char *' converts between pointers to integer types where one is of the unique plain 'char' type and the other is not [-Wpointer-sign]
  node.c:138:10: warning: explicitly assigning value of variable of type 'Agdict_t *' (aka 'struct Agdict_t *') to itself [-Wself-assign]
  cvt.c:276:13: warning: function 'append_bezier' is not needed and will not be emitted [-Wunneeded-internal-declaration]
  ortho.c:474:7: warning: using integer absolute value function 'abs' when argument is of floating point type [-Wabsolute-value]
  ortho.c:474:28: warning: using integer absolute value function 'abs' when argument is of floating point type [-Wabsolute-value]
  ortho.c:504:7: warning: using integer absolute value function 'abs' when argument is of floating point type [-Wabsolute-value]
  ortho.c:504:28: warning: using integer absolute value function 'abs' when argument is of floating point type [-Wabsolute-value]
  shapes.c:758:15: warning: using integer absolute value function 'abs' when argument is of floating point type [-Wabsolute-value]
  shapes.c:758:38: warning: using integer absolute value function 'abs' when argument is of floating point type [-Wabsolute-value]
  shapes.c:1253:12: warning: explicitly assigning value of variable of type 'double' to itself [-Wself-assign]
  shapes.c:1261:12: warning: explicitly assigning value of variable of type 'double' to itself [-Wself-assign]
  gvevent.c:546:9: warning: using integer absolute value function 'abs' when argument is of floating point type [-Wabsolute-value]
  gvevent.c:546:30: warning: using integer absolute value function 'abs' when argument is of floating point type [-Wabsolute-value]
  class2.c:53:10: warning: explicitly assigning value of variable of type 'edge_t *' (aka 'struct Agedge_t *') to itself [-Wself-assign]
  adjust.c:674:30: warning: variable 'nedge_nodes' is uninitialized when used here [-Wuninitialized]
  neatoinit.c:744:45: warning: using integer absolute value function 'abs' when argument is of floating point type [-Wabsolute-value]
  neatoinit.c:744:74: warning: using integer absolute value function 'abs' when argument is of floating point type [-Wabsolute-value]
  stress.c:1383:15: warning: using integer absolute value function 'abs' when argument is of floating point type [-Wabsolute-value]
  stress.c:1383:6: warning: variable 'delta' is uninitialized when used here [-Wuninitialized]
  spring_electrical.c:287:10: warning: explicitly assigning value of variable of type 'double' to itself [-Wself-assign]
  spring_electrical.c:1308:16: warning: use of unary operator that may be intended as compound assignment (-=)
  spring_electrical.c:1548:16: warning: use of unary operator that may be intended as compound assignment (-=)
See ‘/Users/biocbuild/bbs-3.19-bioc/meat/Rgraphviz.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 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 whether startup messages can be suppressed ... OK
* checking dependencies in R code ... NOTE
There are ::: calls to the package's namespace in its code. A package
  almost never needs to use ::: for its own objects:
  ‘.graphviz_build_version’
* 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 ... 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 line endings in shell scripts ... OK
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking line endings in Makefiles ... OK
* checking compilation flags in Makevars ... OK
* checking for GNU extensions in Makefiles ... OK
* checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
* checking use of PKG_*FLAGS in Makefiles ... OK
* checking include directives in Makefiles ... OK
* checking compiled code ... WARNING
Note: information on .o files is not available
File ‘/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/Rgraphviz/libs/Rgraphviz.so’:
  Found ‘___assert_rtn’, possibly from ‘assert’ (C)
  Found ‘___sprintf_chk’, possibly from ‘sprintf’ (C)
  Found ‘___stderrp’, possibly from ‘stderr’ (C)
  Found ‘___stdoutp’, possibly from ‘stdout’ (C)
  Found ‘_abort’, possibly from ‘abort’ (C)
  Found ‘_exit’, possibly from ‘exit’ (C)
  Found ‘_printf’, possibly from ‘printf’ (C)
  Found ‘_putchar’, possibly from ‘putchar’ (C)
  Found ‘_puts’, possibly from ‘printf’ (C), ‘puts’ (C)
  Found ‘_rand’, possibly from ‘rand’ (C)
  Found ‘_sprintf’, possibly from ‘sprintf’ (C)
  Found ‘_srand’, possibly from ‘srand’ (C)
  Found ‘_srand48’, possibly from ‘srand48’ (C)

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
* 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: 2 WARNINGs, 1 NOTE
See
  ‘/Users/biocbuild/bbs-3.19-bioc/meat/Rgraphviz.Rcheck/00check.log’
for details.